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Geology, 38(1), 79–82. https://doi.org/10.1130/G30207.1" excluded previously excluded previously excluded "Al Ali, B., Garel, M., Cuny, P., Miquel, J.-C., Toubal, T., Robert, A., & Tamburini, C. (2010). Luminous bacteria in the deep-sea waters near the ANTARES underwater neutrino telescope (Mediterranean Sea). Chemistry and Ecology, 26(1), 57–72. https://doi.org/10.1080/02757540903513766" excluded previously excluded previously excluded "Albertelli, G., Covazzi-Harriague, A., Danovaro, R., Fabiano, M., Fraschetti, S., & Pusceddu, A. (1999). Differential responses of bacteria, meiofauna and macrofauna in a shelf area (Ligurian Sea, NW Mediterranean): Role of food availability. Journal of Sea Research, 42(1), 11–26. https://doi.org/10.1016/S1385-1101(99)00012-X" included included included "Alderkamp, A., Sintes, E., & Herndl, G. (2006). Abundance and activity of major groups of prokaryotic plankton in the coastal North Sea during spring and summer. Aquatic Microbial Ecology, 45, 237–246. https://doi.org/10.3354/ame045237" excluded previously excluded previously excluded "Alexe, M., Serban, G., Baricz, A., Andrei, A.-S., Cristea, A., P. Battes, K., et al. (2017). Limnology and plankton diversity of salt lakes from Transylvanian Basin (Romania): A review. Journal of Limnology, 77(1), 17-34. https://doi.org/10.4081/jlimnol.2017.1657" excluded previously excluded previously excluded "Alfreider, A., & Tartarotti, B. (2019). Spatiotemporal dynamics of different CO2 fixation strategies used by prokaryotes in a dimictic lake. Scientific Reports, 9(1), 15068. https://doi.org/10.1038/s41598-019-51584-0" excluded previously excluded previously excluded "Aller, J. Y., & Aller, R. C. (2004). Physical disturbance creates bacterial dominance of benthic biological communities in tropical deltaic environments of the Gulf of Papua. Continental Shelf Research, 24, 2395–2416. https://doi.org/10.1016/j.csr.2004.07.015" included included included "Aller, J. Y., & Stupakoff, I. (1996). The distribution and seasonal characteristics of benthic communities on the Amazon shelf as indicators of physical processes. Continental Shelf Research, 16(5–6), 717–751. https://doi.org/10.1016/0278-4343(96)88778-4" included included included "Aller, J. Y., Aller, R. C., & Green, M. A. (2002). Benthic faunal assemblages and carbon supply along the continental shelf/shelf break-slope off Cape Hatteras, North Carolina. Deep-Sea Research II, 49(20), 4599–4625. https://doi.org/10.1016/S0967-0645(02)00131-5" included included included "Aller, J. Y., Alongi, D. M., & Aller, R. C. (2008). Biological indicators of sedimentary dynamics in the central Gulf of Papua: Seasonal and decadal perspectives. Journal of Geophysical Research, 113(F1), F01S08. https://doi.org/10.1029/2007JF000823" excluded previously excluded previously excluded "Almeida, A., Cunha, Â., Fernandes, S., Sobral, P., & Alcântara, F. (2007). Copper effects on bacterial activity of estuarine silty sediments. Estuarine, Coastal and Shelf Science, 73(3–4), 743–752. https://doi.org/10.1016/j.ecss.2007.03.013" included excluded previously excluded "Alongi, D. M., Christoffersen, P., & Tirendi, F. (1993). The influence of forest type on microbial-nutrient relationships in tropical mangrove sediments. Journal of Experimental Marine Biology and Ecology, 171(2), 201–223. https://doi.org/10.1016/0022-0981(93)90004-8" included included included "Alongi, D. M., Christoffersen, P., Tirendi, F., & Robertson, A. I. (1992). The influence of freshwater and material export on sedimentary facies and benthic processes within the Fly Delta and adjacent Gulf of Papua (Papua New Guinea). 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Microbial community diversity and physical–chemical features of the Southwestern Atlantic Ocean. Archives of Microbiology, 197(2), 165–179. https://doi.org/10.1007/s00203-014-1035-6" included excluded previously excluded "Al-Yamani, F., Madhusoodhanan, R., Skryabin, V., & Al-Said, T. (2019). The response of microzooplankton (tintinnid) community to salinity related environmental changes in a hypersaline marine system in the northwestern Arabian Gulf. Deep-Sea Research II, 166, 151–170. https://doi.org/10.1016/j.dsr2.2019.02.005" excluded previously excluded previously excluded "Al-Zaidan, A., Kennedy, H., Jones, D., & Al-Mohanna, S. (2006). Role of microbial mats in Sulaibikhat Bay (Kuwait) mudflat food webs: Evidence from d13C analysis. Marine Ecology Progress Series, 308, 27–36. https://doi.org/10.3354/meps308027" included excluded previously excluded "Amano-Sato, C., Akiyama, S., Uchida, M., Shimada, K., & Utsumi, M. (2013). Archaeal distribution and abundance in water masses of the Arctic Ocean, Pacific sector. Aquatic Microbial Ecology, 69(2), 101–112. https://doi.org/10.3354/ame01624" excluded previously excluded previously excluded "Amaro, T., Luna, G. M., Danovaro, R., Billett, D. S. M., & Cunha, M. R. (2012). High prokaryotic biodiversity associated with gut contents of the holothurian Molpadia musculus from the Nazaré Canyon (NE Atlantic). Deep-Sea Research I, 63, 82–90. https://doi.org/10.1016/j.dsr.2012.01.007" included excluded previously excluded "Anderson, R., Wylezich, C., Glaubitz, S., Labrenz, M., & Jürgens, K. (2013). Impact of protist grazing on a key bacterial group for biogeochemical cycling in Baltic Sea pelagic oxic/anoxic interfaces. Environmental Microbiology, 15(5), 1580–1594. https://doi.org/10.1111/1462-2920.12078" included excluded previously excluded "Andersson, B., Sundbäck, K., Hellman, M., Hallin, S., & Alsterberg, C. (2014). Nitrogen fixation in shallow-water sediments: Spatial distribution and controlling factors. Limnology and Oceanography, 59(6), 1932–1944. https://doi.org/10.4319/lo.2014.59.6.1932" excluded previously excluded previously excluded "Andrei, A.-S., Robeson, M. S., Baricz, A., Coman, C., Muntean, V., Ionescu, A., et al. (2015). Contrasting taxonomic stratification of microbial communities in two hypersaline meromictic lakes. The ISME Journal, 9(12), 2642–2656. https://doi.org/10.1038/ismej.2015.60" excluded previously excluded previously excluded "Angly, F. E., Pantos, O., Morgan, T. C., Rich, V., Tonin, H., Bourne, D. G., et al. (2016). Diuron tolerance and potential degradation by pelagic microbiomes in the Great Barrier Reef lagoon. PeerJ, 4, e1758. https://doi.org/10.7717/peerj.1758" excluded previously excluded previously excluded "Antoshkina, A. (2015). Ooid-stromatolite association as a precursor of bioevents (Silurian, Timan–northern Ural Region). Palaeoworld, 24(1–2), 198–206. https://doi.org/10.1016/j.palwor.2014.11.007" excluded previously excluded previously excluded "Aparicio, F. L., Nieto-Cid, M., Borrull, E., Romero, E., Stedmon, C. A., Sala, M. M., et al. (2015). Microbially-mediated fluorescent organic matter transformations in the deep ocean. Do the chemical precursors matter? Frontiers in Marine Science, 2, 106. https://doi.org/10.3389/fmars.2015.00106" excluded previously excluded previously excluded "Apprill, A., Marlow, H. Q., Martindale, M. Q., & Rappé, M. S. (2009). The onset of microbial associations in the coral Pocillopora meandrina. The ISME Journal, 3(6), 685–699. https://doi.org/10.1038/ismej.2009.3" excluded previously excluded previously excluded "Apprill, A., Marlow, H. Q., Martindale, M. Q., & Rappé, M. S. (2012). Specificity of associations between bacteria and the coral Pocillopora meandrina during early development. Applied and Environmental Microbiology, 78(20), 7467–7475. https://doi.org/10.1128/AEM.01232-12" excluded previously excluded previously excluded "Armitage, A. R., Gonzalez, V. L., & Fong, P. (2009). Decoupling of nutrient and grazer impacts on a benthic estuarine diatom assemblage. Estuarine, Coastal and Shelf Science, 84(3), 375–382. https://doi.org/10.1016/j.ecss.2009.07.001" excluded previously excluded previously excluded "Arndt, H., Hausmann, K., & Wolf, M. (2003). Deep-sea heterotrophic nanoflagellates of the Eastern Mediterranean Sea: Qualitative and quantitative aspects of their pelagic and benthic occurrence. Marine Ecology Progress Series, 256, 45–56. https://doi.org/10.3354/meps256045" excluded previously excluded previously excluded "Arnosti, C. (2015). Contrasting patterns of peptidase activities in seawater and sediments: An example from Arctic fjords of Svalbard. Marine Chemistry, 168, 151–156. https://doi.org/10.1016/j.marchem.2014.09.019" excluded previously excluded previously excluded "Auer, B., Kiertucki, E., & Arndt, H. (2003). Distribution of heterotrophic nano- and microflagellates in sediments of two small mesotrophic lakes. Archiv für Hydrobiologie, 158(1), 127–144. https://doi.org/10.1127/0003-9136/2003/0158-0127" excluded previously excluded previously excluded "Ayala, D. J., Munk, P., Lundgreen, R. B. C., Traving, S. J., Jaspers, C., Jørgensen, T. S., et al. (2018). Gelatinous plankton is important in the diet of European eel (Anguilla anguilla) larvae in the Sargasso Sea. Scientific Reports, 8(1), 6156. https://doi.org/10.1038/s41598-018-24388-x" excluded previously excluded previously excluded "Aylagas, E., Borja, Á., Tangherlini, M., Dell’Anno, A., Corinaldesi, C., Michell, C. T., et al. (2017). A bacterial community-based index to assess the ecological status of estuarine and coastal environments. Marine Pollution Bulletin, 114(2), 679–688. https://doi.org/10.1016/j.marpolbul.2016.10.050" excluded previously excluded previously excluded "Ayton, J., Aislabie, J., Barker, G. M., Saul, D., & Turner, S. (2010). Crenarchaeota affiliated with group 1.1b are prevalent in coastal mineral soils of the Ross Sea region of Antarctica. Environmental Microbiology, 12(3), 689–703. https://doi.org/10.1111/j.1462-2920.2009.02111.x" excluded previously excluded previously excluded "Azúa, I., Goiriena, I., Baña, Z., Iriberri, J., & Unanue, M. (2014). Release and consumption of d-amino acids during growth of marine prokaryotes. Microbial Ecology, 67(1), 1–12. https://doi.org/10.1007/s00248-013-0294-0" excluded previously excluded previously excluded "Azúa, I., Unanue, M., Ayo, B., Artolozaga, I., & Iriberri, J. (2007). Influence of age of aggregates and prokaryotic abundance on glucose and leucine uptake by heterotrophic marine prokaryotes. International Microbiology, 10(1), 13–18. https://doi.org/10.2436/20.1501.01.3" included excluded previously excluded "Azzaro, M., La Ferla, R., Maimone, G., Monticelli, L. S., Zaccone, R., & Civitarese, G. (2012). Prokaryotic dynamics and heterotrophic metabolism in a deep convection site of Eastern Mediterranean Sea (the Southern Adriatic Pit). Continental Shelf Research, 44, 106–118. https://doi.org/10.1016/j.csr.2011.07.011" excluded previously excluded previously excluded "Bacchetti De Gregoris, T., Khandeparker, L., Anil, A. C., Mesbahi, E., Burgess, J. G., & Clare, A. S. (2012). Characterisation of the bacteria associated with barnacle, Balanus amphitrite, shell and their role in gregarious settlement of cypris larvae. Journal of Experimental Marine Biology and Ecology, 413, 7–12. https://doi.org/10.1016/j.jembe.2011.11.014" excluded previously excluded previously excluded "Bachmann, J., Heimbach, T., Hassenrück, C., Kopprio, G. A., Iversen, M. H., Grossart, H. P., & Gärdes, A. (2018). Environmental drivers of free-living vs. particle-attached bacterial community composition in the Mauritania upwelling system. Frontiers in Microbiology, 9, 2836. https://doi.org/10.3389/fmicb.2018.02836" excluded previously excluded previously excluded "Bak, R. P. M., & Nieuwland, G. (1997). Seasonal variation in bacterial and flagellate communities of deep-sea sediments in a monsoonal upwelling system. Deep-Sea Research II, 44(6–7), 1281–1292. https://doi.org/10.1016/S0967-0645(97)00005-2" included included included "Baldi, F., Marchetto, D., Pini, F., Fani, R., Michaud, L., Lo Giudice, A., et al. (2010). Biochemical and microbial features of shallow marine sediments along the Terra Nova Bay (Ross Sea, Antarctica). Continental Shelf Research, 30(15), 1614–1625. https://doi.org/10.1016/j.csr.2010.06.009" included included included "Baldrighi, E., Aliani, S., Conversi, A., Lavaleye, M., Borghini, M., & Manini, E. (2013). From microbes to macrofauna: An integrated study of deep benthic communities and their response to environmental variables along the Malta Escarpment (Ionian Sea). Scientia Marina, 77(4), 625–639. https://doi.org/10.3989/scimar.03811.03b" included included included "Bale, N. J., Villanueva, L., Hopmans, E. C., Schouten, S., & Sinninghe Damsté, J. S. (2013). Different seasonality of pelagic and benthic Thaumarchaeota in the North Sea. Biogeosciences, 10(11), 7195–7206. https://doi.org/10.5194/bg-10-7195-2013" included excluded previously excluded "Baltar, F., Arístegui, J., Gasol, J. M., Hernández-León, S., & Herndl, G. (2007). Strong coast–ocean and surface–depth gradients in prokaryotic assemblage structure and activity in a coastal transition zone region. Aquatic Microbial Ecology, 50, 63–74. https://doi.org/10.3354/ame01156" excluded previously excluded previously excluded "Baltar, F., Arístegui, J., Sintes, E., van Aken, H. M., Gasol, J. M., & Herndl, G. J. (2009). Prokaryotic extracellular enzymatic activity in relation to biomass production and respiration in the meso- and bathypelagic waters of the (sub)tropical Atlantic. Environmental Microbiology, 11(8), 1998–2014. https://doi.org/10.1111/j.1462-2920.2009.01922.x" excluded previously excluded previously excluded "Barbato, R. A., Foley, K. L., Toro-Zapata, J. A., Jones, R. M., & Reynolds, C. M. (2017). The power of soil microbes: Sustained power production in terrestrial microbial fuel cells under various temperature regimes. Applied Soil Ecology, 109, 14–22. https://doi.org/10.1016/j.apsoil.2016.10.001" excluded previously excluded previously excluded "Bar-On, Y. M., Phillips, R., & Milo, R. (2018). The biomass distribution on Earth. Proceedings of the National Academy of Sciences, 115(25), 6506–6511. https://doi.org/10.1073/pnas.1711842115" included excluded previously excluded "Barone, B., Coenen, A. R., Beckett, S. J., McGillicuddy, D. J., Weitz, J. S., & Karl, D. M. (2019). The ecological and biogeochemical state of the North Pacific Subtropical Gyre is linked to sea surface height. Journal of Marine Research, 77(2), 215–245. https://doi.org/10.1357/002224019828474241" excluded previously excluded previously excluded "Barros Chiaramonte, J. , Roberto, M. do C., & Pagioro, T. A. (2013). Seasonal dynamics and community structure of bacterioplankton in upper Paraná river floodplain. Microbial Ecology, 66(4), 773–783. https://doi.org/10.1007/s00248-013-0292-2" included excluded previously excluded "Bartoli, M., Vezzulli, L., Nizzoli, D., Azzoni, R., Porrello, S., Moreno, M., et al. (2009). Short-term effect of oxic to anoxic transition on benthic microbial activity and solute fluxes in organic-rich phytotreatment ponds. In Eutrophication in Coastal Ecosystems (pp. 123–136). Dordrecht: Springer Netherlands. https://doi.org/10.1007/978-90-481-3385-7_11" excluded previously excluded previously excluded "Baudoux, A.-C., Veldhuis, M. J. W., Witte, H. J., & Brussaard, C. P. D. (2007). Viruses as mortality agents of picophytoplankton in the deep chlorophyll maximum layer during IRONAGES III. Limnology and Oceanography, 52(6), 2519–2529. https://doi.org/10.4319/lo.2007.52.6.2519" excluded previously excluded previously excluded "Baustian, M. M., Rabalais, N. N., Morrison, W. L., & Turner, R. E. (2013). Microphytobenthos along the Louisiana continental shelf during mid-summer hypoxia. Continental Shelf Research, 52, 108–118. https://doi.org/10.1016/j.csr.2012.10.014" excluded previously excluded previously excluded "Bayer, B., Pelikan, C., Bittner, M. J., Reinthaler, T., Könneke, M., Herndl, G. J., & Offre, P. (2019). Proteomic response of three marine ammonia-oxidizing Archaea to hydrogen peroxide and their metabolic interactions with a heterotrophic alphaproteobacterium. MSystems, 4, 4. https://doi.org/10.1128/mSystems.00181-19" excluded previously excluded previously excluded "Bayer, K., Jahn, M. T., Slaby, B. M., Moitinho-Silva, L., & Hentschel, U. (2018). Marine sponges as Chloroflexi hot spots: Genomic insights and high-resolution visualization of an abundant and diverse symbiotic clade. MSystems, 3(6). https://doi.org/10.1128/mSystems.00150-18" excluded previously excluded previously excluded "Bayer, T., Arif, C., Ferrier-Pagès, C., Zoccola, D., Aranda, M., & Voolstra, C. (2013). Bacteria of the genus Endozoicomonas dominate the microbiome of the Mediterranean gorgonian coral Eunicella cavolini. Marine Ecology Progress Series, 479, 75–84. https://doi.org/10.3354/meps10197" excluded previously excluded previously excluded "Beardsley, C., Moss, S. M., & Azam, F. (2008). Effect of storage temperature on prokaryotic cell counts and community composition analysis from fixed and filtered seawater samples. Helgoland Marine Research, 62(2), 123–127. https://doi.org/10.1007/s10152-007-0080-9" excluded previously excluded previously excluded "Becerro, M. A. (2008). Quantitative trends in sponge ecology research. Marine Ecology, 29(2), 167–177. https://doi.org/10.1111/j.1439-0485.2008.00234.x" excluded previously excluded previously excluded "Becker, C., Hughen, K., Mincer, T., Ossolinski, J., Weber, L., & Apprill, A. (2017). Impact of prawn farming effluent on coral reef water nutrients and microorganisms. Aquaculture Environment Interactions, 9, 331–346. https://doi.org/10.3354/aei00238" excluded previously excluded previously excluded "Becker, J. W., Hogle, S. L., Rosendo, K., & Chisholm, S. W. (2019). Co-culture and biogeography of Prochlorococcus and SAR11. The ISME Journal, 13(6), 1506–1519. https://doi.org/10.1038/s41396-019-0365-4" excluded previously excluded previously excluded "Behera, P., Mohapatra, M., Kim, J. Y., & Rastogi, G. (2020). Benthic archaeal community structure and carbon metabolic profiling of heterotrophic microbial communities in brackish sediments. Science of the total Environment, 706, 135709. https://doi.org/10.1016/j.scitotenv.2019.135709" included excluded previously excluded "Beier, S., Rivers, A. R., Moran, M. A., & Obernosterer, I. (2015). The transcriptional response of prokaryotes to phytoplankton-derived dissolved organic matter in seawater. Environmental Microbiology, 17(10), 3466–3480. https://doi.org/10.1111/1462-2920.12434" excluded previously excluded previously excluded "Belikov, S., Belkova, N., Butina, T., Chernogor, L., Martynova-Van Kley, A., Nalian, A., et al. (2019). Diversity and shifts of the bacterial community associated with Baikal sponge mass mortalities. PLoS ONE, 14(3), e0213926. https://doi.org/10.1371/journal.pone.0213926" excluded previously excluded previously excluded "Bell, J. J., McGrath, E., Biggerstaff, A., Bates, T., Cárdenas, C. A., & Bennett, H. (2015). Global conservation status of sponges. Conservation Biology, 29(1), 42–53. https://doi.org/10.1111/cobi.12447" excluded previously excluded previously excluded "Bellinger, B. J., Gretz, M. R., Domozych, D. S., Kiemle, S. N., & Hagerthey, S. E. (2010). Composition of extracellular polymeric substances from periphyton assemblages in the Florida Everglades. Journal of Phycology, 46(3), 484–496. https://doi.org/10.1111/j.1529-8817.2010.00829.x" excluded previously excluded previously excluded "Belmar, L., Molina, V., & Ulloa, O. (2011). Abundance and phylogenetic identity of archaeoplankton in the permanent oxygen minimum zone of the eastern tropical South Pacific. FEMS Microbiology Ecology, 78(2), 314–326. https://doi.org/10.1111/j.1574-6941.2011.01159.x" excluded previously excluded previously excluded "Ben Said, O., Louati, H., Soltani, A., Preud’homme, H., Cravo-Laureau, C., Got, P., et al. (2015). Changes of benthic bacteria and meiofauna assemblages during bio-treatments of anthracene-contaminated sediments from Bizerta lagoon (Tunisia). Environmental Science and Pollution Research, 22(20), 15319–15331. https://doi.org/10.1007/s11356-015-4105-7" included excluded previously excluded "Benavides, M., & Voss, M. (2015). Five decades of N2 fixation research in the North Atlantic Ocean. Frontiers in Marine Science, 2, 40. https://doi.org/10.3389/fmars.2015.00040" excluded previously excluded previously excluded "Bender, D., Diaz-Pulido, G., & Dove, S. (2014). Warming and acidification promote cyanobacterial dominance in turf algal assemblages. Marine Ecology Progress Series, 517, 271–284. https://doi.org/10.3354/meps11037" excluded previously excluded previously excluded "Bengtsson, M. M., Wagner, K., Schwab, C., Urich, T., & Battin, T. J. (2018). Light availability impacts structure and function of phototrophic stream biofilms across domains and trophic levels. Molecular Ecology, 27(14), 2913–2925. https://doi.org/10.1111/mec.14696" excluded previously excluded previously excluded "Benlloch, S., Lopez-Lopez, A., Casamayor, E. O., Ovreas, L., Goddard, V., Daae, F. L., et al. (2002). Prokaryotic genetic diversity throughout the salinity gradient of a coastal solar saltern. Environmental Microbiology, 4(6), 349–360. https://doi.org/10.1046/j.1462-2920.2002.00306.x" excluded previously excluded previously excluded "Benner, R., & Kaiser, K. (2003). Abundance of amino sugars and peptidoglycan in marine particulate and dissolved organic matter. Limnology and Oceanography, 48(1), 118–128. https://doi.org/10.4319/lo.2003.48.1.0118" excluded previously excluded previously excluded "Beolchini, F., Rocchetti, L., Regoli, F., & Dell’Anno, A. (2010). Bioremediation of marine sediments contaminated by hydrocarbons: Experimental analysis and kinetic modeling. 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Aquatic Microbial Ecology, 64(1), 15–25. https://doi.org/10.3354/ame01504" included excluded previously excluded "Bertics, V. J., & Ziebis, W. (2009). Biodiversity of benthic microbial communities in bioturbated coastal sediments is controlled by geochemical microniches. The ISME Journal, 3(11), 1269–1285. https://doi.org/10.1038/ismej.2009.62" included included included "Besaury, L., Ghiglione, J.-F., & Quillet, L. (2014). Abundance, activity, and diversity of archaeal and bacterial communities in both uncontaminated and highly copper-contaminated marine sediments. Marine Biotechnology, 16(2), 230–242. https://doi.org/10.1007/s10126-013-9542-z" included excluded previously excluded "Besseling, M. A., Hopmans, E. C., Boschman, R. C., Sinninghe Damsté, J. S., & Villanueva, L. (2018). Benthic Archaea as potential sources of tetraether membrane lipids in sediments across an oxygen minimum zone. Biogeosciences, 15(13), 4047–4064. https://doi.org/10.5194/bg-15-4047-2018" included excluded previously excluded "Betcher, M. A., Fung, J. M., Han, A. W., O’Connor, R., Seronay, R., Concepcion, G. P., et al. (2012). Microbial distribution and abundance in the digestive system of five shipworm species (Bivalvia: Teredinidae). PLoS ONE, 7(9), e45309. https://doi.org/10.1371/journal.pone.0045309" excluded previously excluded previously excluded "Bettarel, Y., Bouvier, T., Agis, M., Bouvier, C., Van Chu, T., Combe, M., et al. (2011). Viral distribution and life strategies in the Bach Dang Estuary, Vietnam. Microbial Ecology, 62(1), 143–154. https://doi.org/10.1007/s00248-011-9835-6" excluded previously excluded previously excluded "Bettarel, Y., Bouvier, T., Bouvier, C., Carré, C., Desnues, A., Domaizon, I., et al. (2011). Ecological traits of planktonic viruses and prokaryotes along a full-salinity gradient. FEMS Microbiology Ecology, 76(2), 360–372. https://doi.org/10.1111/j.1574-6941.2011.01054.x" excluded previously excluded previously excluded "Bianchi, A., Tholosan, O., Garcin, J., Polychronaki, T., Tselepides, A., Buscail, R., & Duineveld, G. (2003). Microbial activities at the benthic boundary layer in the Aegean Sea. Progress in Oceanography, 57(2), 219–236. https://doi.org/10.1016/S0079-6611(03)00034-X" included included included "Bik, H. M., Halanych, K. M., Sharma, J., & Thomas, W. K. (2012). Dramatic shifts in benthic microbial eukaryote communities following the Deepwater Horizon oil spill. PLoS ONE, 7(6), e38550. https://doi.org/10.1371/journal.pone.0038550" included excluded previously excluded "Bird, F. L., Boon, P. I., & Nichols, P. D. (2000). Physicochemical and microbial properties of burrows of the deposit-feeding thalassinidean ghost shrimp Biffarius arenosus (Decapoda: Callianassidae). Estuarine, Coastal and Shelf Science, 51(3), 279–291. https://doi.org/10.1006/ecss.2000.0676" excluded previously excluded previously excluded "Birrer, S. C., Dafforn, K. A., Simpson, S. L., Kelaher, B. P., Potts, J., Scanes, P., & Johnston, E. L. (2018). Interactive effects of multiple stressors revealed by sequencing total (DNA) and active (RNA) components of experimental sediment microbial communities. Science of the total Environment, 637–638, 1383–1394. https://doi.org/10.1016/j.scitotenv.2018.05.065" included excluded previously excluded "Blainey, P. C., Mosier, A. C., Potanina, A., Francis, C. A., & Quake, S. R. (2011). Genome of a low-salinity ammonia-oxidizing archaeon determined by single-cell and metagenomic analysis. PLoS ONE, 6(2), e16626. https://doi.org/10.1371/journal.pone.0016626" excluded previously excluded previously excluded "Blanquer, A., Uriz, M. J., Cebrian, E., & Galand, P. E. (2016). Snapshot of a bacterial microbiome shift during the early symptoms of a massive sponge die-off in the Western Mediterranean. Frontiers in Microbiology, 7, 752. https://doi.org/10.3389/fmicb.2016.00752" excluded previously excluded previously excluded "Blumenberg, M., Thiel, V., Riegel, W., Kah, L. C., & Reitner, J. (2012). Biomarkers of black shales formed by microbial mats, Late Mesoproterozoic (1.1Ga) Taoudeni Basin, Mauritania. Precambrian Research, 196–197, 113–127. https://doi.org/10.1016/j.precamres.2011.11.010" excluded previously excluded previously excluded "Böer, S. I., Arnosti, C., van Beusekom, J., & Boetius, A. (2009). Temporal variations in microbial activities and carbon turnover in subtidal sandy sediments. Biogeosciences, 6(7), 1149–1165." included included included "Böer, S. I., Hedtkamp, S. I. C., van Beusekom, J. E. E., Fuhrman, J. A., Boetius, A., & Ramette, A. (2009). Time- and sediment depth-related variations in bacterial diversity and community structure in subtidal sands. The ISME Journal, 3(7), 780–791. https://doi.org/10.1038/ismej.2009.29" included excluded previously excluded "Boetius, A., & Damm, E. (1998). Benthic oxygen uptake, hydrolytic potentials and microbial biomass at the Arctic continental slope. Deep-Sea Research I, 45(2–3), 239–275. https://doi.org/10.1016/S0967-0637(97)00052-6; Boetius, A., & Damm, E. (1999a). Bacteria biomass in surface sediments. PANGAEA. https://doi.org/10.1594/PANGAEA.54521" included included included "Boetius, A., & Damm, E. (1999). Bacterial abundance in surface sediment. PANGAEA. https://doi.org/10.1594/PANGAEA.54520" included included included "Boetius, A., & Lochte, K. (1994). Regulation of microbial enzymatic degradation of organic matter in deep-sea sediments. Marine Ecology Progress Series, 104(3), 299–307. https://doi.org/10.3354/meps104299" included included included "Boetius, A., & Lochte, K. (1996). Effect of organic enrichments on hydrolytic potentials and growth of bacteria in deep-sea sediments. Marine Ecology Progress Series, 140, 239–250. https://doi.org/10.3354/meps140239" excluded previously excluded previously excluded "Boetius, A., Ferdelman, T., & Lochte, K. (2000). Bacterial activity in sediments of the deep Arabian Sea in relation to vertical flux. Deep-Sea Research II, 47(14), 2835–2875. https://doi.org/10.1016/S0967-0645(00)00051-5" included excluded previously excluded "Boetius, A., Scheibej, S., Tselepides, A., Thiel, H., Scheibe, S., Tselepides, A., & Thiel, H. (1996). Microbial biomass and activities in deep-sea sediments of the Eastern Mediterranean: Trenches are benthic hotspots. Deep-Sea Research I, 43(9), 1439–1460. https://doi.org/10.1016/S0967-0637(96)00053-2" included included included "Boeuf, D., Cottrell, M. T., Kirchman, D. L., Lebaron, P., & Jeanthon, C. (2013). Summer community structure of aerobic anoxygenic phototrophic bacteria in the western Arctic Ocean. FEMS Microbiology Ecology, 85(3), 417–432. https://doi.org/10.1111/1574-6941.12130" included excluded previously excluded "Boeuf, D., Lami, R., Cunnington, E., & Jeanthon, C. (2016). Summer abundance and distribution of proteorhodopsin genes in the western Arctic Ocean. Frontiers in Microbiology, 7, 1584. https://doi.org/10.3389/fmicb.2016.01584" excluded previously excluded previously excluded "Bonaglia, S., Rämö, R., Marzocchi, U., Le Bouille, L., Leermakers, M., Nascimento, F. J. A. A., & Gunnarsson, J. S. (2019). Capping with activated carbon reduces nutrient fluxes, denitrification and meiofauna in contaminated sediments. Water Research, 148, 515–525. https://doi.org/10.1016/j.watres.2018.10.083" excluded previously excluded previously excluded "Bong, C. W., & Lee, C. W. (2011). The contribution of heterotrophic nanoflagellate grazing towards bacterial mortality in tropical waters: Comparing estuaries and coastal ecosystems. Marine and Freshwater Research, 62(4), 414. https://doi.org/10.1071/MF10213" excluded previously excluded previously excluded "Bongiorni, L., Armeni, M., Corinaldesi, C., Dell’Anno, A., Pusceddu, A., & Danovaro, R. (2007). Viruses, prokaryotes and biochemical composition of organic matter in different types of mucilage aggregates. Aquatic Microbial Ecology, 49, 15–23. https://doi.org/10.3354/ame01126" excluded previously excluded previously excluded "Bongiorni, L., Mirto, S., Pusceddu, A., & Danovaro, R. (2005). Response of benthic protozoa and thraustochytrid protists to fish farm impact in seagrass (Posidonia oceanica) and soft-bottom sediments. Microbial Ecology, 50(2), 268–276. https://doi.org/10.1007/s00248-004-0117-4" included included included "Borrel, G., Colombet, J., Robin, A., Lehours, A.-C., Prangishvili, D., & Sime-Ngando, T. (2012). Unexpected and novel putative viruses in the sediments of a deep-dark permanently anoxic freshwater habitat. The ISME Journal, 6(11), 2119–2127. https://doi.org/10.1038/ismej.2012.49" excluded previously excluded previously excluded "Borrel, G., Lehours, A.-C., Crouzet, O., Jézéquel, D., Rockne, K., Kulczak, A., et al. (2012). Stratification of Archaea in the deep sediments of a freshwater Meromictic Lake: Vertical shift from methanogenic to uncultured archaeal lineages. PLoS ONE, 7(8), e43346. https://doi.org/10.1371/journal.pone.0043346" excluded previously excluded previously excluded "Bouchard, F., Pienitz, R., Ortiz, J. D., Francus, P., & Laurion, I. (2013). Palaeolimnological conditions inferred from fossil diatom assemblages and derivative spectral properties of sediments in thermokarst ponds of subarctic Quebec, Canada. Boreas, 42(3), 575–595. https://doi.org/10.1111/bor.12000" excluded previously excluded previously excluded "Bougouffa, S., Yang, J. K., Lee, O. O., Wang, Y., Batang, Z., Al-Suwailem, A., & Qian, P. Y. (2013). Distinctive microbial community structure in highly stratified deep-sea brine water columns. Applied and Environmental Microbiology, 79(11), 3425–3437. https://doi.org/10.1128/AEM.00254-13" excluded previously excluded previously excluded "Bowman, J. P., & McCuaig, R. D. (2003). Biodiversity, community structural shifts, and biogeography of prokaryotes within Antarctic continental shelf sediment. Applied and Environmental Microbiology, 69(5), 2463–2483. https://doi.org/10.1128/AEM.69.5.2463-2483.2003" included excluded previously excluded "Bradford, A., Handy, R. D., Readman, J. W., Atfield, A., & Muhling, M. (2009). Impact of silver nanoparticle contamination on the genetic diversity of natural bacterial assemblages in estuarine sediments. Environmental Science & Technology, 43(12), 4530–4536. https://doi.org/10.1021/es9001949" excluded previously excluded previously excluded "Braeckman, U., Janssen, F., Lavik, G., Elvert, M., Marchant, H., Buckner, C., et al. (2018). Carbon and nitrogen turnover in the Arctic deep sea: In situ benthic community response to diatom and coccolithophorid phytodetritus. Biogeosciences, 15(21), 6537–6557. https://doi.org/10.5194/bg-15-6537-2018" excluded previously excluded previously excluded "Bréhéret, J. G., Fourmont, A., Macaire, J. J., & Négrel, P. (2008). Microbially mediated carbonates in the Holocene deposits from Sarliève, a small ancient lake of the French Massif Central, testify to the evolution of a restricted environment. Sedimentology, 55(3), 557–578. https://doi.org/10.1111/j.1365-3091.2007.00912.x" excluded previously excluded previously excluded "Breitburg, D. L., Crump, B. C., Dabiri, J. O., & Gallegos, C. L. (2010). Ecosystem engineers in the pelagic realm: Alteration of habitat by species ranging from microbes to jellyfish. Integrative and Comparative Biology, 50(2), 188–200. https://doi.org/10.1093/icb/icq051" excluded previously excluded previously excluded "Breuker, A., Köweker, G., Blazejak, A., & Schippers, A. (2011). The deep biosphere in terrestrial sediments in the Chesapeake Bay area, Virginia, USA. Frontiers in Microbiology, 2, 156. https://doi.org/10.3389/fmicb.2011.00156" excluded previously excluded previously excluded "Briggs, B. R., Pohlman, J. W., Torres, M., Riedel, M., Brodie, E. L., & Colwell, F. S. (2011). Macroscopic biofilms in fracture-dominated sediment that anaerobically oxidize methane. Applied and Environmental Microbiology, 77(19), 6780–6787. https://doi.org/10.1128/AEM.00288-11" excluded previously excluded previously excluded "Brinkmann, B. W., Vonk, J. A., Beusekom, S. A. M., Ibanez, M., Lucas Pardo, M. A., Noordhuis, R., et al. (2019). Benthic hotspots in the pelagic zone: Light and phosphate availability alter aggregates of microalgae and suspended particles in a shallow turbid lake. Limnology and Oceanography, 64(2), 585–596. https://doi.org/10.1002/lno.11062" excluded previously excluded previously excluded "Brocke, H. J., Piltz, B., Herz, N., Abed, R. M. M., Palinska, K. A., John, U., et al. (2018). Nitrogen fixation and diversity of benthic cyanobacterial mats on coral reefs in Curaçao. Coral Reefs, 37(3), 861–874. https://doi.org/10.1007/s00338-018-1713-y" excluded previously excluded previously excluded "Brodie, J., Williamson, C., Barker, G. L., Walker, R. H., Briscoe, A., & Yallop, M. (2016). Characterising the microbiome of Corallina officinalis, a dominant calcified intertidal red alga. FEMS Microbiology Ecology, 92(8), fiw110. https://doi.org/10.1093/femsec/fiw110" excluded previously excluded previously excluded "Broek, T. A. B., Bour, A. L., Ianiri, H. L., Guilderson, T. P., & McCarthy, M. D. (2019). Amino acid enantiomers in old and young dissolved organic matter: Implications for a microbial nitrogen pump. Geochimica et Cosmochimica Acta, 247, 207–219. https://doi.org/10.1016/j.gca.2018.12.037" excluded previously excluded previously excluded "Brosse, M., Bucher, H., Baud, A., Frisk, Å. M., Goudemand, N., Hagdorn, H., et al. (2019). New data from Oman indicate benthic high biomass productivity coupled with low taxonomic diversity in the aftermath of the Permian-Triassic Boundary mass extinction. Lethaia, 52(2), 165–187. https://doi.org/10.1111/let.12281" excluded previously excluded previously excluded "Brown, M. N., Briones, A., Diana, J., & Raskin, L. (2013). Ammonia-oxidizing archaea and nitrite-oxidizing nitrospiras in the biofilter of a shrimp recirculating aquaculture system. FEMS Microbiology Ecology, 83(1), 17–25. https://doi.org/10.1111/j.1574-6941.2012.01448.x" excluded previously excluded previously excluded "Brown, M. V, Philip, G. K., Bunge, J. A., Smith, M. C., Bissett, A., Lauro, F. M., et al. (2009). Microbial community structure in the North Pacific Ocean. The ISME Journal, 3(12), 1374–1386. https://doi.org/10.1038/ismej.2009.86" included excluded previously excluded "Bruce, T., Meirelles, P. M., Garcia, G., Paranhos, R., Rezende, C. E., de Moura, R. L., et al. (2012). Abrolhos Bank reef health evaluated by means of water quality, microbial diversity, benthic cover, and fish biomass data. PLoS ONE, 7(6), e36687. https://doi.org/10.1371/journal.pone.0036687" excluded previously excluded previously excluded "Burgaud, G., Le Calvez, T., Arzur, D., Vandenkoornhuyse, P., & Barbier, G. (2009). Diversity of culturable marine filamentous fungi from deep-sea hydrothermal vents. Environmental Microbiology, 11(6), 1588–1600. https://doi.org/10.1111/j.1462-2920.2009.01886.x" excluded previously excluded previously excluded "Burkovsky, I. V., Mazei, Y. A., & Esaulov, A. S. (2012). The stability of the species structure of the marine ciliate community to variations in environmental factors: The roles of physiological, population, and cenotic mechanisms. Russian Journal of Marine Biology, 38(1), 43–55. https://doi.org/10.1134/S1063074012010038" excluded previously excluded previously excluded "Burns, C. W., & Galbraith, L. M. (2007). Relating planktonic microbial food web structure in lentic freshwater ecosystems to water quality and land use. Journal of Plankton Research, 29(2), 127–139. https://doi.org/10.1093/plankt/fbm001" excluded previously excluded previously excluded "Burns, C. W., & Stockner, J. G. (1991). Picoplankton in six New Zealand lakes: Abundance in relation to season and trophic state. Internationale Revue der gesamten Hydrobiologie und Hydrographie, 76(4), 523–536. https://doi.org/10.1002/iroh.19910760405" excluded previously excluded previously excluded "Butler, H., & Rogerson, A. (1995). Temporal and spatial abundance of naked Amoebae (Gymnamoebae) in marine benthic sediments of the Clyde Sea Area, Scotland. The Journal of Eukaryotic Microbiology, 42(6), 724–730. https://doi.org/10.1111/j.1550-7408.1995.tb01624.x" excluded previously excluded previously excluded "Butler, H., & Rogerson, A. (1996). Growth potential, production efficiency and annual production of marine benthic naked amoebae (gymnamoebae) inhabiting sediments of the Clyde Sea area, Scotland. Aquatic Microbial Ecology, 10, 123–129. https://doi.org/10.3354/ame010123" excluded previously excluded previously excluded "Cabral, A. S., Lessa, M. M., Junger, P. C., Thompson, F. L., & Paranhos, R. (2017). Virioplankton dynamics are related to eutrophication levels in a tropical urbanized bay. PLoS ONE, 12(3), e0174653. https://doi.org/10.1371/journal.pone.0174653" excluded previously excluded previously excluded "Cadena, S., Aguirre-Macedo, M. L., Cerqueda-García, D., Cervantes, F. J., Herrera-Silveira, J. A., & García-Maldonado, J. Q. (2019). Community structure and distribution of benthic Bacteria and Archaea in a stratified coastal lagoon in the Southern Gulf of Mexico. Estuarine, Coastal and Shelf Science, 230, 106433. https://doi.org/10.1016/j.ecss.2019.106433" included excluded previously excluded "Cai, L., Jørgensen, B. B., Suttle, C. A., He, M., Cragg, B. A., Jiao, N., & Zhang, R. (2019). Active and diverse viruses persist in the deep sub-seafloor sediments over thousands of years. The ISME Journal, 13(7), 1857–1864. https://doi.org/10.1038/s41396-019-0397-9" excluded previously excluded previously excluded "Callieri, C., & Pinolim, M. L. (1995). Picoplankton in Lake Maggiore, Italy. Internationale Revue der gesamten Hydrobiologie und Hydrographie, 80(3), 491–501. https://doi.org/10.1002/iroh.19950800313" excluded previously excluded previously excluded "Callieri, C., Corno, G., Caravati, E., Rasconi, S., Contesini, M., & Bertoni, R. (2009). Bacteria, Archaea, and Crenarchaeota in the epilimnion and hypolimnion of a deep holo-oligomictic lake. Applied and Environmental Microbiology, 75(22), 7298–7300. https://doi.org/10.1128/AEM.01231-09" excluded previously excluded previously excluded "Cammen, L. (1991). Annual bacterial production in relation to benthic microalgal production and sediment oxygen uptake in an intertidal sandflat and an intertidal mudflat. Marine Ecology Progress Series, 71(1), 13–25. https://doi.org/10.3354/meps071013" included excluded previously excluded "Campeão, M. E., Reis, L., Leomil, L., de Oliveira, L., Otsuki, K., Gardinali, P., et al. (2017). The deep-sea microbial community from the Amazonian Basin associated with oil degradation. Frontiers in Microbiology, 8, 1019. https://doi.org/10.3389/fmicb.2017.01019" included excluded previously excluded "Camps, M., Benavides, M., Lema, K., Bourne, D., Grosso, O., & Bonnet, S. (2016). Released coral mucus does not enhance planktonic N2 fixation rates. Aquatic Microbial Ecology, 77(1), 51–63. https://doi.org/10.3354/ame01787" excluded previously excluded previously excluded "Cankovic, M., Žucko, J., Radic, I. D., Janekovic, I., Petric, I., Ciglenecki, I., & Collins, G. (2019). Microbial diversity and long-term geochemical trends in the euxinic zone of a marine, meromictic lake. Systematic and Applied Microbiology, 42(6), 126016. https://doi.org/10.1016/j.syapm.2019.126016" excluded previously excluded previously excluded "Canon, C., Frankignoulle, M., Windeshausen, F., & Delille, D. (1998). Short term variations of bacterial communities associated with a Mediterranean Posidonia oceanica seagrass bed. Vie et Milieu, 48(4), 321–329." included excluded previously excluded "Cao, H., Zhang, W., Wang, Y., & Qian, P.-Y. (2015). Microbial community changes along the active seepage site of one cold seep in the Red Sea. Frontiers in Microbiology, 6, 739. https://doi.org/10.3389/fmicb.2015.00739" included excluded previously excluded "Cárdenas, C. A., González-Aravena, M., Font, A., Hestetun, J. T., Hajdu, E., Trefault, N., et al. (2018). High similarity in the microbiota of cold-water sponges of the genus Mycale from two different geographical areas. PeerJ, 6, e4935. https://doi.org/10.7717/peerj.4935" excluded previously excluded previously excluded "Cardozo Mino, M. G., Salman-Carvalho, V., Boetius, A., & Fadeev, E. (2019). CARD-FISH cell counts of taxonomic bacterial and archaeal groups in Fram Strait during PS99.2. PANGAEA. https://doi.org/10.1594/PANGAEA.905212" included excluded previously excluded "Caroppo, C. (2000). The contribution of picophytoplankton to community structure in a Mediterranean brackish environment. Journal of Plankton Research, 22(2), 381–397. https://doi.org/10.1093/plankt/22.2.381" excluded previously excluded previously excluded "Carpintero de Moraes, P., Franco, D. C., Pellizari, V. H., & Sumida, P. Y. G. (2014). Effect of plankton-derived organic matter on the microbial community of coastal marine sediments. Journal of Experimental Marine Biology and Ecology, 461, 257–266. https://doi.org/10.1016/j.jembe.2014.08.017" included included included "Carr, G. M., & Morin, A. (2002). Sampling variability and the design of bacterial abundance and production studies in aquatic environments. Canadian Journal of Fisheries and Aquatic Sciences, 59(6), 930–937. https://doi.org/10.1139/f02-072" included excluded previously excluded "Carreira, C., Staal, M., Middelboe, M., & Brussaard, C. P. D. (2015). Counting viruses and bacteria in photosynthetic microbial mats. Applied and Environmental Microbiology, 81(6), 2149–2155. https://doi.org/10.1128/AEM.02863-14" excluded previously excluded previously excluded "Carrier, T. J., Macrander, J., & Reitzel, A. M. (2018). A microbial perspective on the life-history evolution of marine invertebrate larvae: If, where and when to feed. Marine Ecology, 39(1), e12490. https://doi.org/10.1111/maec.12490" excluded previously excluded previously excluded "Caruso, G. (2010). Leucine aminopeptidase, beta-glucosidase and alkaline phosphatase activity rates and their significance in nutrient cycles in some coastal Mediterranean sites. Marine Drugs, 8(4), 916–940. https://doi.org/10.3390/md8040916" excluded previously excluded previously excluded "Caruso, G., Azzaro, F., Azzaro, M., Decembrini, F., La Ferla, R., Maimone, G., et al. (2013). Environmental variability in a transitional Mediterranean system (Oliveri–Tindari, Italy): Focusing on the response of microbial activities and prokaryotic abundance. Estuarine, Coastal and Shelf Science, 135, 158–170. https://doi.org/10.1016/j.ecss.2013.10.002" included excluded previously excluded "Caruso, G., Azzaro, M., Caroppo, C., Decembrini, F., Monticelli, L. S., Leonardi, M., et al. (2016). Microbial community and its potential as descriptor of environmental status. ICES Journal of Marine Science, 73(9), 2174–2177. https://doi.org/10.1093/icesjms/fsw101" excluded previously excluded previously excluded "Caruso, G., La Ferla, R., Azzaro, M., Zoppini, A., Marino, G., Petochi, T., et al. (2016). Microbial assemblages for environmental quality assessment: Knowledge, gaps and usefulness in the European Marine Strategy Framework Directive. Critical Reviews in Microbiology, 42(6), 883–904. https://doi.org/10.3109/1040841X.2015.1087380" excluded previously excluded previously excluded "Castañeda, R. A., Avlijas, S., Simard, M. A., & Ricciardi, A. (2014). Microplastic pollution in St. Lawrence River sediments. Canadian Journal of Fisheries and Aquatic Sciences, 71(12), 1767–1771. https://doi.org/10.1139/cjfas-2014-0281" excluded previously excluded previously excluded "Catão, E. C. P., Pollet, T., Misson, B., Garnier, C., Ghiglione, J.-F., Barry-Martinet, R., et al. (2019). Shear stress as a major driver of marine biofilm communities in the NW Mediterranean Sea. Frontiers in Microbiology, 10, 1768. https://doi.org/10.3389/fmicb.2019.01768" excluded previously excluded previously excluded "Cavalcanti, G. S., Gregoracci, G. B., Longo, L. de L., Bastos, A. C., Ferreira, C. M., Francini-Filho, R. B., et al. (2013). Sinkhole-like structures as bioproductivity hotspots in the Abrolhos Bank. Continental Shelf Research, 70, 126–134. https://doi.org/10.1016/j.csr.2013.05.011" excluded previously excluded previously excluded "Celussi, M., Gallina, A., Ras, J., Giani, M., & Del Negro, P. (2015). Effect of sunlight on prokaryotic organic carbon uptake and dynamics of pigments relevant to photoheterotrophy in the Adriatic Sea. Aquatic Microbial Ecology, 74(3), 235–249. https://doi.org/10.3354/ame01738" excluded previously excluded previously excluded "Celussi, M., Malfatti, F., Annalisa, F., Gazeau, F., Giannakourou, A., Pitta, P., et al. (2017). Ocean acidification effect on prokaryotic metabolism tested in two diverse trophic regimes in the Mediterranean Sea. Estuarine, Coastal and Shelf Science, 186, 125–138. https://doi.org/10.1016/j.ecss.2015.08.015" included excluded previously excluded "Celussi, M., Paoli, A., Crevatin, E., Bergamasco, A., Margiotta, F., Saggiomo, V., et al. (2009). Short-term under-ice variability of prokaryotic plankton communities in coastal Antarctic waters (Cape Hallett, Ross Sea). Estuarine, Coastal and Shelf Science, 81(4), 491–500. https://doi.org/10.1016/j.ecss.2008.12.014" excluded previously excluded previously excluded "Celussi, M., Pugnetti, A., & Del Negro, P. (2009). Structural dynamics of bacterioplankton assemblages in the Lagoon of Venice. Estuarine, Coastal and Shelf Science, 84(1), 154–160. https://doi.org/10.1016/j.ecss.2009.05.028" excluded previously excluded previously excluded "Charbonnier, C., Lavesque, N., Anschutz, P., Bachelet, G., & Lecroart, P. (2016). Role of macrofauna on benthic oxygen consumption in sandy sediments of a high-energy tidal beach. Continental Shelf Research, 120, 96–105. https://doi.org/10.1016/j.csr.2016.03.017" included excluded previously excluded "Charó, M. P., Cavallatto, J. L., & Aceñolaza, G. (2017). Macrobioerosion and microbioerosion in marine molluscan shells from holocene and modern beaches (39°-40°S, South of Buenos Aires Province, Argentina). Acta Geologica Sinica - English Edition, 91(4), 1215–1230. https://doi.org/10.1111/1755-6724.13356" excluded previously excluded previously excluded "Charpy, L., Palinska, K. A., Abed, R. M. M., Langlade, M. J., & Golubic, S. (2012). Factors influencing microbial mat composition, distribution and dinitrogen fixation in three western Indian Ocean coral reefs. European Journal of Phycology, 47(1), 51–66. https://doi.org/10.1080/09670262.2011.653652" included excluded previously excluded "Chelossi, E., Vezzulli, L., Milano, A., Branzoni, M., Fabiano, M., Riccardi, G., & Banat, I. M. (2003). Antibiotic resistance of benthic bacteria in fish-farm and control sediments of the Western Mediterranean. Aquaculture, 219(1–4), 83–97. https://doi.org/10.1016/S0044-8486(03)00016-4" included included included "Chen, J., & Gu, J.-D. (2017). Faunal burrows alter the diversity, abundance, and structure of AOA, AOB, anammox and n-damo communities in coastal mangrove sediments. Microbial Ecology, 74(1), 140–156. https://doi.org/10.1007/s00248-017-0939-5" included excluded previously excluded "Chen, J., McIlroy, S. E., Archana, A., Baker, D. M., & Panagiotou, G. (2019). A pollution gradient contributes to the taxonomic, functional, and resistome diversity of microbial communities in marine sediments. Microbiome, 7(1), 104. https://doi.org/10.1186/s40168-019-0714-6" included excluded previously excluded "Cheng, B., Chen, Z., Chen, T., Yang, C., & Wang, T.-G. (2018). Biomarker signatures of the Ediacaran–Early Cambrian origin petroleum from the central Sichuan Basin, South China: Implications for source rock characteristics. Marine and Petroleum Geology, 96, 577–590. https://doi.org/10.1016/j.marpetgeo.2018.05.012" excluded previously excluded previously excluded "Chevalier, N., Bouloubassi, I., Stadnitskaia, A., Taphanel, M.-H., & Sinninghe Damsté, J. S. (2014). Lipid biomarkers for anaerobic oxidation of methane and sulphate reduction in cold seep sediments of Nyegga pockmarks (Norwegian margin): Discrepancies in contents and carbon isotope signatures. Geo-Marine Letters, 34(2–3), 269–280. https://doi.org/10.1007/s00367-014-0363-5" included excluded previously excluded "Chia, M., Kramer, B., Jankowiak, J., Bittencourt-Oliveira, M., & Gobler, C. (2019). The individual and combined effects of the cyanotoxins, anatoxin-a and microcystin-LR, on the growth, toxin production, and nitrogen fixation of prokaryotic and eukaryotic algae. Toxins, 11(1), 43. https://doi.org/10.3390/toxins11010043" excluded previously excluded previously excluded "Chiang, O. E., & Quiñones, R. A. (2007). Relationship between viral and prokaryotic abundance on the Bajo O’Higgins 1 Seamount (Humboldt Current System off Chile). Scientia Marina, 71(1), 37–46. https://doi.org/10.3989/scimar.2007.71n137" included excluded previously excluded "Cho, B. C., & Hwang, C. Y. (2011). Prokaryotic abundance and 16S rRNA gene sequences detected in marine aerosols on the East Sea (Korea). FEMS Microbiology Ecology, 76(2), 327–341. https://doi.org/10.1111/j.1574-6941.2011.01053.x" excluded previously excluded previously excluded "Cho, H., Hwang, C. Y., Kim, J.-G., Kang, S., Knittel, K., Choi, A., et al. (2020). A unique benthic microbial community underlying the Phaeocystis antarctica-dominated Amundsen Sea Polynya, Antarctica: A proxy for assessing the impact of global changes. Frontiers in Marine Science, 6, 797. https://doi.org/10.3389/fmars.2019.00797" included excluded previously excluded "Cho, H., Hyun, J.-H., You, O.-R., Kim, M., Kim, S.-H., Choi, D.-L., et al. (2017). Microbial community structure associated with biogeochemical processes in the sulfate–methane transition zone (SMTZ) of gas-hydrate-bearing sediment of the Ulleung Basin, East Sea. Geomicrobiology Journal, 34(3), 207–219. https://doi.org/10.1080/01490451.2016.1159767" excluded previously excluded previously excluded "Choi, D. H., An, S. M., Yang, E. C., Lee, H., Shim, J., Jeong, J., & Noh, J. H. (2018). Daily variation in the prokaryotic community during a spring bloom in shelf waters of the East China Sea. FEMS Microbiology Ecology, 94, 9. https://doi.org/10.1093/femsec/fiy134" excluded previously excluded previously excluded "Choi, H., Koh, H.-W., Kim, H., Chae, J.-C., & Park, S.-J. (2016). Microbial community composition in the marine sediments of Jeju Island: Next-generation sequencing surveys. Journal of Microbiology and Biotechnology, 26(5), 883–890. https://doi.org/10.4014/jmb.1512.12036" included excluded previously excluded "Christaki, U., Vazquez-Dominguez, E., Courties, C., & Lebaron, P. (2005). Grazing impact of different heterotrophic nanoflagellates on eukaryotic (Ostreococcus tauri ) and prokaryotic picoautotrophs (Prochlorococcus and Synechococcus). Environmental Microbiology, 7(8), 1200–1210. https://doi.org/10.1111/j.1462-2920.2005.00800.x" excluded previously excluded previously excluded "Christiaen, B., McDonald, A., Cebrian, J., & Ortmann, A. C. (2013). Response of the microbial community to environmental change during seagrass transplantation. Aquatic Botany, 109, 31–38. https://doi.org/10.1016/j.aquabot.2013.03.008" included excluded previously excluded "Chronopoulou, P.-M., Salonen, I., Bird, C., Reichart, G.-J., & Koho, K. A. (2019). Metabarcoding insights into the trophic behavior and identity of intertidal benthic foraminifera. Frontiers in Microbiology, 10, 1169. https://doi.org/10.3389/fmicb.2019.01169" excluded previously excluded previously excluded "Chung, C.-C., & Gong, G.-C. (2019). Attribution of the growth of a distinct population of Synechococcus to the coverage of lateral water on an upwelling. Terrestrial, Atmospheric and Oceanic Sciences, 30(4), 575–587. https://doi.org/10.3319/TAO.2018.09.26.01" excluded previously excluded previously excluded "Cibic, T., Fazi, S., Nasi, F., Pin, L., Alvisi, F., Berto, D., et al. (2019). Natural and anthropogenic disturbances shape benthic phototrophic and heterotrophic microbial communities in the Po River Delta system. Estuarine, Coastal and Shelf Science, 222, 168–182. https://doi.org/10.1016/j.ecss.2019.04.009" included excluded previously excluded "Clavero, E., Hernández-Mariné, M., Grimalt, J. O., & Garcia-Pichel, F. (2000). Salinity tolerance of diatoms from thalassic hypersaline environments. Journal of Phycology, 36(6), 1021–1034. https://doi.org/10.1046/j.1529-8817.2000.99177.x" excluded previously excluded previously excluded "Cleary, D., Polónia, A., Huang, Y., Putchakarn, S., Gomes, N., & de Voogd, N. (2019). A comparison of prokaryote communities inhabiting sponges, bacterial mats, sediment and seawater in Southeast Asian coral reefs. FEMS Microbiology Ecology, 95, fiz169. https://doi.org/10.1093/femsec/fiz169" included excluded previously excluded "Coelho, F. J. R. C., Cleary, D. F. R., Costa, R., Ferreira, M., Polónia, A. R. M., Silva, A. M. S., et al. (2016). Multitaxon activity profiling reveals differential microbial response to reduced seawater pH and oil pollution. Molecular Ecology, 25(18), 4645–4659. https://doi.org/10.1111/mec.13779" excluded previously excluded previously excluded "Coelho, F. J. R. C., Cleary, D. F. R., Rocha, R. J. M., Calado, R., Castanheira, J. M., Rocha, S. M., et al. (2015). Unraveling the interactive effects of climate change and oil contamination on laboratory-simulated estuarine benthic communities. Global Change Biology, 21(5), 1871–1886. https://doi.org/10.1111/gcb.12801" excluded previously excluded previously excluded "Coelho, F. J. R. C., Rocha, R. J. M., Pires, A. C. C., Ladeiro, B., Castanheira, J. M., Costa, R., et al. (2013). Development and validation of an experimental life support system for assessing the effects of global climate change and environmental contamination on estuarine and coastal marine benthic communities. Global Change Biology, 19(8), 2584–2595. https://doi.org/10.1111/gcb.12227" excluded previously excluded previously excluded "Coelho-Souza, S. A., Araujo, F. V., Cury, J. C., Jesus, H. E., Pereira, G. C., Guimaraes, J. R., et al. (2015). Bacterial and archaeal communities variability associated with upwelling and anthropogenic pressures in the protection area of Arraial do Cabo (Cabo Frio region - RJ). Anais Da Academia Brasileira de Ciências, 87(3), 1737–1750. https://doi.org/10.1590/0001-3765201520140098" excluded previously excluded previously excluded "Coelho-Souza, S. A., Pereira, G. C., Coutinho, R., & Guimarães, J. R. D. (2013). Yearly variation of bacterial production in the Arraial do Cabo protection area (Cabo Frio upwelling region): An evidence of anthropogenic pressure. Brazilian Journal of Microbiology, 44(4), 1349–1357. https://doi.org/10.1590/S1517-83822013000400046" included excluded previously excluded "Coelho-Souza, S. A., Pereira, G. C., Lopez, M. S., Guimaraes, J. R. D., & Coutinho, R. (2017). Seasonal sources of carbon to the Brazilian upwelling system. Estuarine, Coastal and Shelf Science, 194, 162–171. https://doi.org/10.1016/j.ecss.2017.06.013" excluded previously excluded previously excluded "Cohn, S. A., Dunbar, S., Ragland, R., Schulze, J., Suchar, A., Weiss, J., & Wolske, A. (2016). Analysis of light quality and assemblage composition on diatom motility and accumulation rate. Diatom Research, 31(3), 173–184. https://doi.org/10.1080/0269249X.2016.1193058" excluded previously excluded previously excluded "Collins, R. E., Carpenter, S. D., & Deming, J. W. (2008). Spatial heterogeneity and temporal dynamics of particles, bacteria, and pEPS in Arctic winter sea ice. Journal of Marine Systems, 74(3–4), 902–917. https://doi.org/10.1016/j.jmarsys.2007.09.005" excluded previously excluded previously excluded "Colombet, J., & Sime-Ngando, T. (2012). Seasonal depth-related gradients in virioplankton: Lytic activity and comparison with protistan grazing potential in Lake Pavin (France). Microbial Ecology, 64(1), 67–78. https://doi.org/10.1007/s00248-012-0032-z" excluded previously excluded previously excluded "Colombo, V., Pettigrove, V. J., Hoffmann, A. A., & Golding, L. A. (2016). Effects of Lumbriculus variegatus (Annelida, Oligochaete) bioturbation on zinc sediment chemistry and toxicity to the epi-benthic invertebrate Chironomus tepperi (Diptera: Chironomidae). Environmental Pollution, 216, 198–207. https://doi.org/10.1016/j.envpol.2016.05.063" excluded previously excluded previously excluded "Connon, S. A., & Giovannoni, S. J. (2002). High-throughput methods for culturing microorganisms in very-low-nutrient media yield diverse new marine isolates. Applied and Environmental Microbiology, 68(8), 3878–3885. https://doi.org/10.1128/AEM.68.8.3878-3885.2002" excluded previously excluded previously excluded "Conte, A., Papale, M., Amalfitano, S., Mikkonen, A., Rizzo, C., De Domenico, E., et al. (2018). Bacterial community structure along the subtidal sandy sediment belt of a high Arctic fjord (Kongsfjorden, Svalbard Islands). Science of the total Environment, 619–620, 203–211. https://doi.org/10.1016/j.scitotenv.2017.11.077" included excluded previously excluded "Cook, M. S., Keigwin, L. D., Birgel, D., & Hinrichs, K.-U. (2011). Repeated pulses of vertical methane flux recorded in glacial sediments from the southeast Bering Sea. Paleoceanography, 26(2), PA2210. https://doi.org/10.1029/2010PA001993" excluded previously excluded previously excluded "Cooke, M. P., van Dongen, B. E., Talbot, H. M., Semiletov, I., Shakhova, N., Guo, L., & Gustafsson, Ö. (2009). Bacteriohopanepolyol biomarker composition of organic matter exported to the Arctic Ocean by seven of the major Arctic rivers. Organic Geochemistry, 40(11), 1151–1159. https://doi.org/10.1016/j.orggeochem.2009.07.014" excluded previously excluded previously excluded "Corcoll, N., Yang, J., Backhaus, T., Zhang, X., & Eriksson, K. M. (2019). Copper affects composition and functioning of microbial communities in marine biofilms at environmentally relevant concentrations. Frontiers in Microbiology, 9, 3248. https://doi.org/10.3389/fmicb.2018.03248" excluded previously excluded previously excluded "Corinaldesi, C., Beolchini, F., & Dell’Anno, A. (2008). Damage and degradation rates of extracellular DNA in marine sediments: Implications for the preservation of gene sequences. Molecular Ecology, 17(17), 3939–3951. https://doi.org/10.1111/j.1365-294X.2008.03880.x" excluded previously excluded previously excluded "Corinaldesi, C., Dell’Anno, A., & Danovaro, R. (2007). Early diagenesis and trophic role of extracellular DNA in different benthic ecosystems. Limnology and Oceanography, 52(4), 1710–1717. https://doi.org/10.4319/lo.2007.52.4.1710" excluded previously excluded previously excluded "Corinaldesi, C., Dell’Anno, A., & Danovaro, R. (2012). Viral infections stimulate the metabolism and shape prokaryotic assemblages in submarine mud volcanoes. The ISME Journal, 6(6), 1250–1259. https://doi.org/10.1038/ismej.2011.185" included included included "Corinaldesi, C., Dell’Anno, A., Magagnini, M., & Danovaro, R. (2010). Viral decay and viral production rates in continental-shelf and deep-sea sediments of the Mediterranean Sea. FEMS Microbiology Ecology, 72(2), 208–218. https://doi.org/10.1111/j.1574-6941.2010.00840.x" included included included "Cottrell, M. T., & Kirchman, D. L. (2009). Photoheterotrophic microbes in the Arctic Ocean in summer and winter. Applied and Environmental Microbiology, 75(15), 4958–4966. https://doi.org/10.1128/AEM.00117-09" included excluded previously excluded "Cottrell, M. T., Yu, L., & Kirchman, D. L. (2005). Sequence and expression analyses of cytophaga-like hydrolases in a western Arctic metagenomic library and the Sargasso Sea. Applied and Environmental Microbiology, 71(12), 8506–8513. https://doi.org/10.1128/AEM.71.12.8506-8513.2005" excluded previously excluded previously excluded "Cottrell, M., & Kirchman, D. (2012). Virus genes in Arctic marine bacteria identified by metagenomic analysis. Aquatic Microbial Ecology, 66(2), 107–116. https://doi.org/10.3354/ame01569" excluded previously excluded previously excluded "Couradeau, E., Benzerara, K., Moreira, D., Gérard, E., Ka?mierczak, J., Tavera, R., & López-García, P. (2011). Prokaryotic and eukaryotic community structure in field and cultured microbialites from the alkaline Lake Alchichica (Mexico). 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Frontiers in Microbiology, 8, 1599. https://doi.org/10.3389/fmicb.2017.01599" included excluded previously excluded "Currie, B., Utne-Palm, A. C., & Salvanes, A. G. V. (2018). Winning ways with hydrogen sulphide on the Namibian shelf. Frontiers in Marine Science, 5, 341. https://doi.org/10.3389/fmars.2018.00341" excluded previously excluded previously excluded "Curtis, A. C., Wheat, C. G., Fryer, P., & Moyer, C. L. (2013). Mariana forearc serpentinite mud volcanoes harbor novel communities of extremophilic Archaea. Geomicrobiology Journal, 30(5), 430–441. https://doi.org/10.1080/01490451.2012.705226" excluded previously excluded previously excluded "Cuvelier, M. L., Blake, E., Mulheron, R., McCarthy, P. J., Blackwelder, P., Thurber, R. L. V., & Lopez, J. V. (2014). Two distinct microbial communities revealed in the sponge Cinachyrella. Frontiers in Microbiology, 5, 581. https://doi.org/10.3389/fmicb.2014.00581" excluded previously excluded previously excluded "Dale, A. W., Van Cappellen, P., Aguilera, D. R., & Regnier, P. (2008). Methane efflux from marine sediments in passive and active margins: Estimations from bioenergetic reaction–transport simulations. Earth and Planetary Science Letters, 265(3–4), 329–344. https://doi.org/10.1016/j.epsl.2007.09.026" excluded previously excluded previously excluded "Damjanovic, K., van Oppen, M. J. H., Menéndez, P., & Blackall, L. L. (2019). Experimental inoculation of coral recruits with marine bacteria indicates scope for microbiome manipulation in Acropora tenuis and Platygyra daedalea. Frontiers in Microbiology, 10, 1702. https://doi.org/10.3389/fmicb.2019.01702" excluded previously excluded previously excluded "Dann, L. M., Paterson, J. S., Newton, K., Oliver, R., & Mitchell, J. G. (2016). Distributions of virus-like particles and prokaryotes within microenvironments. PLoS ONE, 11(1), e0146984. https://doi.org/10.1371/journal.pone.0146984" excluded previously excluded previously excluded "Danovaro, R. 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Links between viral and prokaryotic communities throughout the water column in the (sub)tropical Atlantic Ocean. The ISME Journal, 4(11), 1431–1442. https://doi.org/10.1038/ismej.2010.65" excluded previously excluded previously excluded "De Corte, D., Sintes, E., Yokokawa, T., & Herndl, G. J. (2011). Changes in viral and bacterial communities during the ice-melting season in the coastal Arctic (Kongsfjorden, Ny-Ålesund). Environmental Microbiology, 13(7), 1827–1841. https://doi.org/10.1111/j.1462-2920.2011.02497.x" included excluded previously excluded "De Corte, D., Sintes, E., Yokokawa, T., Reinthaler, T., & Herndl, G. J. (2012). Links between viruses and prokaryotes throughout the water column along a North Atlantic latitudinal transect. The ISME Journal, 6(8), 1566–1577. https://doi.org/10.1038/ismej.2011.214" excluded previously excluded previously excluded "De Corte, D., Yokokawa, T., Varela, M. M., Agogué, H., & Herndl, G. J. (2009). Spatial distribution of Bacteria and Archaea and amoA gene copy numbers throughout the water column of the Eastern Mediterranean Sea. The ISME Journal, 3(2), 147–158. https://doi.org/10.1038/ismej.2008.94" excluded previously excluded previously excluded "de Sousa, A. G. G., Tomasino, M. P., Duarte, P., Fernández-Méndez, M., Assmy, P., Ribeiro, H., et al. (2019). Diversity and composition of pelagic prokaryotic and protist communities in a thin Arctic sea-ice regime. Microbial Ecology, 78(2), 388–408. https://doi.org/10.1007/s00248-018-01314-2" excluded previously excluded previously excluded "Decelle, J., Probert, I., Bittner, L., Desdevises, Y., Colin, S., de Vargas, C., et al. (2012). An original mode of symbiosis in open ocean plankton. Proceedings of the National Academy of Sciences, 109(44), 18000–18005. https://doi.org/10.1073/pnas.1212303109" excluded previously excluded previously excluded "Decho, A. W., Visscher, P. T., & Reid, R. P. (2005). 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Biodiversity of prokaryotic communities associated with the ectoderm of Ectopleura crocea (Cnidaria, Hydrozoa). PLoS ONE, 7(6), e39926. https://doi.org/10.1371/journal.pone.0039926" excluded previously excluded previously excluded "Di Cesare, A., Luna, G. M., Vignaroli, C., Pasquaroli, S., Tota, S., Paroncini, P., & Biavasco, F. (2013). Aquaculture can promote the presence and spread of antibiotic-resistant Enterococci in marine sediments. PLoS ONE, 8(4), e62838. https://doi.org/10.1371/journal.pone.0062838" excluded previously excluded previously excluded "Di Poi, E., Blason, C., Corinaldesi, C., Danovaro, R., Malisana, E., & Fonda-Umani, S. (2013). Structure and interactions within the pelagic microbial food web (from viruses to microplankton) across environmental gradients in the Mediterranean Sea. 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Detection of water and sediments pollution of an arid Saltern (Sfax, Tunisia) by coupling the distribution of microorganisms with hydrocarbons. Water, Air, and Soil Pollution, 187(1–4), 157–171. https://doi.org/10.1007/s11270-007-9505-y" excluded previously excluded previously excluded "El-Serehy, H. A., Al-Rasheid, K. A., Al-Misned, F. A., Al-Talasat, A. A. R., & Gewik, M. M. (2016). Microbial–meiofaunal interrelationships in coastal sediments of the Red Sea. Saudi Journal of Biological Sciences, 23(3), 327–334. https://doi.org/10.1016/j.sjbs.2016.01.023" included included included "Elvert, M., & Niemann, H. (2008). Occurrence of unusual steroids and hopanoids derived from aerobic methanotrophs at an active marine mud volcano. Organic Geochemistry, 39(2), 167–177. https://doi.org/10.1016/j.orggeochem.2007.11.006" excluded previously excluded previously excluded "Elvert, M., Hopmans, E. C., Treude, T., Boetius, A., & Suess, E. (2005). 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Transcriptional activity of the giant barrel sponge, Xestospongia muta Holobiont: Molecular evidence for metabolic interchange. Frontiers in Microbiology, 6, 364. https://doi.org/10.3389/fmicb.2015.00364" excluded previously excluded previously excluded "First, M., & Hollibaugh, J. (2010). Environmental factors shaping microbial community structure in salt marsh sediments. Marine Ecology Progress Series, 399, 15–26. https://doi.org/10.3354/meps08385" included excluded previously excluded "Fischer, H., Wanner, S. C., & Pusch, M. (2002). Bacterial abundance and production in river sediments as related to the biochemical composition of particulate organic matter (POM). Biogeochemistry, 61(1), 37–55. https://doi.org/10.1023/A:1020298907014" excluded previously excluded previously excluded "Fischer, U. R., Wieltschnig, C., Kirschner, A. K. T., & Velimirov, B. (2003). Does virus-induced lysis contribute significantly to bacterial mortality in the oxygenated sediment layer of shallow oxbow lakes? Applied and Environmental Microbiology, 69(9), 5281–5289. https://doi.org/10.1128/AEM.69.9.5281-5289.2003" excluded previously excluded previously excluded "Fitter, A., & Hillebrand, H. (2009). Microbial food web structure affects bottom-up effects and elemental stoichiometry in periphyton assemblages. Limnology and Oceanography, 54(6), 2183–2200. https://doi.org/10.4319/lo.2009.54.6.2183" included excluded previously excluded "Flaviani, F., Schroeder, D. C., Lebret, K., Balestreri, C., Highfield, A. C., Schroeder, J. L., et al. (2018). Distinct oceanic microbiomes from viruses to protists located near the Antarctic circumpolar current. Frontiers in Microbiology, 9, 1474. https://doi.org/10.3389/fmicb.2018.01474" excluded previously excluded previously excluded "Fonseca, G. F. C., Hutchings, P., Candido Vieira, D., & Gallucci, F. (2011). Meiobenthic community underneath the carcass of a stingray: A snapshot after natural death. Aquatic Biology, 13(1), 27–33. https://doi.org/10.3354/ab00347" excluded previously excluded previously excluded "Fonseca, V. G., Carvalho, G. R., Sung, W., Johnson, H. F., Power, D. M., Neill, S. P., et al. (2010). Second-generation environmental sequencing unmasks marine metazoan biodiversity. Nature Communications, 1(1), 98. https://doi.org/10.1038/ncomms1095" excluded previously excluded previously excluded "Foshtomi, M. Y., Braeckman, U., Derycke, S., Sapp, M., Van Gansbeke, D., Sabbe, K., et al. (2015). The link between microbial diversity and nitrogen cycling in marine sediments is modulated by macrofaunal bioturbation. PLoS ONE, 10(6), e0130116. https://doi.org/10.1371/journal.pone.0130116" excluded previously excluded previously excluded "Fourquez, M., Beier, S., Jongmans, E., Hunter, R., & Obernosterer, I. (2016). Uptake of leucine, chitin, and iron by prokaryotic groups during spring phytoplankton blooms induced by natural iron fertilization off Kerguelen Island (Southern Ocean). Frontiers in Marine Science, 3, 256. https://doi.org/10.3389/fmars.2016.00256" excluded previously excluded previously excluded "Franco, M., De Mesel, I., Demba Diallo, M., Van der Gucht, K., Van Gansbeke, D., van Rijswijk, P., et al. (2007). Effect of phytoplankton bloom deposition on benthic bacterial communities in two contrasting sediments in the southern North Sea. Aquatic Microbial Ecology, 48, 241–254. https://doi.org/10.3354/ame048241" included included included "Frank, H., Rahav, E., & Bar-Zeev, E. (2017). Short-term effects of SWRO desalination brine on benthic heterotrophic microbial communities. Desalination, 417, 52–59. https://doi.org/10.1016/j.desal.2017.04.031" excluded previously excluded previously excluded "Franzo, A., Cibic, T., & Del Negro, P. (2016). Integrated approach for the assessment of the benthic ecosystem functioning at a coastal site in the northern Adriatic Sea. Continental Shelf Research, 121, 35–47. https://doi.org/10.1016/j.csr.2015.12.005" included included included "Freeman, C., Stoner, E., Easson, C., Matterson, K., & Baker, D. (2017). Variation in d13C and d15N values suggests a coupling of host and symbiont metabolism in the Symbiodinium-Cassiopea mutualism. Marine Ecology Progress Series, 571, 245–251. https://doi.org/10.3354/meps12138" excluded previously excluded previously excluded "Friesen, S. D., Dunn, C., & Freeman, C. (2018). Decomposition as a regulator of carbon accretion in mangroves: A review. Ecological Engineering, 114, 173–178. https://doi.org/10.1016/j.ecoleng.2017.06.069" excluded previously excluded previously excluded "Fuhrman, J., & Davis, A. (1997). Widespread Archaea and novel Bacteria from the deep sea as shown by 16S rRNA gene sequences. Marine Ecology Progress Series, 150, 275–285. https://doi.org/10.3354/meps150275" included excluded previously excluded "Fujita, K., & Omori, A. (2015). Modern and Pleistocene large-sized benthic foraminifers from Tahiti, French Polynesia, collected during IODP Expedition 310. Island Arc, 24(1), 47–60. https://doi.org/10.1111/iar.12069" excluded previously excluded previously excluded "Gaidos, E., Rusch, A., & Ilardo, M. (2011). Ribosomal tag pyrosequencing of DNA and RNA from benthic coral reef microbiota: Community spatial structure, rare members and nitrogen-cycling guilds. Environmental Microbiology, 13(5), 1138–1152. https://doi.org/10.1111/j.1462-2920.2010.02392.x" excluded previously excluded previously excluded "Gallardo, V. A., Espinoza, C., Fonseca, A., & Musleh, S. (2013). The big bacteria in the Humboldt Sulfuretum. Gayana, 77(2), 136–170. https://doi.org/10.4067/S0717-65382013000200008" excluded previously excluded previously excluded "Gallardo, V. A., Fonseca, A., Espinoza, C., Ruiz-Tagle, N., & Musleh, S. (2016). Bacteria of the Humboldt sulfuretum comply with unifying macroecological principles. Marine Biodiversity, 46(2), 399–406. https://doi.org/10.1007/s12526-015-0377-x" excluded previously excluded previously excluded "Gallucci, F., Sauter, E., Sachs, O., Klages, M., & Soltwedel, T. (2008). Caging experiment in the deep sea: Efficiency and artefacts from a case study at the Arctic long-term observatory HAUSGARTEN. Journal of Experimental Marine Biology and Ecology, 354(1), 39–55. https://doi.org/10.1016/j.jembe.2007.10.006" included excluded previously excluded "Gantt, S. E., McMurray, S. E., Stubler, A. D., Finelli, C. M., Pawlik, J. R., & Erwin, P. M. (2019). Testing the relationship between microbiome composition and flux of carbon and nutrients in Caribbean coral reef sponges. Microbiome, 7(1), 124. https://doi.org/10.1186/s40168-019-0739-x" excluded previously excluded previously excluded "Gao, Z.-M., Zhou, G.-W., Huang, H., & Wang, Y. (2017). The cyanobacteria-dominated sponge Dactylospongia elegans in the South China Sea: Prokaryotic community and metagenomic insights. Frontiers in Microbiology, 8, 1387. https://doi.org/10.3389/fmicb.2017.01387" excluded previously excluded previously excluded "García De Lomas, J., Corzo, A., García, C. M., & Van Bergeijk, S. A. (2005). Microbenthos in a hypersaline tidal lagoon: Factors affecting microhabitat, community structure and mass exchange at the sediment-water interface. Aquatic Microbial Ecology, 38(1), 53–69. https://doi.org/10.3354/ame038053" included excluded previously excluded "Garcia-Robledo, E., Bohorquez, J., Corzo, A., Jimenez-Arias, J. L., & Papaspyrou, S. (2016). Dynamics of inorganic nutrients in intertidal sediments: Porewater, exchangeable, and intracellular pools. Frontiers in Microbiology, 7, 761. https://doi.org/10.3389/fmicb.2016.00761" excluded previously excluded previously excluded "García-Robledo, E., Corzo, A., Papaspyrou, S., Jiménez-Arias, J., & Villahermosa, D. (2010). Freeze-lysable inorganic nutrients in intertidal sediments: Dependence on microphytobenthos abundance. Marine Ecology Progress Series, 403, 155–163. https://doi.org/10.3354/meps08470" excluded previously excluded previously excluded "Garman, K. M., Rubelmann, H., Karlen, D. J., Wu, T., & Garey, J. R. (2011). Comparison of an inactive submarine spring with an active nearshore anchialine spring in Florida. Hydrobiologia, 677(1), 65–87. https://doi.org/10.1007/s10750-011-0740-2" excluded previously excluded previously excluded "Garneau, M., Vincent, W., Alonso-Sáez, L., Gratton, Y., & Lovejoy, C. (2006). Prokaryotic community structure and heterotrophic production in a river-influenced coastal arctic ecosystem. Aquatic Microbial Ecology, 42, 27–40. https://doi.org/10.3354/ame042027" excluded previously excluded previously excluded "Garstecki, T., & Arndt, H. (2000). Seasonal abundances and community structure of benthic rhizopods in shallow lagoons of the southern Baltic Sea. European Journal of Protistology, 36(1), 103–115. https://doi.org/10.1016/S0932-4739(00)80027-9" excluded previously excluded previously excluded "Garstecki, T., Wickham, S. A., & Arndt, H. (2002). Effects of experimental sediment resuspension on a coastal planktonic microbial food web. Estuarine, Coastal and Shelf Science, 55(5), 751–762. https://doi.org/10.1006/ecss.2001.0937" excluded previously excluded previously excluded "Gasol, J. M., & Vaque, D. (1993). Lack of coupling between heterotrophic nanoflagellates and bacteria: A general phenomenon across aquatic systems? Limnology and Oceanography, 38(3), 657–665. https://doi.org/10.4319/lo.1993.38.3.0657" included excluded previously excluded "Gasol, J. M., Alonso-Sáez, L., Vaqué, D., Baltar, F., Calleja, M. L., Duarte, C. M., & Arístegui, J. (2009). Mesopelagic prokaryotic bulk and single-cell heterotrophic activity and community composition in the NW Africa–Canary Islands coastal-transition zone. Progress in Oceanography, 83(1–4), 189–196. https://doi.org/10.1016/j.pocean.2009.07.014" excluded previously excluded previously excluded "Gasol, J. M., Casamayor, E., Joint, I., Garde, K., Gustavson, K., Benlloch, S., et al. (2004). Control of heterotrophic prokaryotic abundance and growth rate in hypersaline planktonic environments. Aquatic Microbial Ecology, 34, 193–206. https://doi.org/10.3354/ame034193" excluded previously excluded previously excluded "Genitsaris, S., Monchy, S., Denonfoux, J., Ferreira, S., Kormas, K. A., Sime-Ngando, T., et al. (2016). Marine microbial community structure assessed from combined metagenomic analysis and ribosomal amplicon deep-sequencing. Marine Biology Research, 12(1), 30–42. https://doi.org/10.1080/17451000.2015.1084425" included excluded previously excluded "George, S. C., Volk, H., Ahmed, M., Pickel, W., & Allan, T. (2007). Biomarker evidence for two sources for solid bitumens in the Subu wells: Implications for the petroleum prospectivity of the East Papuan Basin. Organic Geochemistry, 38(4), 609–642. https://doi.org/10.1016/j.orggeochem.2006.12.002" excluded previously excluded previously excluded "Gertler, C., Näther, D. J., Cappello, S., Gerdts, G., Quilliam, R. S., Yakimov, M. M., & Golyshin, P. N. (2012). Composition and dynamics of biostimulated indigenous oil-degrading microbial consortia from the Irish, North and Mediterranean Seas: A mesocosm study. FEMS Microbiology Ecology, 81(3), 520–536. https://doi.org/10.1111/j.1574-6941.2012.01377.x" excluded previously excluded previously excluded "Ghai, R., Hernandez, C. M., Picazo, A., Mizuno, C. M., Ininbergs, K., Díez, B., et al. (2012). Metagenomes of Mediterranean coastal lagoons. Scientific Reports, 2(1), 490. https://doi.org/10.1038/srep00490" excluded previously excluded previously excluded "Ghiasian, M., Akhavan, S. A., Amoozegar, M. A., Saadatmand, S., & Shavandi, M. (2017). Bacterial diversity determination using culture-dependent and culture-independent methods. Global Journal of Environmental Science and Management, 3(2), 153–164." included excluded previously excluded "Gihring, T. M., Humphrys, M., Mills, H. J., Huette, M., & Kostka, J. E. (2009). Identification of phytodetritus-degrading microbial communities in sublittoral Gulf of Mexico sands. Limnology and Oceanography, 54(4), 1073–1083. https://doi.org/10.4319/lo.2009.54.4.1073" included excluded previously excluded "Gilbertson, W. W., Solan, M., & Prosser, J. I. (2012). Differential effects of microorganism-invertebrate interactions on benthic nitrogen cycling. FEMS Microbiology Ecology, 82, 11–22. https://doi.org/10.1111/j.1574-6941.2012.01400.x" included excluded previously excluded "Giongo, A., Haag, T., Simão, T. L. L., Medina-Silva, R., Utz, L. R. P., Bogo, M. R., et al. (2016). Discovery of a chemosynthesis-based community in the western South Atlantic Ocean. Deep-Sea Research I, 112, 45–56. https://doi.org/10.1016/j.dsr.2015.10.010" included excluded previously excluded "Giovannelli, D., D’Errico, G., Fiorentino, F., Fattorini, D., Regoli, F., Angeletti, L., et al. (2016). Diversity and distribution of prokaryotes within a shallow-water pockmark field. Frontiers in Microbiology, 7, 941. https://doi.org/10.3389/fmicb.2016.00941" included included included "Giovannelli, D., Molari, M., D’Errico, G., Baldrighi, E., Pala, C., & Manini, E. (2013). Large-scale distribution and activity of prokaryotes in deep-sea surface sediments of the Mediterranean Sea and the adjacent Atlantic Ocean. PLoS ONE, 8(8), e72996. https://doi.org/10.1371/journal.pone.0072996" included included included "Glaubitz, S., Kießlich, K., Meeske, C., Labrenz, M., & Jürgens, K. (2013). SUP05 dominates the gammaproteobacterial sulfur oxidizer assemblages in pelagic redoxclines of the central Baltic and Black Seas. Applied and Environmental Microbiology, 79(8), 2767–2776. https://doi.org/10.1128/AEM.03777-12" excluded previously excluded previously excluded "Glud, R. N., & Middelboe, M. (2004). Virus and Bacteria dynamics of a coastal sediment: Implication for benthic carbon cycling. Limnology and Oceanography, 49(6), 2073–2081. https://doi.org/10.4319/lo.2004.49.6.2073" included excluded previously excluded "Glud, R. N., Gundersen, J. K., Jørgensen, B. B., Nøhr Glud, R., Gundersen, J. K., Barker Jørgensen, B., et al. (1994). Diffusive and total oxygen uptake of deep-sea sediments in the eastern South Atlantic Ocean: In situ and laboratory measurements. Deep-Sea Research I, 41, 1767–1788. https://doi.org/10.1016/0967-0637(94)90072-8" excluded previously excluded previously excluded "Gobler, C., Davis, T., Deonarine, S., Saxton, M., Lavrentyev, P., Jochem, F., & Wilhelm, S. (2008). Grazing and virus-induced mortality of microbial populations before and during the onset of annual hypoxia in Lake Erie. Aquatic Microbial Ecology, 51, 117–128. https://doi.org/10.3354/ame01180" excluded previously excluded previously excluded "Goedkoop, W., & Johnson, R. K. (1996). Pelagic-benthic coupling: Profundal benthic community response to spring diatom deposition in mesotrophic Lake Erken. Limnology and Oceanography, 41(4), 636–647. https://doi.org/10.4319/lo.1996.41.4.0636" excluded previously excluded previously excluded "Goedkoop, W., Gullberg, K. R., Johnson, R. K., & Ahlgren, I. (1997). Microbial response of a freshwater benthic community to a simulated diatom sedimentation event: Interactive effects of benthic fauna. Microbial Ecology, 34(2), 131–143. https://doi.org/10.1007/s002489900043" excluded previously excluded previously excluded "Goffredi, S., Barry, J., & Buck, K. (2004). Vesicomyid symbioses from Monterey Bay (Central California) cold seeps. Symbiosis, 36(1), 1–27." excluded previously excluded previously excluded "Gong, Y., Zhongdao Tang, R. X., Si, Y., & Li, B. (2005). Relationships between bacterial-algal proliferating and mass extinction in the Late Devonian Frasnian-Famennian transition: Enlightening from carbon isotopes and molecular fossils. Science in China Series D, 48(10), 1656. https://doi.org/10.1360/02YD0346" excluded previously excluded previously excluded "Gowing, M. M., & Wishner, K. F. (1998). Feeding ecology of the copepod Lucicutia aff. L. grandis near the lower interface of the Arabian Sea oxygen minimum zone. Deep-Sea Research II, 45(10–11), 2433–2459. https://doi.org/10.1016/S0967-0645(98)00077-0" excluded previously excluded previously excluded "Graham, L. E., Knack, J. J., Graham, M. E., Graham, J. M., & Zulkifly, S. (2015). A metagenome for lacustrine Cladophora (Cladophorales) reveals remarkable diversity of eukaryotic epibionts and genes relevant to materials cycling. Journal of Phycology, 51(3), 408–418. https://doi.org/10.1111/jpy.12296" excluded previously excluded previously excluded "Grote, J., Jost, G., Labrenz, M., Herndl, G. J., & Jurgens, K. (2008). Epsilonproteobacteria represent the major portion of chemoautotrophic bacteria in sulfidic waters of pelagic redoxclines of the Baltic and Black Seas. Applied and Environmental Microbiology, 74(24), 7546–7551. https://doi.org/10.1128/AEM.01186-08" excluded previously excluded previously excluded "Grünke, S., Felden, J., Lichtschlag, A., Girnth, A. C., de Beer, D., Wenzhöfer, F., & Boetius, A. (2011). Niche differentiation among mat-forming, sulfide-oxidizing bacteria at cold seeps of the Nile Deep Sea Fan (Eastern Mediterranean Sea). 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Changes in prokaryotic community composition accompanying a pronounced temperature shift of a shallow marine thermal brine pool (Panarea Island, Italy). Extremophiles, 19(3), 547–559. https://doi.org/10.1007/s00792-015-0737-2" included excluded previously excluded "Gugliandolo, C., Michaud, L., Lo Giudice, A., Lentini, V., Rochera, C., Camacho, A., & Maugeri, T. L. (2016). Prokaryotic community in Lacustrine sediments of Byers Peninsula (Livingston Island, maritime Antarctica). Microbial Ecology, 71(2), 387–400. https://doi.org/10.1007/s00248-015-0666-8" excluded previously excluded previously excluded "Guido, A., Gerovasileiou, V., Russo, F., Rosso, A., Sanfilippo, R., Voultsiadou, E., & Mastandrea, A. (2019). Composition and biostratinomy of sponge-rich biogenic crusts in submarine caves (Aegean Sea, Eastern Mediterranean). 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Limnology and Oceanography, 42(3), 452–460. https://doi.org/10.4319/lo.1997.42.3.0452" excluded previously excluded previously excluded "Günter, J., Zubkov, M. V., Yakushev, E., Labrenz, M., & Jürgens, K. (2008). High abundance and dark CO2 fixation of chemolithoautotrophic prokaryotes in anoxic waters of the Baltic Sea. Limnology and Oceanography, 53(1), 14–22. https://doi.org/10.4319/lo.2008.53.1.0014" excluded previously excluded previously excluded "Gutiérrez, M. H., Narváez, D., Daneri, G., Montero, P., Pérez-Santos, I., & Pantoja, S. (2018). Linking seasonal reduction of microbial diversity to increase in winter temperature of waters of a Chilean Patagonia fjord. Frontiers in Marine Science, 5, 277. https://doi.org/10.3389/fmars.2018.00277" included excluded previously excluded "Haas, A. F., Nelson, C. E., Kelly, L. W., Carlson, C. A., Rohwer, F., Leichter, J. J., et al. (2011). Effects of coral reef benthic primary producers on dissolved organic carbon and microbial activity. PLoS ONE, 6, 11. https://doi.org/10.1371/journal.pone.0027973" excluded previously excluded previously excluded "Hackley, P. C., & SanFilipo, J. R. (2016). Organic petrology and geochemistry of Eocene Suzak bituminous marl, north-central Afghanistan: Depositional environment and source rock potential. Marine and Petroleum Geology, 73, 572–589. https://doi.org/10.1016/j.marpetgeo.2016.02.029" excluded previously excluded previously excluded "Hakspiel-Segura, C. (2017). Temporal and spatial distribution of transparent exopolymer particles off the northern coast of Baja California, Mexico. Ciencias Marinas, 43(4), 249–267. https://doi.org/10.7773/cm.v43i4.2732" excluded previously excluded previously excluded "Hakspiel-Segura, C., Canosa-Torrado, A., & Pablo Nino-Garcia, J. (2015). Spatial and temporal variations of bacterioplankton in a high-mountain reservoir in the Colombian Andes / Variación espacial y temporal del bacterioplancton en un reservorio de alta montaña en los Andes colombianos. Hidrobiologica, 25(1), 62–73." excluded previously excluded previously excluded "Hakspiel-Segura, C., Rosso Londono, M. C., Canosa Torrado, A., & Nino Garcia, J. P. (2017). Spatial and temporal dynamics of virioplankton in a high mountain tropical reservoir, El Neusa (Cundinamarca, Colombia). Latin American Journal of Aquatic Research, 45(2), 341–355. https://doi.org/10.3856/vol45-issue2-fulltext-10" excluded previously excluded previously excluded "Hamann, E., Tegetmeyer, H. E., Riedel, D., Littmann, S., Ahmerkamp, S., Chen, J., et al. (2017). Syntrophic linkage between predatory Carpediemonas and specific prokaryotic populations. The ISME Journal, 11(5), 1205–1217. https://doi.org/10.1038/ismej.2016.197" excluded previously excluded previously excluded "Hamdan, H. Z., Salam, D. A., & Saikaly, P. E. (2019). Characterization of the microbial community diversity and composition of the coast of Lebanon: Potential for petroleum oil biodegradation. Marine Pollution Bulletin, 149, 110508. https://doi.org/10.1016/j.marpolbul.2019.110508" included excluded previously excluded "Hamdan, L. J., Coffin, R. B., Sikaroodi, M., Greinert, J., Treude, T., & Gillevet, P. M. (2013). Ocean currents shape the microbiome of Arctic marine sediments. The ISME Journal, 7(4), 685–696. https://doi.org/10.1038/ismej.2012.143" included excluded previously excluded "Hamels, I., Moens, T., Muylaert, K., & Vyverman, W. (2001). Trophic interactions between ciliates and nematodes from an intertidal flat. Aquatic Microbial Ecology, 26, 61–72. https://doi.org/10.3354/ame026061" excluded previously excluded previously excluded "Hamels, I., Muylaert, K., Casteleyn, G., & Vyverman, W. (2001). Uncoupling of bacterial production and flagellate grazing in aquatic sediments: A case study from an intertidal flat. Aquatic Microbial Ecology, 25, 31–42. https://doi.org/10.3354/ame025031" included included included "Hamels, I., Muylaert, K., Sabbe, K., & Vyverman, W. (2005). Contrasting dynamics of ciliate communities in sandy and silty sediments of an estuarine intertidal flat. European Journal of Protistology, 41(4), 241–250. https://doi.org/10.1016/j.ejop.2005.02.002" excluded previously excluded previously excluded "Hamels, I., Sabbe, K., Muylaert, K., & Vyverman, W. (2004). Quantitative importance, composition, and seasonal dynamics of protozoan communities in polyhaline versus freshwater intertidal sediments. Microbial Ecology, 47(1), 18–29. https://doi.org/10.1007/s00248-003-2011-x" excluded previously excluded previously excluded "Han, M., Liu, F., Zhang, F., Li, Z., & Lin, H. (2012). Bacterial and archaeal symbionts in the South China Sea sponge Phakellia fusca: Community structure, relative abundance, and ammonia-oxidizing populations. Marine Biotechnology, 14(6), 701–713. https://doi.org/10.1007/s10126-012-9436-5" excluded previously excluded previously excluded "Hannachi, A., Elarbaoui, S., Khazri, A., Sellami, B., Rastelli, E., D’Agostino, F., et al. (2016). Impact of the biocide Irgarol on meiofauna and prokaryotes from the sediments of the Bizerte lagoon—an experimental study. Environmental Science and Pollution Research, 23(8), 7712–7721. https://doi.org/10.1007/s11356-015-5936-y" excluded previously excluded previously excluded "Hansen, C. T., Niggemann, J., Giebel, H.-A., Simon, M., Bach, W., & Dittmar, T. (2019). Biodegradability of hydrothermally altered deep-sea dissolved organic matter. Marine Chemistry, 217, 103706. https://doi.org/10.1016/j.marchem.2019.103706" excluded previously excluded previously excluded "Hansen, J., & Skilleter, G. (1994). Effects of the gastropod Rhinoclavis aspera (Linnaeus, 1758) on microbial biomass and productivity in coral-reef-flat sediments. Marine and Freshwater Research, 45(4), 569. https://doi.org/10.1071/MF9940569" included excluded previously excluded "Hanson, A. M., Berges, J. A., & Young, E. B. (2017). Virus morphological diversity and relationship to bacteria and chlorophyll across a freshwater trophic gradient in the Lake Michigan watershed. Hydrobiologia, 794(1), 93–108." excluded previously excluded previously excluded "Hanson, C. E., McLaughlin, M. J., Hyndes, G. A., & Strzelecki, J. (2009). Selective uptake of prokaryotic picoplankton by a marine sponge (Callyspongia sp.) within an oligotrophic coastal system. Estuarine, Coastal and Shelf Science, 84(2), 289–297. https://doi.org/10.1016/j.ecss.2009.05.019" excluded previously excluded previously excluded "Harder, T., Lam, C., & Qian, P. (2002). Induction of larval settlement in the polychaete Hydroides elegans by marine biofilms: An investigation of monospecific diatom films as settlement cues. Marine Ecology Progress Series, 229, 105–112. https://doi.org/10.3354/meps229105" excluded previously excluded previously excluded "Hardoim, C. C. P., & Costa, R. (2014). Temporal dynamics of prokaryotic communities in the marine sponge Sarcotragus spinosulus. Molecular Ecology, 23(12), 3097–3112. https://doi.org/10.1111/mec.12789" excluded previously excluded previously excluded "Hardoim, C. C. P., Esteves, A. I. S., Pires, F. R., Gonçalves, J. M. S., Cox, C. J., Xavier, J. R., & Costa, R. (2012). Phylogenetically and spatially close marine sponges harbour divergent bacterial communities. PLoS ONE, 7(12), e53029. https://doi.org/10.1371/journal.pone.0053029" excluded previously excluded previously excluded "Haro-Moreno, J. M., Rodriguez-Valera, F., & López-Pérez, M. (2019). Prokaryotic population dynamics and viral predation in a marine succession experiment using metagenomics. Frontiers in Microbiology, 10, 2926. https://doi.org/10.3389/fmicb.2019.02926" included excluded previously excluded "Haro-Moreno, J. M., Rodriguez-Valera, F., López-García, P., Moreira, D., & Martin-Cuadrado, A.-B. (2017). New insights into marine group III Euryarchaeota, from dark to light. The ISME Journal, 11(5), 1102–1117. https://doi.org/10.1038/ismej.2016.188" excluded previously excluded previously excluded "Harrison, J. P., Sapp, M., Schratzberger, M., & Osborn, A. M. (2011). Interactions between microorganisms and marine microplastics: A call for research. Marine Technology Society Journal, 45(2), 12–20. https://doi.org/10.4031/MTSJ.45.2.2" excluded previously excluded previously excluded "Harrison, J. P., Schratzberger, M., Sapp, M., & Osborn, A. M. (2014). Rapid bacterial colonization of low-density polyethylene microplastics in coastal sediment microcosms. BMC Microbiology, 14(1), 1–15. https://doi.org/10.1186/s12866-014-0232-4" excluded previously excluded previously excluded "Hattenrath-Lehmann, T. K., & Gobler, C. J. (2017). Identification of unique microbiomes associated with harmful algal blooms caused by Alexandrium fundyense and Dinophysis acuminata. Harmful Algae, 68, 17–30. https://doi.org/10.1016/j.hal.2017.07.003" excluded previously excluded previously excluded "Hausmann, K., Hülsmann, N., Polianski, I., Schade, S., & Weitere, M. (2002). Composition of benthic protozoan communities along a depth transect in the eastern Mediterranean Sea. Deep-Sea Research I, 49(11), 1959–1970. https://doi.org/10.1016/S0967-0637(02)00095-X" included excluded previously excluded "Hautmann, M., Bagherpour, B., Brosse, M., Frisk, Å., Hofmann, R., Baud, A., et al. (2015). Competition in slow motion: The unusual case of benthic marine communities in the wake of the end-Permian mass extinction. Palaeontology, 58(5), 871–901. https://doi.org/10.1111/pala.12186" excluded previously excluded previously excluded "He, M., Cai, L., Zhang, C., Jiao, N., & Zhang, R. (2017). Phylogenetic diversity of T4-type phages in sediments from the subtropical Pearl River Estuary. Frontiers in Microbiology, 8, 897. https://doi.org/10.3389/fmicb.2017.00897" excluded previously excluded previously excluded "Heery, E. C., Bishop, M. J., Critchley, L. P., Bugnot, A. B., Airoldi, L., Mayer-Pinto, M., et al. (2017). Identifying the consequences of ocean sprawl for sedimentary habitats. Journal of Experimental Marine Biology and Ecology, 492, 31–48. https://doi.org/10.1016/j.jembe.2017.01.020" excluded previously excluded previously excluded "Heery, E. C., Dafforn, K. A., Smith, J. A., Ushiama, S., & Mayer-Pinto, M. (2018). Not all artificial structures are created equal: Pilings linked to greater ecological and environmental change in sediment communities than seawalls. Marine Environmental Research, 142, 286–294. https://doi.org/10.1016/j.marenvres.2018.08.012" excluded previously excluded previously excluded "Heilskov, A. (2001). Effects of benthic fauna on organic matter mineralization in fish-farm sediments: Importance of size and abundance. ICES Journal of Marine Science, 58(2), 427–434. https://doi.org/10.1006/jmsc.2000.1026" excluded previously excluded previously excluded "Helber, S. B., Hoeijmakers, D. J. J., Muhando, C. A., Rohde, S., & Schupp, P. J. (2018). Sponge chemical defenses are a possible mechanism for increasing sponge abundance on reefs in Zanzibar. PLoS ONE, 13(6), 7–10. https://doi.org/10.1371/journal.pone.0197617" excluded previously excluded previously excluded "Hernandez-Aviles, J. S., Macek, M., Alcocer, J., Lopez-Trejo, B., & Merino-Ibarra, M. (2010). Prokaryotic picoplankton dynamics in a warm-monomictic saline lake: Temporal and spatial variation in structure and composition. 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Viriobenthos production and virioplankton sorptive scavenging by suspended sediment particles in coastal and pelagic waters. Microbial Ecology, 46(3), 337–347. https://doi.org/10.1007/s00248-002-1041-0" excluded previously excluded previously excluded "Hewson, I., & Fuhrman, J. A. (2006). Spatial and vertical biogeography of coral reef sediment bacterial and diazotroph communities. Marine Ecology Progress Series, 306, 79–86. https://doi.org/10.3354/meps306079" included excluded previously excluded "Hewson, I., O’Neil, J., Heil, C., Bratbak, G., & Dennison, W. (2001). Effects of concentrated viral communities on photosynthesis and community composition of co-occurring benthic microalgae and phytoplankton. Aquatic Microbial Ecology, 25, 1–10. https://doi.org/10.3354/ame025001" excluded previously excluded previously excluded "Hewson, I., Vargo, G. A., & Fuhrman, J. A. (2003). Bacterial diversity in shallow oligotrophic marine benthos and overlying waters: Effects of virus infection, containment, and nutrient enrichment. Microbial Ecology, 46(3), 322–336. https://doi.org/10.1007/s00248-002-1067-3" included excluded previously excluded "Hicks, N., Liu, X., Gregory, R., Kenny, J., Lucaci, A., Lenzi, L., et al. (2018). Temperature driven changes in benthic bacterial diversity influences biogeochemical cycling in coastal sediments. Frontiers in Microbiology, 9, 1730. https://doi.org/10.3389/fmicb.2018.01730" included excluded previously excluded "Hirose, E., Hirabayashi, S., Hori, K., Kasai, F., & Watanabe, M. M. (2006). UV protection in the photosymbiotic ascidian Didemnum molle inhabiting different depths. Zoological Science, 23(1), 57–63. https://doi.org/10.2108/zsj.23.57" excluded previously excluded previously excluded "Hoaki, T., Nishijima, M., Miyashita, H., & Maruyama, T. (1995). 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Response of bacterial communities to different detritus compositions in Arctic deep-sea sediments. Frontiers in Microbiology, 8, 266. https://doi.org/10.3389/fmicb.2017.00266" included included included "Hoffmann, R., Braeckman, U., Hasemann, C., & Wenzhöfer, F. (2018). Deep-sea benthic communities and oxygen fluxes in the Arctic Fram Strait controlled by sea-ice cover and water depth. Biogeosciences, 15(16), 4849–4869. https://doi.org/10.5194/bg-15-4849-2018" included included included "Hoffmann, R., Pasotti, F., Vázquez, S., Lefaible, N., Torstensson, A., MacCormack, W., et al. (2018). Spatial variability of biogeochemistry in shallow coastal benthic communities of Potter Cove (Antarctica) and the impact of a melting glacier. PLoS ONE, 13(12), e0207917. https://doi.org/10.1371/journal.pone.0207917" included included included "Hoffmann-Sell, L., Birgel, D., Arning, E. T., Föllmi, K. B., & Peckmann, J. (2011). 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Frontiers in Microbiology, 4, 299. https://doi.org/10.3389/fmicb.2013.00299" excluded previously excluded previously excluded "Kalwasinska, A., Deja-Sikora, E., Burkowska-But, A., Szabó, A., Felföldi, T., Kosobucki, P., et al. (2018). Changes in bacterial and archaeal communities during the concentration of brine at the graduation towers in Ciechocinek spa (Poland). Extremophiles, 22(2), 233–246. https://doi.org/10.1007/s00792-017-0992-5" excluded previously excluded previously excluded "Kaneko, R., Nagata, T., Suzuki, S., & Hamasaki, K. (2016). Depth-dependent and seasonal variability in archaeal community structure in the subarctic and subtropical western North Pacific. Journal of Oceanography, 72(3), 427–438. https://doi.org/10.1007/s10872-016-0372-2" excluded previously excluded previously excluded "Kang, H.-E., Yoon, T.-H., Yoon, S., Kim, H. J., Park, H., Kang, C.-K., & Kim, H.-W. (2018). Genomic analysis of red-tide water bloomed with Heterosigma akashiwo in Geoje. 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Journal of Experimental Marine Biology and Ecology, 353(2), 265–278. https://doi.org/10.1016/j.jembe.2007.09.014" excluded previously excluded previously excluded "Karrasch, B., Parra, O., Cid, H., Mehrens, M., Pacheco, P., Urrutia, R., et al. (2006). Effects of pulp and paper mill effluents on the microplankton and microbial self-purification capabilities of the Biobío River, Chile. Science of the total Environment, 359(1–3), 194–208. https://doi.org/10.1016/j.scitotenv.2005.03.029" excluded previously excluded previously excluded "Karuza, A., Celussi, M., Cibic, T., Del Negro, P., & De Vittor, C. (2012). Virioplankton and bacterioplankton in a shallow CO2-dominated hydrothermal vent (Panarea Island, Tyrrhenian Sea). Estuarine, Coastal and Shelf Science, 97, 10–18. https://doi.org/10.1016/j.ecss.2011.10.027" excluded previously excluded previously excluded "Karuza, A., Del Negro, P., Crevatin, E., & Fonda Umani, S. (2010). Viral production in the Gulf of Trieste (Northern Adriatic Sea): Preliminary results using different methodological approaches. Journal of Experimental Marine Biology and Ecology, 383(2), 96–104. https://doi.org/10.1016/j.jembe.2009.12.003" excluded previously excluded previously excluded "Katano, T., Kaneda, A., Kanzaki, N., Obayashi, Y., Morimoto, A., Onitsuka, G., et al. (2007). Distribution of prokaryotic picophytoplankton from Seto Inland Sea to the Kuroshio region, with special reference to ‘Kyucho’ events. Aquatic Microbial Ecology, 46, 191–201. https://doi.org/10.3354/ame046191" excluded previously excluded previously excluded "Kato, K., Nagaosa, K., Kimura, H., Katsuyama, C., Hama, K., Kunimaru, T., et al. (2009). Unique distribution of deep groundwater bacteria constrained by geological setting. Environmental Microbiology Reports, 1(6), 569–574. https://doi.org/10.1111/j.1758-2229.2009.00087.x" excluded previously excluded previously excluded "Kato, S., Kikuchi, S., Kashiwabara, T., Takahashi, Y., Suzuki, K., Itoh, T., et al. (2012). Prokaryotic abundance and community composition in a freshwater iron-rich microbial mat at circumneutral pH. Geomicrobiology Journal, 29(10), 896–905. https://doi.org/10.1080/01490451.2011.635763" excluded previously excluded previously excluded "Kato, S., Nakano, S., Kouduka, M., Hirai, M., Suzuki, K., Itoh, T., et al. (2019). Metabolic potential of As-yet-uncultured archaeal lineages of Candidatus hydrothermarchaeota thriving in deep-sea metal sulfide deposits. Microbes and Environments, 34(3), 293–303. https://doi.org/10.1264/jsme2.ME19021" excluded previously excluded previously excluded "Kazmiruk, T. N., Kazmiruk, V. D., & Bendell, L. I. (2018). Abundance and distribution of microplastics within surface sediments of a key shellfish growing region of Canada. PLoS ONE, 13(5), e0196005. https://doi.org/10.1371/journal.pone.0196005" excluded previously excluded previously excluded "Kellogg, C. (2004). Tropical Archaea: Diversity associated with the surface microlayer of corals. Marine Ecology Progress Series, 273, 81–88. https://doi.org/10.3354/meps273081" included excluded previously excluded "Kellogg, C. A. (2010). Enumeration of viruses and prokaryotes in deep-sea sediments and cold seeps of the Gulf of Mexico. Deep-Sea Research II, 57(21–23), 2002–2007. https://doi.org/10.1016/j.dsr2.2010.05.006" included included included "Kelly, L. W., Williams, G. J., Barott, K. L., Carlson, C. A., Dinsdale, E. A., Edwards, R. A., et al. (2014). Local genomic adaptation of coral reef-associated microbiomes to gradients of natural variability and anthropogenic stressors. Proceedings of the National Academy of Sciences, 111(28), 10227–10232. https://doi.org/10.1073/pnas.1403319111" excluded previously excluded previously excluded "Khachikyan, A., Milucka, J., Littmann, S., Ahmerkamp, S., Meador, T., Könneke, M., et al. (2019). Direct cell mass measurements expand the role of small microorganisms in nature. Applied and Environmental Microbiology, 85, 14. https://doi.org/10.1128/AEM.00493-19" excluded previously excluded previously excluded "Kientz, B., Marié, P., & Rosenfeld, E. (2012). Effect of abiotic factors on the unique glitter-like iridescence of Cellulophaga lytica. FEMS Microbiology Letters, 333(2), 101–108. https://doi.org/10.1111/j.1574-6968.2012.02614.x" excluded previously excluded previously excluded "Kilias, S. P., Nomikou, P., Papanikolaou, D., Polymenakou, P. N., Godelitsas, A., Argyraki, A., et al. (2013). New insights into hydrothermal vent processes in the unique shallow-submarine arc-volcano, Kolumbo (Santorini), Greece. Scientific Reports, 3(1), 2421. https://doi.org/10.1038/srep02421" included excluded previously excluded "Kim, J.-G., Park, S.-J., Quan, Z.-X., Jung, M.-Y., Cha, I.-T., Kim, S.-J., et al. (2014). Unveiling abundance and distribution of planktonic Bacteria and Archaea in a polynya in Amundsen Sea, Antarctica. Environmental Microbiology, 16(6), 1566–1578. https://doi.org/10.1111/1462-2920.12287" excluded previously excluded previously excluded "Kim, J.-H., Talbot, H. M., Zarzycka, B., Bauersachs, T., & Wagner, T. (2011). Occurrence and abundance of soil-specific bacterial membrane lipid markers in the Têt watershed (southern France): Soil-specific BHPs and branched GDGTs. Geochemistry, Geophysics, Geosystems, 12(2), Q02008. https://doi.org/10.1029/2010GC003364" excluded previously excluded previously excluded "King, G. M. (2018). Microbiomes of the Enteropneust, Saccoglossus bromophenolosus, and associated marine intertidal sediments of Cod Cove, Maine. Frontiers in Microbiology, 9, 3066. https://doi.org/10.3389/fmicb.2018.03066" excluded previously excluded previously excluded "Kiran, G. S., Sekar, S., Ramasamy, P., Thinesh, T., Hassan, S., Lipton, A. N., et al. (2018). Marine sponge microbial association: Towards disclosing unique symbiotic interactions. Marine Environmental Research, 140, 169–179. https://doi.org/10.1016/j.marenvres.2018.04.017" excluded previously excluded previously excluded "Kirchman, D. L., Yu, L., & Cottrell, M. T. (2003). Diversity and abundance of uncultured cytophaga-like bacteria in the Delaware estuary. Applied and Environmental Microbiology, 69(11), 6587–6596. https://doi.org/10.1128/AEM.69.11.6587-6596.2003" excluded previously excluded previously excluded "Klier, J., Dellwig, O., Leipe, T., Jürgens, K., & Herlemann, D. P. R. (2018). Benthic bacterial community composition in the oligohaline-marine transition of surface sediments in the Baltic Sea based on rRNA analysis. Frontiers in Microbiology, 9, 236. https://doi.org/10.3389/fmicb.2018.00236" included excluded previously excluded "Knapp, A. N. (2012). The sensitivity of marine N2 fixation to dissolved inorganic nitrogen. Frontiers in Microbiology, 3, 1–14. https://doi.org/10.3389/fmicb.2012.00374" excluded previously excluded previously excluded "Knittel, K., Boetius, A., Lemke, A., Eilers, H., Lochte, K., Pfannkuche, O., et al. (2003). Activity, distribution, and diversity of sulfate reducers and other bacteria in sediments above gas hydrate (Cascadia margin, Oregon). Geomicrobiology Journal, 20(4), 269–294. https://doi.org/10.1080/01490450303896" included included included "Knittel, K., Lösekann, T., Boetius, A., Kort, R., & Amann, R. (2005). Diversity and distribution of methanotrophic Archaea at cold seeps. Applied and Environmental Microbiology, 71(1), 467–479. https://doi.org/10.1128/AEM.71.1.467-479.2005" included excluded previously excluded "Korehi, H., & Schippers, A. (2013). Bioleaching of a marine hydrothermal sulfide ore with mesophiles, moderate thermophiles and thermophiles. Advanced Materials Research, 825, 229–232. https://doi.org/10.4028/www.scientific.net/AMR.825.229" excluded previously excluded previously excluded "Kormas, K. A., Meziti, A., Dählmann, A., De Lange, G. J., & Lykousis, V. (2008). Characterization of methanogenic and prokaryotic assemblages based on mcrA and 16S rRNA gene diversity in sediments of the Kazan mud volcano (Mediterranean Sea). Geobiology, 6(5), 450–460. https://doi.org/10.1111/j.1472-4669.2008.00172.x" included excluded previously excluded "Kormas, K. A., Pachiadaki, M. G., Karayanni, H., Leadbetter, E. R., Bernhard, J. M., & Edgcomb, V. P. (2015). Inter-comparison of the potentially active prokaryotic communities in the halocline sediments of Mediterranean deep-sea hypersaline basins. 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D., & Taghon, G. L. (1997). Rate of tube building and sediment particle size selection during tube construction by the tanaid crustacean, Leptochelia dubia. Estuaries, 20(3), 534. https://doi.org/10.2307/1352612" excluded previously excluded previously excluded "Kremer, B., & Kazmierczak, J. (2005). Cyanobacterial mats from Silurian black radiolarian cherts: Phototrophic life at the edge of darkness? Journal of Sedimentary Research, 75(5), 897–906. https://doi.org/10.2110/jsr.2005.069" excluded previously excluded previously excluded "Krevš, A., & Kucinskiene, A. (2018). Microbial decomposition of sedimentary organic matter in small temperate lakes. Fundamental and Applied Limnology/ Archiv für Hydrobiologie, 191(3), 239–251. https://doi.org/10.1127/fal/2018/1093" excluded previously excluded previously excluded "Kríbek, B., Sýkorová, I., Pašava, J., & Machovic, V. (2007). Organic geochemistry and petrology of barren and Mo–Ni–PGE mineralized marine black shales of the Lower Cambrian Niutitang Formation (South China). International Journal of Coal Geology, 72(3–4), 240–256. https://doi.org/10.1016/j.coal.2007.02.002" excluded previously excluded previously excluded "Kristensen, D. M., Cai, X., & Mushegian, A. (2011). Evolutionarily conserved orthologous families in phages are relatively rare in their prokaryotic hosts. Journal of Bacteriology, 193(8), 1806–1814. https://doi.org/10.1128/JB.01311-10" excluded previously excluded previously excluded "Kristensen, E., & Alongi, D. M. (2006). Control by fiddler crabs (Uca vocans) and plant roots (Avicennia marina) on carbon, iron, and sulfur biogeochemistry in mangrove sediment. Limnology and Oceanography, 51(4), 1557–1571. https://doi.org/10.4319/lo.2006.51.4.1557" excluded previously excluded previously excluded "Kröncke, I., Stoeck, T., Wieking, G., & Palojärvi, A. (2004). Relationship between structural and functional aspects of microbial and macrofaunal communities in different areas of the North Sea. Marine Ecology Progress Series, 282, 13–31. https://doi.org/10.3354/meps282013" included included included "Kröncke, I., Vanreusel, A., Vincx, M., Wollenburg, J. E., Mackensen, A., Liebezeit, G., & Behrends, B. (2000). Different benthic size-compartments and their relationship to sediment chemistry in the deep Eurasian Arctic Ocean. Marine Ecology Progress Series, 199, 31–41; Kröncke, I., Tan, T. L., & Stein, R. (1994). High benthic bacteria standing stock in deep Arctic basins. Polar Biology, 14(6), 423–428. https://doi.org/10.1007/BF00240263 https://doi.org/10.3354/meps199031" included included included "Kubera, L., & Donderski, W. (2017). Distribution and activity of benthic bacteria in four lakes in the Bory Tucholskie National Park (Poland). Aquatic Microbial Ecology, 79(2), 127–135. https://doi.org/10.3354/ame01827" excluded previously excluded previously excluded "Kubo, K., Lloyd, K. G., F Biddle, J., Amann, R., Teske, A., & Knittel, K. (2012). Archaea of the miscellaneous crenarchaeotal group are abundant, diverse and widespread in marine sediments. The ISME Journal, 6(10), 1949–1965. https://doi.org/10.1038/ismej.2012.37" excluded previously excluded previously excluded "Kulk, G., de Poll, W. H. van, Visser, R. J. W., & Buma, A. G. J. (2011). Distinct differences in photoacclimation potential between prokaryotic and eukaryotic oceanic phytoplankton. Journal of Experimental Marine Biology and Ecology, 398(1–2), 63–72. https://doi.org/10.1016/j.jembe.2010.12.011" excluded previously excluded previously excluded "Kyle, J. E., & Ferris, F. G. (2013). Geochemistry of virus–prokaryote interactions in freshwater and acid mine drainage environments, Ontario, Canada. Geomicrobiology Journal, 30(9), 769–778. https://doi.org/10.1080/01490451.2013.770978" excluded previously excluded previously excluded "Kyle, J. E., Eydal, H. S. C., Ferris, F. G., & Pedersen, K. (2008). Viruses in granitic groundwater from 69 to 450 m depth of the Äspö hard rock laboratory, Sweden. The ISME Journal, 2(5), 571–574. https://doi.org/10.1038/ismej.2008.18" excluded previously excluded previously excluded "Kyle, J. E., Pedersen, K., & Ferris, F. G. (2008). Virus mineralization at low pH in the Rio Tinto, Spain. Geomicrobiology Journal, 25(7–8), 338–345. https://doi.org/10.1080/01490450802402703" excluded previously excluded previously excluded "La Ferla, R., Maimone, G., Azzaro, M., Conversano, F., Brunet, C., Cabral, A. S., & Paranhos, R. (2012). Vertical distribution of the prokaryotic cell size in the Mediterranean Sea. Helgoland Marine Research, 66(4), 635–650. https://doi.org/10.1007/s10152-012-0297-0" excluded previously excluded previously excluded "La Ferla, Rosabruna, Maimone, G., Lo Giudice, A., Azzaro, F., Cosenza, A., & Azzaro, M. (2015). Cell size and other phenotypic traits of prokaryotic cells in pelagic areas of the Ross Sea (Antarctica). Hydrobiologia, 761(1), 181–194. https://doi.org/10.1007/s10750-015-2426-7" excluded previously excluded previously excluded "La Rosa, T., Mirto, S., Marino, A., Alonzo, V., Maugeri, T., & Mazzola, A. (2001). Heterotrophic bacteria community and pollution indicators of mussel-farm impact in the Gulf of Gaeta (Tyrrhenian Sea). Marine Environmental Research, 52(4), 301–321. https://doi.org/10.1016/S0141-1136(00)00272-5" included excluded previously excluded "La Rosa, T., Mirto, S., Mazzola, A., & Danovaro, R. (2001). Differential responses of benthic microbes and meiofauna to fish-farm disturbance in coastal sediments. Environmental Pollution, 112(3), 427–434. https://doi.org/10.1016/S0269-7491(00)00141-X" included included included "Labonté, J. M., Field, E. K., Lau, M., Chivian, D., Van Heerden, E., Wommack, K. E., et al. (2015). Single cell genomics indicates horizontal gene transfer and viral infections in a deep subsurface Firmicutes population. Frontiers in Microbiology, 6, 349. https://doi.org/10.3389/fmicb.2015.00349" excluded previously excluded previously excluded "Labrenz, M., Sintes, E., Toetzke, F., Zumsteg, A., Herndl, G. J., Seidler, M., & Jürgens, K. (2010). Relevance of a crenarchaeotal subcluster related to candidatus Nitrosopumilus maritimus to ammonia oxidation in the suboxic zone of the central Baltic Sea. The ISME Journal, 4(12), 1496–1508. https://doi.org/10.1038/ismej.2010.78" excluded previously excluded previously excluded "Lacoste, É., Piot, A., Archambault, P., McKindsey, C. W., & Nozais, C. (2018). Bioturbation activity of three macrofaunal species and the presence of meiofauna affect the abundance and composition of benthic bacterial communities. Marine Environmental Research, 136, 62–70. https://doi.org/10.1016/j.marenvres.2018.02.024" excluded previously excluded previously excluded "Langezaal, A. M., Ernst, S., Haese, R., van Bergen, P., & van der Zwaan, G. (2003). Disturbance of intertidal sediments: The response of bacteria and foraminifera. Estuarine, Coastal and Shelf Science, 58(2), 249–264. https://doi.org/10.1016/S0272-7714(03)00078-7" excluded previously excluded previously excluded "Langezaal, A. M., van Bergen, P. F., & van der Zwaan, G. J. (2004). The recovery of benthic foraminifera and bacteria after disturbance: Experimental evidence. Journal of Experimental Marine Biology and Ecology, 312(1), 137–170. https://doi.org/10.1016/j.jembe.2004.06.010" included excluded previously excluded "Lanzén, A., Lekang, K., Jonassen, I., Thompson, E. M., & Troedsson, C. 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Applied and Environmental Microbiology, 63(1), 50–56. https://doi.org/10.1128/aem.63.1.50-56.1997" excluded previously excluded previously excluded "Massana, R., Taylor, L. T., Murray, A. E., Wu, K. Y., Jeffrey, W. H., & DeLong, E. F. (1998). Vertical distribution and temporal variation of marine planktonic Archaea in the Gerlache Strait, Antarctica, during early spring. Limnology and Oceanography, 43(4), 607–617. https://doi.org/10.4319/lo.1998.43.4.0607" excluded previously excluded previously excluded "Massé, C., Meisterhans, G., Deflandre, B., Bachelet, G., Bourasseau, L., Bichon, S., et al. (2016). Bacterial and macrofaunal communities in the sediments of the West Gironde Mud Patch, Bay of Biscay (France). Estuarine, Coastal and Shelf Science, 179, 189–200. https://doi.org/10.1016/j.ecss.2016.01.011" included excluded previously excluded "Matys, E. D., Mackey, T., Grettenberger, C., Mueller, E., Jungblut, A., Sumner, D. Y., et al. (2019). 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Global Change Biology, 15(7), 1804–1816. https://doi.org/10.1111/j.1365-2486.2008.01799.x" excluded previously excluded previously excluded "McKew, B. A., Dumbrell, A. J., Taylor, J. D., McGenity, T. J., & Underwood, G. J. C. (2013). Differences between aerobic and anaerobic degradation of microphytobenthic biofilm-derived organic matter within intertidal sediments. FEMS Microbiology Ecology, 84(3), 495–509. https://doi.org/10.1111/1574-6941.12077" excluded previously excluded previously excluded "McKew, B. A., Taylor, J. D., McGenity, T. J., & Underwood, G. J. C. (2011). Resistance and resilience of benthic biofilm communities from a temperate saltmarsh to desiccation and rewetting. The ISME Journal, 5(1), 30–41. https://doi.org/10.1038/ismej.2010.91" excluded previously excluded previously excluded "McLeod, R. J., & Wing, S. R. (2007). Hagfish in the New Zealand fjords are supported by chemoautotrophy of forest carbon. Ecology, 88(4), 809–816. https://doi.org/10.1890/06-1342" excluded previously excluded previously excluded "Medina-Silva, R., Oliveira, R. R., Trindade, F. J., Borges, L. G. A., Lopes Simão, T. L., Augustin, A. H., et al. (2018). Microbiota associated with tubes of Escarpia sp. from cold seeps in the southwestern Atlantic Ocean constitutes a community distinct from that of surrounding marine sediment and water. Antonie van Leeuwenhoek, 111(4), 533–550. https://doi.org/10.1007/s10482-017-0975-7" excluded previously excluded previously excluded "Mehrshad, M., Salcher, M. M., Okazaki, Y., Nakano, S., Šimek, K., Andrei, A.-S., & Ghai, R. (2018). Hidden in plain sight-highly abundant and diverse planktonic freshwater Chloroflexi. Microbiome, 6(1), 176. https://doi.org/10.1186/s40168-018-0563-8" excluded previously excluded previously excluded "Meier, D. V., Bach, W., Girguis, P. R., Gruber-Vodicka, H. R., Reeves, E. P., Richter, M., et al. (2016). 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Hydrobiologia, 779(1), 243–257. https://doi.org/10.1007/s10750-016-2825-4" excluded previously excluded previously excluded "Mendes, C., Santos, L., Cunha, Â., Gomez, N. C. M., & Almeida, A. (2014). Proportion of prokaryotes enumerated as viruses by epifluorescence microscopy. Annals of Microbiology, 64(2), 773–778. https://doi.org/10.1007/s13213-013-0713-y" excluded previously excluded previously excluded "Meng, Z., Xu, K., & Lei, Y. (2011). Community composition, distribution, and contribution of microbenthos in offshore sediments from the Yellow Sea. Continental Shelf Research, 31(14), 1437–1446. https://doi.org/10.1016/j.csr.2011.06.008" included excluded previously excluded "Meng, Z., Xu, K., Dai, R., & Lei, Y. (2012). Ciliate community structure, diversity and trophic role in offshore sediments from the Yellow Sea. European Journal of Protistology, 48(1), 73–84. https://doi.org/10.1016/j.ejop.2011.08.001" excluded previously excluded previously excluded "Meng, Z., Xu, K., Dai, R., & Warren, A. (2018). Benthic ciliate diversity and community composition along water depth gradients: A comparison between the intertidal and offshore areas. European Journal of Protistology, 65, 31–41. https://doi.org/10.1016/j.ejop.2018.04.004" excluded previously excluded previously excluded "Mermillod-Blondin, F., Foulquier, A., Gilbert, F., Navel, S., Montuelle, B., Bellvert, F., et al. (2013). Benzo(a)pyrene inhibits the role of the bioturbator Tubifex tubifex in river sediment biogeochemistry. Science of the total Environment, 450–451, 230–241. https://doi.org/10.1016/j.scitotenv.2013.02.013" excluded previously excluded previously excluded "Meunier, A., & Jacquet, S. (2015). Do phages impact microbial dynamics, prokaryotic community structure and nutrient dynamics in Lake Bourget? Biology Open, 4(11), 1528–1537. https://doi.org/10.1242/bio.013003" excluded previously excluded previously excluded "Meyer, S., Wegener, G., Lloyd, K. G., Teske, A., Boetius, A., & Ramette, A. (2013). Microbial habitat connectivity across spatial scales and hydrothermal temperature gradients at Guaymas Basin. Frontiers in Microbiology, 4, 207. https://doi.org/10.3389/fmicb.2013.00207" included excluded previously excluded "Michaud, E., Desrosiers, G., Aller, R. C., Mermillod-Blondin, F., Sundby, B., & Stora, G. (2009). Spatial interactions in the Macoma balthica community control biogeochemical fluxes at the sediment-water interface and microbial abundances. Journal of Marine Research, 67(1), 43–70. https://doi.org/10.1357/002224009788597926" excluded previously excluded previously excluded "Michaud, L., Caruso, C., Mangano, S., Interdonato, F., Bruni, V., & Lo Giudice, A. (2012). Predominance of Flavobacterium, Pseudomonas, and Polaromonas within the prokaryotic community of freshwater shallow lakes in the northern Victoria Land, East Antarctica. FEMS Microbiology Ecology, 82(2), 391–404. https://doi.org/10.1111/j.1574-6941.2012.01394.x" excluded previously excluded previously excluded "Michaud, L., Lo Giudice, A., Mysara, M., Monsieurs, P., Raffa, C., Leys, N., et al. (2014). Snow surface microbiome on the High Antarctic Plateau (DOME C). PLoS ONE, 9(8), e104505. https://doi.org/10.1371/journal.pone.0104505" excluded previously excluded previously excluded "Michotey, V., Guasco, S., Boeuf, D., Morezzi, N., Durieux, B., Charpy, L., & Bonin, P. (2012). Spatio-temporal diversity of free-living and particle-attached prokaryotes in the tropical lagoon of Ahe atoll (Tuamotu Archipelago) and its surrounding oceanic waters. 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Marine Pollution Bulletin, 40(3), 244–252. https://doi.org/10.1016/S0025-326X(99)00209-X" included included included "Mirto, S., La Rosa, T., Mocciaro, G., Costa, K., Sarà, G., & Mazzola, A. (2004). Meiofauna and benthic microbial biomass in a semi-enclosed Mediterranean marine system (Stagnone of Marsala, Italy). Chemistry and Ecology, 20(sup1), 387–396. https://doi.org/10.1080/02757540410001655369" included included included "Misic, C., & Covazzi Harriague, A. (2019). Development of marine biofilm on plastic: Ecological features in different seasons, temperatures, and light regimes. Hydrobiologia, 835(1), 129–145. https://doi.org/10.1007/s10750-019-3934-7" excluded previously excluded previously excluded "Mizuno, C. M., Ghai, R., & Rodriguez-Valera, F. (2014). Evidence for metaviromic islands in marine phages. Frontiers in Microbiology, 5, 27. https://doi.org/10.3389/fmicb.2014.00027" excluded previously excluded previously excluded "Moitinho-Silva, L., Seridi, L., Ryu, T., Voolstra, C. R., Ravasi, T., & Hentschel, U. (2014). Revealing microbial functional activities in the Red Sea sponge Stylissa carteri by metatranscriptomics. Environmental Microbiology, 16(12), 3683–3698. https://doi.org/10.1111/1462-2920.12533" excluded previously excluded previously excluded "Mojica, K. D. A., Carlson, C. A., & Behrenfeld, M. J. (2020). Regulation of low and high nucleic acid fluorescent heterotrophic prokaryote subpopulations and links to viral-induced mortality within natural prokaryote-virus communities. Microbial Ecology, 79(1), 213–230. https://doi.org/10.1007/s00248-019-01393-9" included excluded previously excluded "Molari, M., & Manini, E. (2012). Reliability of CARD-FISH procedure for enumeration of Archaea in deep-sea surficial sediments. Current Microbiology, 64(3), 242–250. https://doi.org/10.1007/s00284-011-0056-5" included included included "Molari, M., Giovannelli, D., D’Errico, G., & Manini, E. (2012). Factors influencing prokaryotic community structure composition in sub-surface coastal sediments. Estuarine, Coastal and Shelf Science, 97, 141–148. https://doi.org/10.1016/j.ecss.2011.11.036" included included included "Molari, M., Guilini, K., Lins, L., Ramette, A., & Vanreusel, A. (2019). CO2 leakage can cause loss of benthic biodiversity in submarine sands. Marine Environmental Research, 144, 213–229. https://doi.org/10.1016/j.marenvres.2019.01.006" excluded previously excluded previously excluded "Molari, M., Guilini, K., Lott, C., Weber, M., de Beer, D., Meyer, S., et al. (2018). CO2 leakage alters biogeochemical and ecological functions of submarine sands. Science Advances, 4(2), eaao2040. https://doi.org/10.1126/sciadv.aao2040" included included included "Molari, M., Manini, E., & Dell’Anno, A. (2013). 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Bioaccumulation of polycyclic aromatic hydrocarbons (PAHs) by the marine clam, Mactra veneriformis, chronically exposed to oil-suspended particulate matter aggregates. Environmental Science and Technology, 52(14), 7910–7920. https://doi.org/10.1021/acs.est.7b06692" excluded previously excluded previously excluded "Noyer, C., Casamayor, E. O., & Becerro, M. A. (2014). Environmental heterogeneity and microbial inheritance influence sponge-associated bacterial composition of Spongia lamella. Microbial Ecology, 68(3), 611–620. https://doi.org/10.1007/s00248-014-0428-z" excluded previously excluded previously excluded "Nozais, C., Desrosiers, G., Gosselin, M., Belzile, C., & Demers, S. (1999). Effects of ambient UVB radiation in a meiobenthic community of a tidal mudflat. Marine Ecology Progress Series, 189, 149–158. https://doi.org/10.3354/meps189149" excluded previously excluded previously excluded "Nunes, C. de A. P., & Jangoux, M. (2008). 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