Data from: Targeted gene enrichment and high-throughput sequencing for environmental biomonitoring: a case study using freshwater macroinvertebrates

Dowle EJ, Pochon X, Banks JC, Shearer K, Wood SA

Date Published: November 16, 2015

DOI: http://dx.doi.org/10.5061/dryad.67n7n

 

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Title MyBaits Sequences
Downloaded 7 times
Description Sequences used for the MyBait Probe design (120 bp)
Download MyBaitsSeqNoWrapNoNames.fasta (4.298 Mb)
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Title Mybaits M4
Downloaded 5 times
Description Mybaits data file for sample M4
Download MybaitsM4.zip (308.8 Mb)
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Title Mybaits M10
Downloaded 8 times
Description Mybaits data. Sample M10
Download MybaitsM10.zip (408.5 Mb)
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Title Mybaits M11
Downloaded 3 times
Description Mybaits data. Sample M11
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Title Mybaits M12
Downloaded 2 times
Description Mybaits data. Sample M12
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Title Mybaits M13
Downloaded 6 times
Description Mybaits datafile. Sample M13
Download MybaitsM13.zip (462.4 Mb)
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Title Mybaits M14
Downloaded 7 times
Description Mybaits data. Sample M14
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Title Mybaits M15
Downloaded 12 times
Description Mybaits datafile. Sample M15
Download MybaitsM15.zip (293.8 Mb)
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Title Mybaits M16
Downloaded 3 times
Description Mybaits datafiles. Sample M16
Download MybaitsM16.zip (350.4 Mb)
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Title Mybaits M17
Downloaded 2 times
Description Mybaits datafile. Sample M17
Download MybaitsM17.zip (415.4 Mb)
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Title Mybaits M18
Downloaded 6 times
Description Mybaits datafile. Sample M18
Download MybaitsM18.zip (341.3 Mb)
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Title Mybaits M19
Downloaded 3 times
Description Mybaits datafile. Sample M19
Download MybaitsM19.zip (404.3 Mb)
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Title Mybaits M20
Downloaded 3 times
Description Mybaits datafile. Sample M20
Download MybaitsM20.zip (322.5 Mb)
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Title Amplicon Sequencing Files
Downloaded 12 times
Description All 12 samples. Amplicon Sequencing data zipped together.
Download AmpliconSequencingFiles.zip (370.5 Mb)
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Title Table results
Downloaded 17 times
Description Table showing the results in read counts between samples and methods
Download SITable2.xlsx (23.72 Kb)
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Title Sanger Sequencing Reads COI
Downloaded 12 times
Description Sanger sequencing of some missing species. Name in Fasta file. Species names are unknown.
Download COIreads.fasta (6.984 Kb)
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Title Sample file explanation
Downloaded 9 times
Description Samples are referred to by there number and type of lab prep in the sample files. I.e. RS4 has a A4 (amplicon) and M4 mybaits samples associated with it in the sample files
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Title MMCI biomass calculation
Downloaded 6 times
Description Spreadsheet with the details regarding the biomass calculations included.
Download MMCIbiomassCalculationSupp.xlsx (83.81 Kb)
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Title Reference databases
Downloaded 23 times
Description Two files zipped together. One fasta file contains all the genes associated with the Mayflies, Stoneflies and Caddisflies. These three groups had the additional genes used in the mapping protocol. The second fasta contains the sequences for all other species (only COI sequences).
Download ReferenceDataBases.zip (57.02 Mb)
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Title Location Samples
Downloaded 12 times
Description Details on the river samples location. All rivers are located in New Zealand.
Download LocationSamples.xlsx (8.89 Kb)
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When using this data, please cite the original publication:

Dowle EJ, Pochon X, Banks JC, Shearer K, Wood SA (2016) Targeted gene enrichment and high-throughput sequencing for environmental biomonitoring: a case study using freshwater macroinvertebrates. Molecular Ecology Resources 16(5): 1240–1254. http://dx.doi.org/10.1111/1755-0998.12488

Additionally, please cite the Dryad data package:

Dowle EJ, Pochon X, Banks JC, Shearer K, Wood SA (2015) Data from: Targeted gene enrichment and high-throughput sequencing for environmental biomonitoring: a case study using freshwater macroinvertebrates. Dryad Digital Repository. http://dx.doi.org/10.5061/dryad.67n7n
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