Data from: Taxonomic, phylogenetic and ecological diversity of Niphargus (Amphipoda: Crustacea) in the Hölloch cave system (Switzerland)

Fišer C, Konec M, Alther R, Švara V, Altermatt F

Date Published: December 20, 2016

DOI: http://dx.doi.org/10.5061/dryad.pp176

 

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Title 28S_alignment
Downloaded 2 times
Description Alignment of 169 partial 28S rDNA nucleotide sequences from amphipods in genus Niphargus. Sequences were highly variable in their length and were aligned in MAFFT ver. 6 using the E-INS-i option for sequences with multiple conserved domains and long gaps.
Download 28S_alignment.fasta (170.0 Kb)
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Title COI_alignment
Downloaded 1 time
Description Alignment of 117 nucleotide sequences of mitochondrial gene cytochrome oxidase subunit I (COI), partial cds, from amphipods in genus Niphargus. Sequences were aligned with a simple alghoritm (Geneious alignment).
Download COI_alignment.fasta (79.08 Kb)
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Title H3_alignment
Downloaded 5 times
Description Alignment of 109 nucleotide sequences of nuclear gene histone H3, partial cds, from amphipods in genus Niphargus. All sequences were the same length and were aligned using a simple alghoritm (Geneious alignment).
Download H3_alignment.fasta (37.27 Kb)
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Title Concatenated alignments
Downloaded 3 times
Description Concatenated alignments of all three genes (28S, H3, COI).
Download Concatenated alignments .fasta (355.8 Kb)
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Title MrBayes output
Downloaded 5 times
Description Output files from MRBAYES for each gene(28S, H3, COI) analysed separately and a concatenated analysis.
Download MrBayes output.rar (339.0 Mb)
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When using this data, please cite the original publication:

Fišer C, Konec M, Alther R, Švara V, Altermatt F (2016) Taxonomic, phylogenetic and ecological diversity of Niphargus (Amphipoda: Crustacea) in the Hölloch cave system (Switzerland). Systematics and Biodiversity 15(3): 218-237. http://dx.doi.org/10.1080/14772000.2016.1249112

Additionally, please cite the Dryad data package:

Fišer C, Konec M, Alther R, Švara V, Altermatt F (2016) Data from: Taxonomic, phylogenetic and ecological diversity of Niphargus (Amphipoda: Crustacea) in the Hölloch cave system (Switzerland). Dryad Digital Repository. http://dx.doi.org/10.5061/dryad.pp176
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