Data from: Phylogenetic diversity and environment form assembly rules for Arctic diatom genera—a study on recent and ancient sedimentary DNA ...
Aim This study investigates taxonomic and phylogenetic diversity in diatom genera to evaluate assembly rules for eukaryotic microbes across the Siberian treeline. We first analysed how phylogenetic distance relates to taxonomic richness and turnover. Second, we used relatedness indices to evaluate i...
| Main Authors: | , , , |
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| Format: | Dataset |
| Language: | English |
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Dryad
2020
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| Subjects: | |
| Online Access: | https://dx.doi.org/10.5061/dryad.h18931zg9 https://datadryad.org/stash/dataset/doi:10.5061/dryad.h18931zg9 |
| Summary: | Aim This study investigates taxonomic and phylogenetic diversity in diatom genera to evaluate assembly rules for eukaryotic microbes across the Siberian treeline. We first analysed how phylogenetic distance relates to taxonomic richness and turnover. Second, we used relatedness indices to evaluate if environmental filtering or competition influences the assemblies in space and through time. Third, we used distance-based ordination to test which environmental variables shape diatom turnover. Location Yakutia and Taymyria, Russia: we sampled 78 surface sediments and a sediment core, extending to 7000 years before present, to capture the forest–tundra transition in space and time, respectively. Taxon Arctic freshwater diatoms. Methods We applied metabarcoding to retrieve diatom diversity from surface and core sedimentary DNA. The taxonomic assignment binned sequence types (lineages) into genera and created taxonomic (abundance of lineages within different genera) and phylogenetic datasets (phylogenetic ... : The raw sequencing data has been produced on two runs on an Economy lane of a HiSeq Illumina device (2x125bp, output~2.5 GB). The runs HUA-1/KD050 and HUA-3/KD079 are stored as zipped .fastq files. The raw sequencing data was trimmed with the bioinformatic pipeline OBITools (Boyer et al. 2016). See documentation of the pipeline in the files (Bioinformatic_pipeline_HUA-1_KD050.txt and Bioinformatic_pipeline_HUA-1_KD079.txt). To re run the pipeline we provide two tagfiles (tagfile_KD050.txt and tagfile_KD079.txt) needed for demultiplexing the data. In the tag files, "EB" indicate Extraction blanks and "NTC" indicate No Template controls of the PCRs. An description of the tagfile is also provided in a .xlsx file (Tag_files_KD050_KD079.xlsx). The final taxaonomic assigment of the filtered raw sequence data is provided in the files: pairedend_KD050_assigned_uniq_10_clean_embl127.txt and pairedend_KD079_assigned_uniq_10_clean_embl127.txt. The final genus data sets are provided as .xlsx files: ... |
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