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  • Plant neighborhood shapes diversity and reduces interspecific variation of the phyllosphere microbiome. Meyer et. al 2022. ISME-J.
Title: Plant neighborhood shapes diversity and reduces interspecific variation of the phyllosphere microbiome. Meyer et. al 2022. ISME-J.
This is the data archive for: Meyer et al. 2022. Plant neighborhood shapes diversity and reduces interspecific variation of the phyllosphere microbiome. ISME-J. Please cite this article when using these archived data.</div>DOI: 10.1038/s41396-021-01184-6</div></div>Included are raw genetic sequences of the V5-V7 region of the 16S rRNA gene derived from experimental leaf surfaces of tomato, pepper, and bean plants.</div></div>Included in this archive are:</div>Raw sequence data (RawFASTQ.zip)</div>Reproducible R scripts (MeyerEtAl2021_RScript.R, VarPartSupplement.R)</div>R objects corresponding to archived scripts (.RDS)</div>Data for generating certain plots (PermanovaRValues.txt, PermanovaValuesByHost.txt, NeutralModelRValuesByHarvest.txt, VarPartHostEffects.txt)</div>Sample metadata (NeighborhoodMetaData.txt)</div>Phylogenetic Tree file for sample ASVs (PhyloTree.tre)</div>Geographic distance matrix for distances between plots (GeodistNeighborhood.txt)</div>ddPCR (microbial abundance) data (ddPCR_Neighborhood.csv)</div>R script for rarefication function (Rarefy_mean.R)</div>Taxonomic assignments for all ASVs in study (Taxonomy_Neighborhood.txt)</div>R image files to load R environment instead of running script (MeyerEtAl2021_RScript.RData, VarPartSupplement.RData)</div></div></div></div>  more » « less
Award ID(s):
1754494
PAR ID:
10331763
Author(s) / Creator(s):
Publisher / Repository:
figshare
Date Published:
Subject(s) / Keyword(s):
60504 Microbial Ecology
Format(s):
Medium: X Size: 3018236214 Bytes
Size(s):
3018236214 Bytes
Sponsoring Org:
National Science Foundation
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Note that all files ending with .tsv are files formatted as UTF8 encoded tab-separated values files. https://www.iana.org/assignments/media-types/text/tab-separated-values Included in this review archive are: README: This file. review_summary.tsv: Summary across all reviewed collections of total number of distinct review comments. review_summary_by_collection.tsv: Summary by reviewed collection of total number of distinct review comments. indexed_interactions_by_collection.tsv: Summary of number of indexed interaction records by institutionCode and collectionCode. review_comments.tsv.gz: All review comments by collection. indexed_interactions_full.tsv.gz: All indexed interactions for all reviewed collections. indexed_interactions_simple.tsv.gz: All indexed interactions for all reviewed collections selecting only sourceInstitutionCode, sourceCollectionCode, sourceCatalogNumber, sourceTaxonName, interactionTypeName and targetTaxonName. datasets_under_review.tsv: Details on the datasets under review. elton.jar: Program used to update datasets and generate the review reports and associated indexed interactions. datasets.zip: Source datasets used by elton.jar in process of executing the generate_report.sh script. generate_report.sh: Program used to generate the report generate_report.log: Log file generated as part of running the generate_report.sh script"]} 
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