Access to RNA-sequencing data from 1,173 plant species: The 1000 Plant transcriptomes initiative (1KP).
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ABSTRACT: Background
The 1000 Plant transcriptomes initiative (1KP) explored genetic diversity by sequencing RNA from 1,342 samples representing 1,173 species of green plants (Viridiplantae).Findings
This data release accompanies the initiative's final/capstone publication on a set of 3 analyses inferring species trees, whole genome duplications, and gene family expansions. These and previous analyses are based on de novo transcriptome assemblies and related gene predictions. Here, we assess their data and assembly qualities and explain how we detected potential contaminations.Conclusions
These data will be useful to plant and/or evolutionary scientists with interests in particular gene families, either across the green plant tree of life or in more focused lineages.
SUBMITTER: Carpenter EJ
PROVIDER: S-EPMC6808545 | biostudies-literature | 2019 Oct
REPOSITORIES: biostudies-literature
Publications
Access to RNA-sequencing data from 1,173 plant species: The 1000 Plant transcriptomes initiative (1KP).
Carpenter Eric J EJ Matasci Naim N Ayyampalayam Saravanaraj S Wu Shuangxiu S Sun Jing J Yu Jun J Jimenez Vieira Fabio Rocha FR Bowler Chris C Dorrell Richard G RG Gitzendanner Matthew A MA Li Ling L Du Wensi W K Ullrich Kristian K Wickett Norman J NJ Barkmann Todd J TJ Barker Michael S MS Leebens-Mack James H JH Wong Gane Ka-Shu GK
GigaScience 20191001 10
<h4>Background</h4>The 1000 Plant transcriptomes initiative (1KP) explored genetic diversity by sequencing RNA from 1,342 samples representing 1,173 species of green plants (Viridiplantae).<h4>Findings</h4>This data release accompanies the initiative's final/capstone publication on a set of 3 analyses inferring species trees, whole genome duplications, and gene family expansions. These and previous analyses are based on de novo transcriptome assemblies and related gene predictions. Here, we asse ...[more]
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