Access to RNA-sequencing data from 1,173 plant species: The 1000 Plant transcriptomes initiative (1KP)

November 13th, 2019
By Gitzendanner, Matt

Carpenter, E. J., N. Matasci, S. Ayyampalayam, S. Wu, J. Sun, J. Yu, F. R. Jimenez Vieira, C. Bowler, R. G. Dorrell, M. A. Gitzendanner, L. Li, W. Du, K. K. Ullrich, N. J. Wickett, T. J. Barkmann, M. S. Barker, J. H. Leebens-Mack, and G. K.-S. Wong. 2019. Access to RNA-sequencing data from 1,173 plant species: The 1000 Plant transcriptomes initiative (1KP). Gigascience 8. [View on Publisher’s site]

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.

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