Plant Phylogenomics 1000 plant (1KP) project

genbank versus 1kp on 20120315The 1000 plant project is an international multidisciplinary project generating transcriptomic data for over 1000 plant species representing major lineages of green plants (Viridiplantae). This project has two main goals: firsly, phylogenomic approach to resolving species relationship and secondly, tracing major leaps in evolution of Viridiplantae.

Follow the links to learn more….

Jim Leebens-MacK 2013. Plant Phylogenomics: lessons learnt from the 1Kp project at the New Methods for Phylogenomics and Metagenomics Symposium

N.J. Wickett et al. Nov. 2014.  A phylotranscriptomics analysis of the origin and early diversification of land plants. Proc. Natl. Acad. Sci. USA. doi: 10.1073/pnas.1323926111. In this study the authors have tried to through light on the phylogenic relationship among land plants and their closest green algal relative using a large taxon set and nulcear genes.

Naim Matasci et al. Data access for the 1,000 Plants (1KP) project. GigaScience 2014, 3:17  doi:10.1186/2047-217X-3-17

M.T. Johnson et al. Nov2012. Evaluating methods for isolating total RNA and predicting the success of sequencing phylogenetically diverse plant transcriptomes. PLoS One 7: e50226.

Y. Xie et al. Jun 2014. SOAPdenovo-Trans: De novo transcriptome assembly with short RNA-Seq reads. Bioinformatics 30: 1660-1666
Todd H. Oakley et al. Phylotranscriptomics to Bring the Understudied into the Fold: Monophyletic Ostracoda, Fossil Placement and Pancrustacean Phylogeny. Molecular Biology and Evolution (2012) doi: 10.1093/molbev/mss216
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