Cool Plant Comparative Genomics Resource: Phytozome

I spent the last few days at a “retreat” for the Joint Genome Institute and heard about a few things there worth sharing with everyone. I will try and post about some of them in the next few days. Here is one. The JGI and the Center for Integrative Genomics have made a pretty cool tool for comparative analyses of plant genomes. It is called Phytozome and has a variety of simple and nice features. JGI is doing more and more work on plant genomes as part of their energy research and I think Phytozome could turn into a good place to go to get the latest plant genome information. Go to to see the real thing.

Author: Jonathan Eisen

I am an evolutionary biologist and a Professor at U. C. Davis. (see my lab site here). My research focuses on the origin of novelty (how new processes and functions originate). To study this I focus on sequencing and analyzing genomes of organisms, especially microbes and using phylogenomic analysis

3 thoughts on “Cool Plant Comparative Genomics Resource: Phytozome”

  1. That’s a really nice resource! Great interface, too. Looking fwd to reading the paper describing the clustering algorithm. Is it distance-based? A similar tool is < HREF="" REL="nofollow">OrthologID<> that uses a character-based phylogenetic framework to establish orthology. Chiu et al. (2006) OrthologID: automation of genome-scale ortholog identification within a parsimony framework. <>Bioinformatics<> 22(6):699-707. [< HREF="" REL="nofollow">free full text<>]


  2. Wow, clustering of extant genes to get ancient genome data, and all in one site! I’m sure this will be a great resource for my work. I also love the data retrieval service BioMart at Phytozome.


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