Welcome to Phytozome v2.0.4

The Phytozome project organizes the proteomes of 5 land plants into gene families defined at six ancestral nodes on the land plant evolutionary tree. Use the Find Gene Families buttons to study the evolutionary history of a gene of interest from one of the five included proteomes (search gene families using gene symbols, deflines, PFAM/Panther domain content with Keyword Search) or place a gene from a different plant in the most appropriate gene family (using the BLAST search of gene family consensus sequences). Alternatively, you can BLAST search and browse the genomes of any of the included 5 land plants using the Explore Genomes buttons. Every gene in the single organism BLAST results and browsers is hyperlinked to one of its gene families, enabling you to move back and forth between organism-centric and gene family-centric views.

none All nodes land plants angiosperms grasses rosids Ppa duplication Ath duplication text blast

Find Gene Families
Choose a node from the tree (or choose ALL nodes), then choose an action:

Land plant evolution:

• Arabidopsis thaliana
• Populus trichocarpa
• Oryza sativa
• Sorghum bicolor
• Physcomitrella patens

Explore Genomes
Choose a single organism from the tree, then choose an action:

News and updates

• [03/26/2008] New Sorghum bicolor assembly and annotation released
  v1.0, the first chromosome-based assembly (Sbi1) and annotation(Sbi1.4) is now available...more
• [01/11/2008] First look at soybean (Glycine max) assembly and annotation
  A preliminary assembly and annotation of the soybean (Glycine max) genome is now available at the Phytozome site. Please click here for more details.
• [01/08/2008] Minor update to Phytozome interface
  We've removed the Click-Info panel from the Cluster Summary page. The information formerly displayed there, systenic gene cluster information and PFAM domain information, is now displayed in pop-up boxes...more
• [11/12/2007] Composite cluster capability added to Phytozome v2.0.3
  We've added the ability to combine the gene clusters found in single node keyword or BLAST search into a "composite" cluster that can be viewed in a cluster summary page. This is especially helpful when dealing with cases of "under-clustering,"...more
• [10/23/2007] Update to Phytozome interface
  Version 2.0.2 of the Phytozome website includes three new features: the ability to only show details for species of interest, the ability to view gene family MSAs (Multiple Sequence Alignments) directly from the cluster summary page, and ...more
• [7/1/2007] Two additional plant genomes added
  Phytozome now includes a preliminary annotation of the grass Sorghum bicolor, as well as the version 1.1 annotation of the moss Physcomitrella patens....more
• [7/1/2007] New website
  A complete rework of the Phytozome website has just been completed. Navigation has been simplified, several features have been enhanced, and help documentation has been expanded....more