Phytophthora sojae Assembly and Gene Annotation

About Phytophthora sojae

Phytophthora sojae is an oomycete and a soil-borne plant pathogen that causes stem and root rot of soybean. This is a prevalent disease in most soybean growing regions, and a major cause of crop loss. In wet conditions the pathogen produces zoospores that move in water and are attracted to soybean roots. Zoospores can attach to roots, germinate, and infect the plant tissues. Diseased roots develop lesions that may spread up the stem and eventually kill the entire plant. Phytophthora sojae also produces oospores that can remain dormant in the soil over the winter, or longer, and germinate when conditions are favourable. Oospores may also be spread by animals or machinery.

Taxonomy ID 67593

(Text from Wikipedia.)

More information General information about this species can be found in Wikipedia

Assembly

The genome was assembled by JGI and is also available from the EMBL/Genbank/DDBJ databases under the accession GCA_000149755.1.

Annotation

The protein coding genes in this site were imported from JGI. Non coding RNA genes have been annotated using tRNAScan-SE (Lowe, T.M. and Eddy, S.R. 1997), RFAM (Griffiths-Jones et al 2005), and RNAmmer (Lagesen K.,et al 2007); additional analysis tools have also been applied.

References

1. Phytophthora genome sequences uncover evolutionary origins and mechanisms of pathogenesis.
   Tyler BM, Tripathy S, Zhang X, Dehal P, Jiang RH, Aerts A, Arredondo FD, Baxter L, Bensasson D, Beynon JL et al. 2006. Science. 313:1261-1266.
2. Expressed sequence tags from phytophthora sojae reveal genes specific to development and infection.
   Torto-Alalibo TA, Tripathy S, Smith BM, Arredondo FD, Zhou L, Li H, Chibucos MC, Qutob D, Gijzen M, Mao C et al. 2007. Mol. Plant Microbe Interact.. 20:781-793.

Picture credit: Nicholls H: Stopping the Rot. PLoS Biol 2/7/2004: e213M Reproduced courtesy of Matteo Garbelotto, UC Berkeley.

Other Data

Transcriptomics data from ten different developmental and infection stages of P.sojae (SRP006969) were also added as BAM tracks.

More information

General information about this species can be found in Wikipedia.