Puccinia graminis (ASM14992v1)

Puccinia graminis Assembly and Gene Annotation

The inclusion of the Puccinia graminis f. sp. tritici genome in Ensembl Genomes has been funded by the award of a grant from the Bill & Melinda Gates Foundation to EBI, the Broad Institute, and the USDA-ARS Cereal Disease Laboratory.

About the Puccinia graminis f. sp. tritici genome

Puccinia graminis is the causal agent of stem rust that causes serious disease in cereal crops. It is an obligate plant pathogen.

Annotation

The sequencing, assembly and annotation of protein coding genes from the Puccinia graminis f. sp. tritici (CRL 75-36-700-3) genome has been generated by the Broad Institute as part of their work on the Puccinia group of fungi (http://www.broadinstitute.org/annotation/genome/puccinia_group/Info.html). The genome has been sequenced to a coverage of 12x and was most recently updated in 2008. It consists of 393 scaffolds with a total size of 84 Mb. The current release includes the most recent gene set from Broad Institute that consists in 15,800 protein coding genes submitted to INSDC in 16/12/2011.

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.

Variation

The variation data available in this site was generated by resequencing of the reference strain 7a (CRL 75-36-700-3), race SCCL, by the Broad Institute.

More information

General information about this species can be found in Wikipedia.

Statistics

Summary

AssemblyASM14992v1, INSDC Assembly GCA_000149925.1, Feb 2012
Database version94.1
Base Pairs88,724,376
Golden Path Length88,724,376
Genebuild byBroad
Genebuild methodGenerated from Broad and UniProtKB annotation
Data sourceBroad Institute

Gene counts

Coding genes15,800
Non coding genes890
Small non coding genes888
Long non coding genes2
Pseudogenes156
Gene transcripts17,025

Other

Short Variants216,521

About this species