Melampsora larici-populina Assembly and Gene Annotation

About Melampsora larici-populina

Melampsora larici-populina is one of the causal agents of poplar rust, the most important disease of poplars. It has reduced considerably the use of this tree for environmental and wood production purposes. The first symptoms appear on susceptible poplars showing small yellow spots on the upper leaf surface and a pale yellow to orange rust in the lower leaf surface (urediniospores that will reinfect other poplars).

Aerts A., Salamov A., Schmutz J., Shapiro H., Lindquist E., Lucas S., Pitluck S., Duplessis S., Lin Y.-C., Tisserant E., Veneault-Fourrey C., Joly D., Hacquard S., Amselem J., Cantarel B., Readman C., Coutinho P., Feau N., Field M., Frey P., Gelhaye E., Kohler A., Kues U., Morin E., Murat C., Quesneville H., Rouhier N., Selles B., Tangay P., Tuskan G., Van de Peer Y., Henrissat B., Rouze P., Schein J., Dodds P., Hamelin R., Martin F., Grigoriev I., Submitted (05-APR-2011) to the INSDC. US DOE Joint Genome Institute, 2800 Mitchell Drive, Walnut Creek, CA 94598-1698, USA

Picture credit: Rasbak

Assembly

The genome sequence and assembly of the Melampsora larici-populina genome have been generated by the JGI under funding of the US Department of Energy's Office of Science, Biological and Environmental Research Program, and by the University of California, Lawrence Berkeley National Laboratory.

Annotation

The protein coding gene annotation of the Melampsora larici-populina genome have been generated by the JGI. The gene models were imported from the annotation submitted to EMBL-Bank as the whole shotgun sequencing set AECX00000000.

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. Obligate biotrophy features unraveled by the genomic analysis of rust fungi.
   Duplessis S, Cuomo CA, Lin YC, Aerts A, Tisserant E, Veneault-Fourrey C, Joly DL, Hacquard S, Amselem J, Cantarel BL et al. 2011. Proc. Natl. Acad. Sci. U.S.A.. 108:9166-9171.

Other Data

'Expressed Sequence Tags' (ESTs) from dbEST are aligned to the genome using Exonerate.