Leptosphaeria maculans Assembly and Gene Annotation
About the Leptosphaeria maculans genome
Leptosphaeria maculans (anamorph Phoma lingam) is the causal agent of blackleg disease on Brassica crops. One of the symptoms of this disease is stem canker leading to major crop losses. The life cycle of this fungus consists of alternation between a saprohytic phase on plant residues, a necrotrophic short phase on leaves and a long phase of endophytism inside the plant tissues. Finally, it eventually kills the plant with another nectrotrophic phase at the basis of the stem.
The genome sequence and assembly of the Leptosphaeria maculans (JN3) genome have been generated by Genoscope EVRY and annotated by URGI-INRA.
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.
'Expressed Sequence Tags' (ESTs) from dbEST are aligned to the genome using Exonerate.
- Effector diversification within compartments of the Leptosphaeria maculans genome affected by Repeat-Induced Point mutations.
Rouxel T, Grandaubert J, Hane JK, Hoede C, van de Wouw AP, Couloux A, Dominguez V, Anthouard V, Bally P, Bourras S et al. 2011. Nat Commun. 2:202.
Picture credit: Picture credit: Dr. H. Brun. INRA
General information about this species can be found in Wikipedia.
|Assembly||ASM23037v1, INSDC Assembly GCA_000230375.1, Feb 2012|
|Golden Path Length||45,124,619|
|Genebuild method||Generated from ENA and UniProtKB annotation|
|Data source||Genoscope - CEA|
|Non coding genes||406|
|Small non coding genes||398|
|Long non coding genes||5|
|Misc non coding genes||3|