Aspergillus nidulans (ASM1142v1)

Funding

CADRE is currently funded by SYBARIS, an EU Framework Programe 7 collaborative project, grant agreement number 242220.

Funding for the incorporation of the Aspergillus nidulans genome within Ensembl Genomes has been provided by the European Commission under FELICS, contract number 021902 (RII3) within the Research Infrastructure Action of the FP6 "Structuring the European Research Area" Programme.

About the Aspergillus nidulans genome

In March 2003, the Broad Institute publically released a 13X coverage of A. nidulans (FGSC A4) obtained by whole genome shotgun sequencing. As part of an international collaboration to improve the annotation for A. nidulans, A. fumigatus and A. oryzae, a second round of automated gene prediction and annotation was performed on this genome by TIGR (renamed the The J. Craig Venter Institute). Several programs were used by TIGR to aid in the functional assignment of a predicted gene: i.e., NAP, BLASTP, InterProScan, HMM2, PrositeSearch, Psort, SignalP and TMHMM. This data was publically released in 2005.

More recently (September 2008), this genome has received attention from a group of experts via a European consortium, namely Eurofungbase. This consortium has corrected many gene structures and/or annotations manually. For the remainder, information has been transferred from orthologues (chiefly A. fumigatus and A. niger) where possible.

Using information available from the Broad A. nidulans Website and John Clutterbuck's A. nidulans linkage map Website, we have also attempted to build the most accurate assembly. At present, there are eight linkage groups (I to VIII) and a number of unassigned fragments annotated within CADRE.

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.

Picture credit: Aspergillus/Aspergillosis Website owned by the Fungal Research Trust

Taxonomy ID 227321

Data source CADRE

More information and statistics

Gene annotation

What can I find? Protein-coding and non-coding genes, splice variants, cDNA and protein sequences, non-coding RNAs.

More about this genebuild

Download genes, cDNAs, ncRNA, proteins - FASTA - GFF3

Update your old Ensembl IDs

Comparative genomics

What can I find? Homologues, gene trees, and whole genome alignments across multiple species.

More about comparative analyses

Phylogenetic overview of gene families

Download alignments (EMF)

Variation

This species currently has no variation database. However you can process your own variants using the Variant Effect Predictor:

Variant Effect Predictor

About this species