Annotation of 8 Aspergillus genomes derived by the multi8208;genome Gnomon pipeline

Ref ID: 18484

Author:

Alexandre Souvorov, Barbara Robbertse, Tatiana Tatusova

Author address:

NCBI  

Full conference title:

11 th European Conference on Fungal Genetics

Abstract:

Recent advances in genome sequencing technologies allow generating whole genomes for many organisms in a
fast and cost8208;effective way. Accurate annotation of the genomes is still a challenge. Large8208;scale sequencing
projects usually provide additional experimental data (EST, full8208;length cDNA) that can be utilized in the annotation
process to improve the quality of gene models. More recently sequencing efforts are concentrated on pathogens
and model organisms from Fungi and Protozoa organism groups and are focused on sequencing of genomes of
closely related organisms for evolution, genetics and comparative studies. These genomes are relatively small but
often lack additional transcript or protein data. Using comparative multi8208;genome approach can greatly improve
the accuracy of gene prediction compared to single genome method. The multi8208;genome Gnomon approach allows
utilizing the transcript and protein data from closely related organisms in a single multi8208;genome annotation run.
This method starts from a single genome Gnomon gene prediction and then uses a comparative analysis among
multiple genomes to gradually improve the annotation through an iterative process. At each iteration the best
models are selected and used as a training set and evidence for the next step. Transcript and protein alignments
are used to guide gene model predictions. The most recent version of Gnomon can utilize RNA8208;Seq data giving
more support to the splice junctions. Eight Aspergillus genomes have been annotated simultaneously using this
method. Four of these genomes have RNA8208;Seq data available. It was found that the multi8208;genome approach
successfully used the indirect RNA8208;Seq data to improve the annotation of genomes without such data. The
resulting annotation has proven to be more consistent across the genomes than the annotation of the individual
genomes.

Abstract Number: PR3.34

Conference Year: 2012

Link to conference website: http://www.ecfg.info/images/Abstract_Book_Electronic.pdf

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