Genome Annotation of Beauveria bassiana

To maximize accuracy, the gene structures of B. bassiana were predicted with a combination of different algorithms17 (link)18 (link). The inconsistent ORFs were individually subject to Blast searches against the NCBI curated refseq_protein database and manually inspected. Previously acquired ESTs14 (link) were used to verify and complete the predicted gene models. All predicted gene models were annotated by InterproScan analysis (http://www.ebi.ac.uk/Tools/pfa/iprscan/). The potential secreted proteins were predicted by SignaIP 3.0 (http://www.cbs.dtu.dk/services/SignalP/) and TargetP (http://www.cbs.dtu.dk/services/TargetP/) analysis. Genome repetitive elements were analyzed by Blast against the RepeatMasker library (Open 3.2.9) (http://www.repeatmasker.org/) and with the Tandem Repeat Finder (http://tandem.bu.edu/trf/trf.html). The transposases/retrotransposases were classified by Blastp analysis against the Repbase (http://www.girinst.org/repbase/) plus manual inspections. Putative Beauveria virulence factors were identified by searching against the pathogen-host interaction database (http://www.phi-base.org/about.php) with a cut-off E value of 1e-5, plus additional searches of known virulence genes reported in entomopathogenic fungi. One tail t-tests were conducted to compare the difference of protein family sizes between insect pathogens and other fungi.

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Xiao G., Ying S.H., Zheng P., Wang Z.L., Zhang S., Xie X.Q., Shang Y., St. Leger R.J., Zhao G.P., Wang C, & Feng M.G. (2012). Genomic perspectives on the evolution of fungal entomopathogenicity in Beauveria bassiana. Scientific Reports, 2, 483.

Publication 2012

Beauveria Fungi Genes Genome elements Insect Library Orfs Pathogen host interaction Pathogens Protein Tail Tandem repeat Transposases Virulence Virulence factors

Corresponding Organization :

Other organizations : Shanghai Institutes for Biological Sciences, Chinese Academy of Sciences, Zhejiang University, University of Maryland, College Park

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Variable analysis

independent variables

Algorithms used to predict gene structures of B. bassiana
BLAST searches against the NCBI curated refseq_protein database
Annotation of predicted gene models using InterproScan analysis
Prediction of secreted proteins using SignalIP 3.0 and TargetP
Analysis of genome repetitive elements using BLAST against the RepeatMasker library and Tandem Repeat Finder
Classification of transposases/retrotransposases using BLASTP analysis against the Repbase
Identification of putative Beauveria virulence factors by searching against the pathogen-host interaction database

dependent variables

Accuracy of gene structure prediction
Consistency of open reading frames (ORFs)
Completeness of predicted gene models
Identification of secreted proteins
Characterization of genome repetitive elements
Identification of putative virulence factors

control variables

Previously acquired ESTs used to verify and complete the predicted gene models

Annotations

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