Proteomics-based confirmation of protein expression and correction of annotation errors in the Brucella abortus genome

BMC Genomics

Research Article

Julie Lamontagne¹  Maxime Béland¹  Alexandra Côté-Martin¹  Fadi Tomaki¹  Eustache Paramithiotis¹  Anik Forest¹  Najib Nassif¹  Ignacio Moriyón²  Edgardo Moreno³ 

[1] Caprion Proteomics Inc., 7150 Alexander-Fleming, Montreal, Quebec, Canada;Depto. Microbiología - Edificio de Investigación, Universidad de Navarra, Pamplona, España;Programa de Investigación en Enfermedades Tropicales, Escuela de Medicina Veterinaria, Universidad Nacional, Heredia, Costa Rica;

关键词: Brucellosis;    Annotation Error;    Brucella Abortus;    Brucella Species;    Brucella Strain;   

DOI  :  10.1186/1471-2164-11-300

 received in 2009-11-18, accepted in 2010-05-12,  发布年份 2010

来源: Springer

【 摘 要 】

BackgroundBrucellosis is a major bacterial zoonosis affecting domestic livestock and wild mammals, as well as humans around the globe. While conducting proteomics studies to better understand Brucella abortus virulence, we consolidated the proteomic data collected and compared it to publically available genomic data.ResultsThe proteomic data was compiled from several independent comparative studies of Brucella abortus that used either outer membrane blebs, cytosols, or whole bacteria grown in media, as well as intracellular bacteria recovered at different times following macrophage infection. We identified a total of 621 bacterial proteins that were differentially expressed in a condition-specific manner. For 305 of these proteins we provide the first experimental evidence of their expression. Using a custom-built protein sequence database, we uncovered 7 annotation errors. We provide experimental evidence of expression of 5 genes that were originally annotated as non-expressed pseudogenes, as well as start site annotation errors for 2 other genes.ConclusionsAn essential element for ensuring correct functional studies is the correspondence between reported genome sequences and subsequent proteomics studies. In this study, we have used proteomics evidence to confirm expression of multiple proteins previously considered to be putative, as well as correct annotation errors in the genome of Brucella abortus strain 2308.

【 授权许可】

Unknown   
© Lamontagne et al; licensee BioMed Central Ltd. 2010. This article is published under license to BioMed Central Ltd. This is an Open Access article distributed under the terms of the Creative Commons Attribution License (http://creativecommons.org/licenses/by/2.0), which permits unrestricted use, distribution, and reproduction in any medium, provided the original work is properly cited.