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| Prediction of Pathogenic Bacteria Type-Ⅲ-Secretion- System-Specific Effector Proteins and Analysis of its Specific Motifs/Domains |
| LIU Ying, WANG Tao, WANG Shang, WANG Jing, GAO Zhixian, NIU Chao |
| Institute of Health and Environmental Medicine, Academy of Military Medical Sciences, Tianjin 300050, China |
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Abstract Objective To identify the orthologous genes of pathogenic bacterial type Ⅲ secretion system(TTSS) effector proteins in nonpathogenic bacteria, to obtain TTSS-specific effector proteins and analyze their motifs/domains, and to expand understanding of pathogenic mechanisms of bacterial TTSS effector proteins.Methods We constructed a non-pathogenic bacteria protein database and collected 49 pathogenic bacterial TTSS effector proteins from literatures, then the collected 49 TTSS effector proteins and the proteins from the non-pathogenic bacteria protein database were compared by conducting the reciprocal-best-BLAST-hits(RBH). The TTSS effector protein sequences that had no orthologous genes in nonpathogenic bacteria were TTSS-specific effector protein, and analyzed by motif /domain search using InterProScan.Results In the collected 49 TTSS effector proteins, 18 effector proteins had one or more orthologous proteins in the non-pathogenic bacteria protein database, 12 effector-protein-specific motifs/domains were identified in the remaining 31 effector protein sequences that had no orthologous proteins in nonpathogenic bacteria.Conclusion The 31 effector protein sequences that had no orthologous proteins in nonpathogenic bacteria and 12 effector-protein-specific motifs/domains s are closely related to the functions of the effector proteins, and may be used as template to search for new exotoxins by mining pathogenic bacterial genomes. The analysis of the acquired Gene Ontology (GO) items was to further expand our understanding of pathogenic mechanisms of bacterial TTSS effector proteins.
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Published: 01 September 2016
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2016, Vol. 34 
