Taxonomic group: bacteria / Proteobacteria
(Phylum: Proteobacteria)
Associated disease: infection due to Escherichia coli [ICD11:
XN6P4 
]
NCBI PubMed ID: 15186455Journal NLM ID: 9706280Publisher: Oxford: Blackwell Publishing for the Society for Applied Bacteriology
Correspondence: wanglei
nankai.edu.cn
Institutions: TEDA School of Biological Sciences and Biotechnology, Tianjin State Laboratory of Microbial Functional Genomics, Nankai University, TEDA, Tianjin, China
Abstract h. guo, l. feng, j. tao, c. zhang and l. wang. 2004.Aim: To characterize the locus for O-antigen biosynthesis from Escherichia coli O172 type strain and to develop a rapid, specific and sensitive PCR-based method for identification and detection of E. coli O172. Methods and Results: DNA of O-antigen gene cluster of E. coli O172 was amplified by long-range PCR method using primers based on housekeeping genes galF and gnd Shot gun bank was constructed and high quality sequencing was performed. The putative genes for synthesis of UDP-FucNAc, O-unit flippase, O-antigen polymerase and glycosyltransferases were assigned by the homology search. The evolutionary relationship between O-antigen gene clusters of E. coli O172 and E. coli O26 is shown by sequence comparison. Genes specific to E. coli O172 strains were identified by PCR assays using primers based on genes for O-unit flippase, O-antigen polymerase and glycosyltransferases. The specificity of PCR assays was tested using all E. coli and Shigella O-antigen type strains, as well as 24 clinical E. coli isolates. The sensitivity of PCR assays was determined, and the detection limits were 1 pg microl(-1) chromosomal DNA, 0.2 CFU g(-1) pork and 0.2 CFU ml(-1) water. The total time required from beginning to end of the procedure was within 16 h. Conclusion: The O-antigen gene cluster of E. coli O172 was identified and PCR assays based on O-antigen specific genes showed high specificity and sensitivity. Significance and Impact of the Study: An O-antigen gene cluster was identified by sequencing. The specific genes were determined for E. coli O172. The sensitivity of O-antigen specific PCR assay was tested. Although Shiga toxin-producing O172 strains were not yet isolated from clinical specimens, they may emerge as pathogens
Molecular typing, Escherichia coli O172, O-antigen gene cluster, specific genes, STEC
Structure type: suggested polymer biological repeating unit
Location inside paper: Fig. 2
Compound class: O-polysaccharide, O-antigen
Contained glycoepitopes: IEDB_137340,IEDB_141807,IEDB_142488,IEDB_144998,IEDB_145002,IEDB_146664,IEDB_151531,IEDB_983931,SB_192
Biosynthesis and genetic data: genetic data
Related record ID(s): 3112, 20708, 21747, 21772
NCBI Taxonomy refs (TaxIDs): 562Reference(s) to other database(s): GTC:G58779ZT
Show glycosyltransferases
There is only one chemically distinct structure:
Found 
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