logo

SCIENCE CHINA Life Sciences, Volume 62 , Issue 9 : 1261-1263(2019) https://doi.org/10.1007/s11427-018-9460-9

Genomic characterization of an atypical enteropathogenic Escherichia coli strain isolated in Fujian province, China

More info
  • ReceivedOct 30, 2018
  • AcceptedNov 16, 2018
  • PublishedMar 12, 2019

Abstract

There is no abstract available for this article.


Funded by

the following grants: Initiative Projects of Medical Sciences in Fujian(2011-CXB-19)

Natural Science Foundation of Fujian(2014J01282,2016Y0011)

and Ministry of Science and Technology of China(2017ZX10103008)


Acknowledgment

We thank the team of curators of the Institut Pasteur MLST and whole genome MLST databases for curating the data and making them publicly available at http://bigsdb.pasteur.fr/. This work was supported by the following grants: Initiative Projects of Medical Sciences in Fujian (2011-CXB-19), Natural Science Foundation of Fujian (2014J01282 and 2016Y0011), and Ministry of Science and Technology of China (2017ZX10103008).


Interest statement

The author(s) declare that they have no conflict of interest.


Supplement

SUPPORTING INFORMATION

Figure S1ƒSummary of subsystem category distribution of strain 2010137Y genome on the RAST server.

Figure S2ƒPhylogenetic relationship of strain 2010137Y and 32 E.coli reference strains. The maximum-likelihood tree was constructed based on concatenated sequences of 7,518 bp consisting of 8-locus Pasteur’s scheme and 7-locus Achtman’s scheme. All strains were listed with strain name, GenBank accession number and serotype. Strain 2010137Y was labeled with a black diamond, other E.coli reference strains in the MAUVE analysis were labeled with a black triangle.

Table S1ƒSelected subsystems and CDSs potentially linked to pathogenesis, as predicted by the RAST server

Table S2ƒVirulence factors identified by VirulenceFinder2.0 sever

Table S3ƒBLAST hits of the top 30 largest contigs with the highest-ranked reference strains

Table S4ƒComparison of strain 2010137Y with 14 E. coli reference strains

The supporting information is available online at http://life.scichina.com and http://link.springer.com. The supporting materials are published as submitted, without typesetting or editing. The responsibility for scientific accuracy and content remains entirely with the authors.


References

[1] Chen, A., Chen, J., Yang, J., Lin, J., Zheng, J., and Yan, Y. (2011). Identification and preliminary molecular characterization of an atypical enteropathogenic Escherichia coli strain from Fujian (in Chinese). Chin J Zoonoses 27, 275–278. Google Scholar

[2] Clermont O., Gordon D., Denamur E.. Guide to the various phylogenetic classification schemes for Escherichia coli and the correspondence among schemes. Microbiology, 2015, 8: 980 CrossRef PubMed Google Scholar

[3] Darling A.C.E., Mau B., Blattner F.R., Perna N.T.. MAUVE: multiple alignment of conserved genomic sequence with rearrangements. Genome Res, 2004, 14: 1394-1403 CrossRef PubMed Google Scholar

[4] Joensen K.G., Scheutz F., Lund O., Hasman H., Kaas R.S., Nielsen E.M., Aarestrup F.M.. Real-time whole-genome sequencing for routine typing, surveillance, and outbreak detection of verotoxigenic Escherichia coli. J Clin Microbiol, 2014, 52: 1501-1510 CrossRef PubMed Google Scholar

[5] Overbeek R., Olson R., Pusch G.D., Olsen G.J., Davis J.J., Disz T., Edwards R.A., Gerdes S., Parrello B., Shukla M., et al. The SEED and the rapid annotation of microbial genomes using subsystems technology (RAST). Nucleic Acids Res, 2014, 42: D206-D214 CrossRef PubMed Google Scholar

qqqq

Contact and support