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Genome analysis of E. coli isolated from Crohn’s disease patients

Overview of attention for article published in BMC Genomics, July 2017
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Title
Genome analysis of E. coli isolated from Crohn’s disease patients
Published in
BMC Genomics, July 2017
DOI 10.1186/s12864-017-3917-x
Pubmed ID
Authors

Daria V. Rakitina, Alexander I. Manolov, Alexandra V. Kanygina, Sofya K. Garushyants, Julia P. Baikova, Dmitry G. Alexeev, Valentina G. Ladygina, Elena S. Kostryukova, Andrei K. Larin, Tatiana A. Semashko, Irina Y. Karpova, Vladislav V. Babenko, Ruzilya K. Ismagilova, Sergei Y. Malanin, Mikhail S. Gelfand, Elena N. Ilina, Roman B. Gorodnichev, Eugenia S. Lisitsyna, Gennady I. Aleshkin, Petr L. Scherbakov, Igor L. Khalif, Marina V. Shapina, Igor V. Maev, Dmitry N. Andreev, Vadim M. Govorun

Abstract

Escherichia coli (E. coli) has been increasingly implicated in the pathogenesis of Crohn's disease (CD). The phylogeny of E. coli isolated from Crohn's disease patients (CDEC) was controversial, and while genotyping results suggested heterogeneity, the sequenced strains of E. coli from CD patients were closely related. We performed the shotgun genome sequencing of 28 E. coli isolates from ten CD patients and compared genomes from these isolates with already published genomes of CD strains and other pathogenic and non-pathogenic strains. CDEC was shown to belong to A, B1, B2 and D phylogenetic groups. The plasmid and several operons from the reference CD-associated E. coli strain LF82 were demonstrated to be more often present in CDEC genomes belonging to different phylogenetic groups than in genomes of commensal strains. The operons include carbon-source induced invasion GimA island, prophage I, iron uptake operons I and II, capsular assembly pathogenetic island IV and propanediol and galactitol utilization operons. Our findings suggest that CDEC are phylogenetically diverse. However, some strains isolated from independent sources possess highly similar chromosome or plasmids. Though no CD-specific genes or functional domains were present in all CD-associated strains, some genes and operons are more often found in the genomes of CDEC than in commensal E. coli. They are principally linked to gut colonization and utilization of propanediol and other sugar alcohols.

Twitter Demographics

The data shown below were collected from the profile of 1 tweeter who shared this research output. Click here to find out more about how the information was compiled.

Mendeley readers

The data shown below were compiled from readership statistics for 58 Mendeley readers of this research output. Click here to see the associated Mendeley record.

Geographical breakdown

Country Count As %
Unknown 58 100%

Demographic breakdown

Readers by professional status Count As %
Student > Ph. D. Student 16 28%
Researcher 13 22%
Student > Bachelor 6 10%
Student > Master 5 9%
Other 3 5%
Other 7 12%
Unknown 8 14%
Readers by discipline Count As %
Biochemistry, Genetics and Molecular Biology 13 22%
Agricultural and Biological Sciences 13 22%
Medicine and Dentistry 9 16%
Immunology and Microbiology 4 7%
Computer Science 3 5%
Other 5 9%
Unknown 11 19%

Attention Score in Context

This research output has an Altmetric Attention Score of 1. This is our high-level measure of the quality and quantity of online attention that it has received. This Attention Score, as well as the ranking and number of research outputs shown below, was calculated when the research output was last mentioned on 14 March 2018.
All research outputs
#12,210,430
of 13,791,430 outputs
Outputs from BMC Genomics
#7,017
of 8,022 outputs
Outputs of similar age
#237,934
of 274,445 outputs
Outputs of similar age from BMC Genomics
#12
of 12 outputs
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So far Altmetric has tracked 8,022 research outputs from this source. They receive a mean Attention Score of 4.3. This one is in the 1st percentile – i.e., 1% of its peers scored the same or lower than it.
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We're also able to compare this research output to 12 others from the same source and published within six weeks on either side of this one. This one is in the 1st percentile – i.e., 1% of its contemporaries scored the same or lower than it.