Comparative Genomics of cpn60-Defined Enterococcus hirae Ecotypes and Relationship of Gene Content Differences to Competitive Fitness

I Katyal; Bonnie L Chaban; J E Hill

doi:10.1007/s00248-015-0708-2

Back

Comparative Genomics of cpn60-Defined Enterococcus hirae Ecotypes and Relationship of Gene Content Differences to Competitive Fitness

Journal article

Peer reviewed

Comparative Genomics of cpn60-Defined Enterococcus hirae Ecotypes and Relationship of Gene Content Differences to Competitive Fitness

I Katyal, Bonnie L Chaban and J E Hill

Microbial Ecology, Vol.72(4), pp.917-930

2016

DOI: https://doi.org/10.1007/s00248-015-0708-2

Files and links (1)

url

https://doi.org/10.1007/s00248-015-0708-2View

Published Version

Abstract

competitive fitness index

cpn60

ecotype

enterococcus hirae

genome

Natural microbial communities undergo selection-driven succession with changes in environmental conditions and available nutrients. In a previous study of the pig faecal Enterococcus community, we demonstrated that cpn60 universal target (UT) sequences could resolve phenotypically and genotypically distinct ecotypes of Enterococcus spp. that emerged over time in the faecal microbiome of growing pigs. In this study, we characterized genomic diversity in the identified Enterococcus hirae ecotypes in order to define further the nature and degree of genome content differences between taxa resolved by cpn60 UT sequences. Genome sequences for six representative isolates (two from each of three ecotypes) were compared. Differences in phosphotransferase systems and amino acid metabolism pathways for glutamine, proline and selenocysteine were observed. Differences in the lac family phosphotransferase system corresponded to lactose utilization phenotypes of the isolates. Competitive fitness of the E. hirae ecotypes was evaluated by in vitro growth competition assays in pig faecal extract medium. Isolates from E. hirae-1 and E. hirae-2 ecotypes were able to out-compete isolates from the E. hirae-3 ecotype, consistent with the relatively low abundance of E. hirae-3 relative to E. hirae-1 and E. hirae-2 previously observed in the pig faecal microbiome, and with observed differences between the ecotypes in gene content related to biosynthetic capacity. Results of this study provide a genomic basis for the definition of ecotypes within E. hirae and confirm the utility of the cpn60 UT sequence for high-resolution profiling of complex microbial communities. © 2015, Springer Science+Business Media New York.

Details

Title: Comparative Genomics of cpn60-Defined Enterococcus hirae Ecotypes and Relationship of Gene Content Differences to Competitive Fitness
Authors: I Katyal (Author) - University of Saskatchewan, Canada
Bonnie L Chaban (Author) - Imperial College London, United Kingdom
J E Hill (Author) - University of Saskatchewan, Canada
Publication details: Microbial Ecology, Vol.72(4), pp.917-930
Publisher: Springer New York LLC
Date published: 2016
DOI: 10.1007/s00248-015-0708-2
ISSN: 0095-3628
Organisation Unit: University of the Sunshine Coast, Queensland; Thompson Institute; Centre for Bioinnovation
Language: English
Record Identifier: 99450324902621
Output Type: Journal article

Metrics

452 Record Views

8 Times Cited - Web of Science

InCites Highlights

These are selected metrics from InCites Benchmarking & Analytics tool, related to this output

Collaboration types: Domestic collaboration; International collaboration
Web Of Science research areas: Ecology; Marine & Freshwater Biology; Microbiology

UN Sustainable Development Goals (SDGs)

This output has contributed to the advancement of the following goals:

Source: InCites