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Citation for Study 21973

Citation title: "Mycoplasma genitalium: Whole genome sequence analysis, recombination and population structure".

Study name: "Mycoplasma genitalium: Whole genome sequence analysis, recombination and population structure".

This study is part of submission 21973 (Status: Published).

Citation

Fookes M.C., Hadfield J., Harris S., Parmar S., Unemo M., & Jensen J.S. 2017. Mycoplasma genitalium: Whole genome sequence analysis, recombination and population structure. BMC Genomics, .

Authors

• Fookes M.C. (submitter) 00 44 01279 832297
• Hadfield J.
• Harris S.
• Parmar S.
• Unemo M.
• Jensen J.S.

Abstract

Background Although Mycoplasma genitalium is a common sexually transmitted pathogen causing clinically distinct diseases both in male and females, few genomes have been sequenced up to now, due mainly to its fastidious nature and slow growth. Hence, we lack a robust phylogenetic framework to provide insights into the population structure of the species. Currently our understanding of the nature and diversity of M. genitalium relies on molecular tests targeting specific genes or regions of the genome and knowledge is limited by a general under-testing internationally. This is set against a background of drug resistance whereby M. genitalium has developed resistance to mainly all therapeutic antimicrobials. Results We sequenced 28 genomes of Mycoplasma genitalium from temporally (1980-2010) and geographically (Europe, Japan, Australia) diverse sources. All the strain showed essentially the same genomic content without any accessory regions found. However, we identified extensive recombination across their genomes with a total of 25 regions showing heightened levels of SNP density. These regions include the MgPar loci, associated with host interactions, as well as other genes that could also be involved in this role. Using these data, we generated a robust phylogeny which shows that there are two main clades with differing degrees of genomic variability. SNPs found in region V of 23S rRNA and parC were consistent with azithromycin/erythromycin and fluoroquinolone resistances, respectively, and with their phenotypic MIC data. Conclusions The sequence data here generated is essential for designing rational approaches to type and track Mycoplasma genitalium as antibiotic resistance increases. It represents a first approach to its population genetics to better appreciate the role of this organism as a sexually transmitted pathogen.

Keywords

Mycoplasma genitalium genomics and phylogenetics, STIs, Azithromycin resistance, Mycoplasma genitalium

External links

About this resource

• Canonical resource URI: http://purl.org/phylo/treebase/phylows/study/TB2:S21973
• Other versions: Nexus NeXML
• Show BibTeX reference

  		@ARTICLE{TreeBASE2Ref27930,
  	 author = {Maria  Carmen Fookes and James  Hadfield and Simon   Harris and Surendra  Parmar and Magnus  Unemo and J?rgen S. Jensen},
  	 title = {Mycoplasma genitalium: Whole genome sequence analysis, recombination and population structure},
  	 year = {2017},
  	 keywords = {Mycoplasma genitalium genomics and phylogenetics, STIs, Azithromycin resistance, Mycoplasma genitalium},
  	 doi = {},
  	 url = {http://},
  	 pmid = {},
  	 journal = {BMC Genomics},
  	 volume = {},
  	 number = {},
  	 pages = {},
  	 abstract = {Background
  
  Although Mycoplasma genitalium is a common sexually transmitted pathogen causing clinically distinct diseases both in male and females, few genomes have been sequenced up to now, due mainly to its fastidious nature and slow growth. Hence, we lack a robust phylogenetic framework to provide insights into the population structure of the species. Currently our understanding of the nature and diversity of M. genitalium relies on molecular tests targeting specific genes or regions of the genome and knowledge is limited by a general under-testing internationally. This is set against a background of drug resistance whereby M. genitalium has developed resistance to mainly all therapeutic antimicrobials.
  
  Results
  
  We sequenced 28 genomes of Mycoplasma genitalium from temporally (1980-2010) and geographically (Europe, Japan, Australia) diverse sources. All the strain showed essentially the same genomic content without any accessory regions found. However, we identified extensive recombination across their genomes with a total of 25 regions showing heightened levels of SNP density. These regions include the MgPar loci, associated with host interactions, as well as other genes that could also be involved in this role. Using these data, we generated a robust phylogeny which shows that there are two main clades with differing degrees of genomic variability. SNPs found in region V of 23S rRNA and parC were consistent with azithromycin/erythromycin and fluoroquinolone resistances, respectively, and with their phenotypic MIC data.
  
  
  Conclusions
  
  The sequence data here generated is essential for designing rational approaches to type and track Mycoplasma genitalium as antibiotic resistance increases. It represents a first approach to its population genetics to better appreciate the role of this organism as a sexually transmitted pathogen.
  }
  }
  		

• Show RIS reference

  		TY  - JOUR
  ID  - 27930
  AU  - Fookes,Maria  Carmen
  AU  - Hadfield,James 
  AU  - Harris,Simon  
  AU  - Parmar,Surendra 
  AU  - Unemo,Magnus 
  AU  - Jensen,J?rgen S.
  T1  - Mycoplasma genitalium: Whole genome sequence analysis, recombination and population structure
  PY  - 2017
  KW  - Mycoplasma genitalium genomics and phylogenetics
  KW  - STIs
  KW  - Azithromycin resistance
  KW  - Mycoplasma genitalium
  UR  - http://dx.doi.org/
  N2  - Background
  
  Although Mycoplasma genitalium is a common sexually transmitted pathogen causing clinically distinct diseases both in male and females, few genomes have been sequenced up to now, due mainly to its fastidious nature and slow growth. Hence, we lack a robust phylogenetic framework to provide insights into the population structure of the species. Currently our understanding of the nature and diversity of M. genitalium relies on molecular tests targeting specific genes or regions of the genome and knowledge is limited by a general under-testing internationally. This is set against a background of drug resistance whereby M. genitalium has developed resistance to mainly all therapeutic antimicrobials.
  
  Results
  
  We sequenced 28 genomes of Mycoplasma genitalium from temporally (1980-2010) and geographically (Europe, Japan, Australia) diverse sources. All the strain showed essentially the same genomic content without any accessory regions found. However, we identified extensive recombination across their genomes with a total of 25 regions showing heightened levels of SNP density. These regions include the MgPar loci, associated with host interactions, as well as other genes that could also be involved in this role. Using these data, we generated a robust phylogeny which shows that there are two main clades with differing degrees of genomic variability. SNPs found in region V of 23S rRNA and parC were consistent with azithromycin/erythromycin and fluoroquinolone resistances, respectively, and with their phenotypic MIC data.
  
  
  Conclusions
  
  The sequence data here generated is essential for designing rational approaches to type and track Mycoplasma genitalium as antibiotic resistance increases. It represents a first approach to its population genetics to better appreciate the role of this organism as a sexually transmitted pathogen.
  
  L3  - 
  JF  - BMC Genomics
  VL  - 
  IS  - 
  ER  -