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Citation for Study 17639

Citation title: "Population structure of mitochondrial genomes in Saccharomyces cerevisiae".

Study name: "Population structure of mitochondrial genomes in Saccharomyces cerevisiae".

This study is part of submission 17639 (Status: Published).

Citation

Wolters J.F., Chiu K., & Fiumera H. 2015. Population structure of mitochondrial genomes in Saccharomyces cerevisiae. BMC Genomics, .

Authors

• Wolters J.F. (submitter) 631-655-3123
• Chiu K.
• Fiumera H.

Abstract

Background Rigorous study of mitochondrial functions and cell biology in the budding yeast, Saccharomyces cerevisiae has advanced our understanding of mitochondrial genetics. This yeast is now a powerful model for population genetics, owing to large genetic diversity and highly structured populations among wild isolates. Comparative mitochondrial genomic analyses between yeast species have revealed broad evolutionary changes in genome organization and architecture. A fine-scale view of recent evolutionary changes within S. cerevisiae has not been possible due to low numbers of complete mitochondrial sequences. Results To address challenges of sequencing AT-rich and repetitive mitochondrial DNAs (mtDNAs), we sequenced two divergent S. cerevisiae mtDNAs using a single-molecule sequencing platform (PacBio RS). Using de novo assemblies, we generated highly accurate complete mtDNA sequences. These mtDNA sequences were compared with 98 additional mtDNA sequences gathered from various published collections. Phylogenies based on mitochondrial coding sequences and intron profiles revealed that intraspecific diversity in mitochondrial genomes generally recapitulated the population structure of nuclear genomes. Analysis of intergenic sequence indicated a recent expansion of mobile elements in certain populations. Additionally, our analyses revealed that certain populations lacked introns previously believed conserved throughout the species, as well as the presence of introns never before reported in S. cerevisiae. Conclusions Our results revealed that the extensive variation in S. cerevisiae mtDNAs is often population specific, thus offering a window into the recent evolutionary processes shaping these genomes. In addition, we offer an effective strategy for sequencing these challenging AT-rich mitochondrial genomes for small scale projects.

External links

About this resource

• Canonical resource URI: http://purl.org/phylo/treebase/phylows/study/TB2:S17639
• Other versions: Nexus NeXML
• Show BibTeX reference

  		@ARTICLE{TreeBASE2Ref24609,
  	 author = {John Francis Wolters and Kenneth  Chiu and Heather  Fiumera},
  	 title = {Population structure of mitochondrial genomes in Saccharomyces cerevisiae},
  	 year = {2015},
  	 keywords = {},
  	 doi = {},
  	 url = {http://},
  	 pmid = {},
  	 journal = {BMC Genomics},
  	 volume = {},
  	 number = {},
  	 pages = {},
  	 abstract = {Background 
  Rigorous study of mitochondrial functions and cell biology in the budding yeast, 
  Saccharomyces cerevisiae has advanced our understanding of mitochondrial genetics. 
  This yeast is now a powerful model for population genetics, owing to large genetic 
  diversity and highly structured populations among wild isolates. Comparative 
  mitochondrial genomic analyses between yeast species have revealed broad evolutionary 
  changes in genome organization and architecture. A fine-scale view of recent 
  evolutionary changes within S. cerevisiae has not been possible due to low numbers of 
  complete mitochondrial sequences. 
  Results 
  To address challenges of sequencing AT-rich and repetitive mitochondrial DNAs 
  (mtDNAs), we sequenced two divergent S. cerevisiae mtDNAs using a single-molecule 
  sequencing platform (PacBio RS). Using de novo assemblies, we generated highly 
  accurate complete mtDNA sequences. These mtDNA sequences were compared with 98 
  additional mtDNA sequences gathered from various published collections. Phylogenies 
  based on mitochondrial coding sequences and intron profiles revealed that intraspecific 
  diversity in mitochondrial genomes generally recapitulated the population structure of 
  nuclear genomes. Analysis of intergenic sequence indicated a recent expansion of mobile 
  elements in certain populations. Additionally, our analyses revealed that certain 
  populations lacked introns previously believed conserved throughout the species, as well 
  as the presence of introns never before reported in S. cerevisiae. 
  Conclusions 
  Our results revealed that the extensive variation in S. cerevisiae mtDNAs is often 
  population specific, thus offering a window into the recent evolutionary processes 
  shaping these genomes. In addition, we offer an effective strategy for sequencing these 
  challenging AT-rich mitochondrial genomes for small scale projects.}
  }
  		

• Show RIS reference

  		TY  - JOUR
  ID  - 24609
  AU  - Wolters,John Francis
  AU  - Chiu,Kenneth 
  AU  - Fiumera,Heather 
  T1  - Population structure of mitochondrial genomes in Saccharomyces cerevisiae
  PY  - 2015
  KW  - 
  UR  - http://dx.doi.org/
  N2  - Background 
  Rigorous study of mitochondrial functions and cell biology in the budding yeast, 
  Saccharomyces cerevisiae has advanced our understanding of mitochondrial genetics. 
  This yeast is now a powerful model for population genetics, owing to large genetic 
  diversity and highly structured populations among wild isolates. Comparative 
  mitochondrial genomic analyses between yeast species have revealed broad evolutionary 
  changes in genome organization and architecture. A fine-scale view of recent 
  evolutionary changes within S. cerevisiae has not been possible due to low numbers of 
  complete mitochondrial sequences. 
  Results 
  To address challenges of sequencing AT-rich and repetitive mitochondrial DNAs 
  (mtDNAs), we sequenced two divergent S. cerevisiae mtDNAs using a single-molecule 
  sequencing platform (PacBio RS). Using de novo assemblies, we generated highly 
  accurate complete mtDNA sequences. These mtDNA sequences were compared with 98 
  additional mtDNA sequences gathered from various published collections. Phylogenies 
  based on mitochondrial coding sequences and intron profiles revealed that intraspecific 
  diversity in mitochondrial genomes generally recapitulated the population structure of 
  nuclear genomes. Analysis of intergenic sequence indicated a recent expansion of mobile 
  elements in certain populations. Additionally, our analyses revealed that certain 
  populations lacked introns previously believed conserved throughout the species, as well 
  as the presence of introns never before reported in S. cerevisiae. 
  Conclusions 
  Our results revealed that the extensive variation in S. cerevisiae mtDNAs is often 
  population specific, thus offering a window into the recent evolutionary processes 
  shaping these genomes. In addition, we offer an effective strategy for sequencing these 
  challenging AT-rich mitochondrial genomes for small scale projects.
  L3  - 
  JF  - BMC Genomics
  VL  - 
  IS  - 
  ER  -