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Citation for Study 13909

Citation title: "Gene invasion in distant eukaryotes: discovery of mutually exclusive genetic elements and insights to marine diversity".

Study name: "Gene invasion in distant eukaryotes: discovery of mutually exclusive genetic elements and insights to marine diversity".

This study is part of submission 13909 (Status: Published).

Citation

Monier A., Sudek S., Fast N.M., & Worden A.Z. 2013. Gene invasion in distant eukaryotes: discovery of mutually exclusive genetic elements and insights to marine diversity. The ISME Journal, .

Authors

• Monier A. (submitter)
• Sudek S.
• Fast N.M.
• Worden A.Z.

Abstract

Inteins are rare, translated genetic parasites mainly found in bacteria and archaea, while spliceosomal introns are distinctly eukaryotic features abundant in most nuclear genomes. Using targeted metagenomics, we discovered an intein in an Atlantic population of the photosynthetic eukaryote Bathycoccus, harbored by the essential spliceosomal protein PRP8. Although previously thought exclusive to fungi, we also identified PRP8 inteins in parasitic (Capsaspora) and predatory (Salpingoeca) protists. Most new PRP8 inteins were at novel insertions sites that, surprisingly, were not in the most conserved regions of the gene. Evolutionarily, Dikarya fungal inteins at PRP8 insertion site a appeared more related to the Bathycoccus intein at a unique insertion site, than to other fungal and opisthokont inteins. Strikingly, independent analyses of Pacific and Atlantic samples revealed an intron at the same codon as the Bathycoccus PRP8 intein. The two elements are mutually exclusive and neither was found in cultured Bathycoccus or other picoprasinophyte genomes. Thus, wild Bathycoccus contain one of few non-fungal eukaryotic inteins known and a rare polymorphic intron. Our data indicate at least two Bathycoccus ecotypes exist, associated respectively with oceanic or mesotrophic environments. We hypothesize that intein propagation is facilitated by marine viruses; and, while intron gain is still poorly understood, presence of a spliceosomal intron where a locus lacks an intein raises the possibility of new, intein-primed mechanisms for intron gain. The discovery of nucleus-encoded inteins and associated sequence polymorphisms in uncultivated marine eukaryotes highlights their diversity and reveals potential sexual boundaries between populations indistinguishable by common marker genes.

Keywords

intron, metagenomics, Bathycoccus ecotypes, horizonatal transfer, diversity, picoeukaryote, prasinophyte, viruses, opisthokonts, intein

External links

About this resource

• Canonical resource URI: http://purl.org/phylo/treebase/phylows/study/TB2:S13909
• Other versions: Nexus NeXML
• Show BibTeX reference

  		@ARTICLE{TreeBASE2Ref21750,
  	 author = {Adam  Monier and Sebastian  Sudek and Naomi M Fast and Alexandra Z Worden},
  	 title = {Gene invasion in distant eukaryotes: discovery of mutually exclusive genetic elements and insights to marine diversity},
  	 year = {2013},
  	 keywords = {intron, metagenomics, Bathycoccus ecotypes, horizonatal transfer, diversity, picoeukaryote, prasinophyte, viruses, opisthokonts, intein},
  	 doi = {},
  	 url = {http://},
  	 pmid = {},
  	 journal = {The ISME Journal},
  	 volume = {},
  	 number = {},
  	 pages = {},
  	 abstract = {Inteins are rare, translated genetic parasites mainly found in bacteria and archaea, while spliceosomal introns are distinctly eukaryotic features abundant in most nuclear genomes. Using targeted metagenomics, we discovered an intein in an Atlantic population of the photosynthetic eukaryote Bathycoccus, harbored by the essential spliceosomal protein PRP8. Although previously thought exclusive to fungi, we also identified PRP8 inteins in parasitic (Capsaspora) and predatory (Salpingoeca) protists. Most new PRP8 inteins were at novel insertions sites that, surprisingly, were not in the most conserved regions of the gene. Evolutionarily, Dikarya fungal inteins at PRP8 insertion site a appeared more related to the Bathycoccus intein at a unique insertion site, than to other fungal and opisthokont inteins. Strikingly, independent analyses of Pacific and Atlantic samples revealed an intron at the same codon as the Bathycoccus PRP8 intein. The two elements are mutually exclusive and neither was found in cultured Bathycoccus or other picoprasinophyte genomes. Thus, wild Bathycoccus contain one of few non-fungal eukaryotic inteins known and a rare polymorphic intron. Our data indicate at least two Bathycoccus ecotypes exist, associated respectively with oceanic or mesotrophic environments. We hypothesize that intein propagation is facilitated by marine viruses; and, while intron gain is still poorly understood, presence of a spliceosomal intron where a locus lacks an intein raises the possibility of new, intein-primed mechanisms for intron gain. The discovery of nucleus-encoded inteins and associated sequence polymorphisms in uncultivated marine eukaryotes highlights their diversity and reveals potential sexual boundaries between populations indistinguishable by common marker genes.}
  }
  		

• Show RIS reference

  		TY  - JOUR
  ID  - 21750
  AU  - Monier,Adam 
  AU  - Sudek,Sebastian 
  AU  - Fast,Naomi M
  AU  - Worden,Alexandra Z
  T1  - Gene invasion in distant eukaryotes: discovery of mutually exclusive genetic elements and insights to marine diversity
  PY  - 2013
  KW  - intron
  KW  - metagenomics
  KW  - Bathycoccus ecotypes
  KW  - horizonatal transfer
  KW  - diversity
  KW  - picoeukaryote
  KW  - prasinophyte
  KW  - viruses
  KW  - opisthokonts
  KW  - intein
  UR  - http://dx.doi.org/
  N2  - Inteins are rare, translated genetic parasites mainly found in bacteria and archaea, while spliceosomal introns are distinctly eukaryotic features abundant in most nuclear genomes. Using targeted metagenomics, we discovered an intein in an Atlantic population of the photosynthetic eukaryote Bathycoccus, harbored by the essential spliceosomal protein PRP8. Although previously thought exclusive to fungi, we also identified PRP8 inteins in parasitic (Capsaspora) and predatory (Salpingoeca) protists. Most new PRP8 inteins were at novel insertions sites that, surprisingly, were not in the most conserved regions of the gene. Evolutionarily, Dikarya fungal inteins at PRP8 insertion site a appeared more related to the Bathycoccus intein at a unique insertion site, than to other fungal and opisthokont inteins. Strikingly, independent analyses of Pacific and Atlantic samples revealed an intron at the same codon as the Bathycoccus PRP8 intein. The two elements are mutually exclusive and neither was found in cultured Bathycoccus or other picoprasinophyte genomes. Thus, wild Bathycoccus contain one of few non-fungal eukaryotic inteins known and a rare polymorphic intron. Our data indicate at least two Bathycoccus ecotypes exist, associated respectively with oceanic or mesotrophic environments. We hypothesize that intein propagation is facilitated by marine viruses; and, while intron gain is still poorly understood, presence of a spliceosomal intron where a locus lacks an intein raises the possibility of new, intein-primed mechanisms for intron gain. The discovery of nucleus-encoded inteins and associated sequence polymorphisms in uncultivated marine eukaryotes highlights their diversity and reveals potential sexual boundaries between populations indistinguishable by common marker genes.
  L3  - 
  JF  - The ISME Journal
  VL  - 
  IS  - 
  ER  -