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Citation for Study 18548

Citation title: "A phylogenomic framework to study the diversity and evolution of stramenopiles.".

Study name: "A phylogenomic framework to study the diversity and evolution of stramenopiles.".

This study is part of submission 18548 (Status: Published).

Citation

Derelle R., L?pez-garc?a P., Timpano H., & Moreira D. 2016. A phylogenomic framework to study the diversity and evolution of stramenopiles. Molecular Biology and Evolution, 33(11): 2890-2898.

Authors

• Derelle R.
• L?pez-garc?a P.
• Timpano H.
• Moreira D.

Abstract

Stramenopiles or heterokonts constitute one of the most speciose and diverse clades of protists. It includes ecologically important algae (such as diatoms or large multicellular brown seaweeds), as well as heterotrophic (e.g., bicosoecids, MAST groups) and parasitic (e.g., Blastocystis, oomycetes) species. Despite their evolutionary and ecological relevance, deep phylogenetic relationships among stramenopile groups, inferred mostly from small-subunit rDNA phylogenies, remain unresolved, especially for the heterotrophic taxa. Taking advantage of recently released stramenopile transcriptome and genome sequences, as well as data from the genomic assembly of the MAST-3 species Incisomonas marina generated in our laboratory, we have carried out the first extensive phylogenomic analysis of stramenopiles, including representatives of most major lineages. Our analyses, based on a large data set of 339 widely distributed proteins, strongly support a root of stramenopiles lying between two clades, Bigyra and Gyrista (Pseudofungi plus Ochrophyta). Additionally, our analyses challenge the Phaeista-Khakista dichotomy of photosynthetic stramenopiles (ochrophytes) as two groups previously considered to be part of the Phaeista (Pelagophyceae and Dictyochophyceae), branch with strong support with the Khakista (Bolidophyceae and Diatomeae). We propose a new classification of ochrophytes within the two groups Chrysista and Diatomista to reflect the new phylogenomic results. Our stramenopile phylogeny provides a robust phylogenetic framework to investigate the evolution and diversification of this group of ecologically relevant protists.

Keywords

Bigyra, Gyrista, Cavalierista, Chaoista, Depressonucleata, phylogenomics

External links

• DOI: 10.1093/molbev/msw168

About this resource

• Canonical resource URI: http://purl.org/phylo/treebase/phylows/study/TB2:S18548
• Other versions: Nexus NeXML
• Show BibTeX reference

  		@ARTICLE{TreeBASE2Ref25324,
  	 author = {romain  derelle and Purificaci?n   L?pez-Garc?a  and H?l?ne  Timpano and David  Moreira},
  	 title = {A phylogenomic framework to study the diversity and evolution of stramenopiles.},
  	 year = {2016},
  	 keywords = {Bigyra, Gyrista, Cavalierista, Chaoista, Depressonucleata, phylogenomics},
  	 doi = {10.1093/molbev/msw168},
  	 url = {http://},
  	 pmid = {},
  	 journal = {Molecular Biology and Evolution},
  	 volume = {33},
  	 number = {11},
  	 pages = {2890--2898},
  	 abstract = {Stramenopiles or heterokonts constitute one of the most speciose and diverse clades of protists. It includes ecologically important algae (such as diatoms or large multicellular brown seaweeds), as well as heterotrophic (e.g., bicosoecids, MAST groups) and parasitic (e.g., Blastocystis, oomycetes) species. Despite their evolutionary and ecological relevance, deep phylogenetic relationships among stramenopile groups, inferred mostly from small-subunit rDNA phylogenies, remain unresolved, especially for the heterotrophic taxa. Taking advantage of recently released stramenopile transcriptome and genome sequences, as well as data from the genomic assembly of the MAST-3 species Incisomonas marina generated in our laboratory, we have carried out the first extensive phylogenomic analysis of stramenopiles, including representatives of most major lineages. Our analyses, based on a large data set of 339 widely distributed proteins, strongly support a root of stramenopiles lying between two clades, Bigyra and Gyrista (Pseudofungi plus Ochrophyta). Additionally, our analyses challenge the Phaeista-Khakista dichotomy of photosynthetic stramenopiles (ochrophytes) as two groups previously considered to be part of the Phaeista (Pelagophyceae and Dictyochophyceae), branch with strong support with the Khakista (Bolidophyceae and Diatomeae). We propose a new classification of ochrophytes within the two groups Chrysista and Diatomista to reflect the new phylogenomic results. Our stramenopile phylogeny provides a robust phylogenetic framework to investigate the evolution and diversification of this group of ecologically relevant protists.}
  }
  		

• Show RIS reference

  		TY  - JOUR
  ID  - 25324
  AU  - derelle,romain 
  AU  - L?pez-Garc?a ,Purificaci?n  
  AU  - Timpano,H?l?ne 
  AU  - Moreira,David 
  T1  - A phylogenomic framework to study the diversity and evolution of stramenopiles.
  PY  - 2016
  KW  - Bigyra
  KW  - Gyrista
  KW  - Cavalierista
  KW  - Chaoista
  KW  - Depressonucleata
  KW  - phylogenomics
  UR  - http://dx.doi.org/10.1093/molbev/msw168
  N2  - Stramenopiles or heterokonts constitute one of the most speciose and diverse clades of protists. It includes ecologically important algae (such as diatoms or large multicellular brown seaweeds), as well as heterotrophic (e.g., bicosoecids, MAST groups) and parasitic (e.g., Blastocystis, oomycetes) species. Despite their evolutionary and ecological relevance, deep phylogenetic relationships among stramenopile groups, inferred mostly from small-subunit rDNA phylogenies, remain unresolved, especially for the heterotrophic taxa. Taking advantage of recently released stramenopile transcriptome and genome sequences, as well as data from the genomic assembly of the MAST-3 species Incisomonas marina generated in our laboratory, we have carried out the first extensive phylogenomic analysis of stramenopiles, including representatives of most major lineages. Our analyses, based on a large data set of 339 widely distributed proteins, strongly support a root of stramenopiles lying between two clades, Bigyra and Gyrista (Pseudofungi plus Ochrophyta). Additionally, our analyses challenge the Phaeista-Khakista dichotomy of photosynthetic stramenopiles (ochrophytes) as two groups previously considered to be part of the Phaeista (Pelagophyceae and Dictyochophyceae), branch with strong support with the Khakista (Bolidophyceae and Diatomeae). We propose a new classification of ochrophytes within the two groups Chrysista and Diatomista to reflect the new phylogenomic results. Our stramenopile phylogeny provides a robust phylogenetic framework to investigate the evolution and diversification of this group of ecologically relevant protists.
  L3  - 10.1093/molbev/msw168
  JF  - Molecular Biology and Evolution
  VL  - 33
  IS  - 11
  SP  - 2890
  EP  - 2898
  ER  -