IHB OpenIR  > 水生生物多样性与资源保护研究中心  > 期刊论文
Integrating multi-origin expression data improves the resolution of deep phylogeny of ray-finned fish (Actinopterygii)
Zou, Ming1,2; Guo, Baocheng3,4; Tao, Wenjing1,2; Arratia, Gloria5; He, Shunping1; He, SP (reprint author), Chinese Acad Sci, Inst Hydrobiol, Key Lab Aquat Biodivers & Conservat, Wuhan 430072, Peoples R China.
2012-09-18
Source PublicationSCIENTIFIC REPORTS
ISSN2045-2322
Volume2Issue:-
AbstractThe actinopterygians comprise nearly one-half of all extant vertebrate species and are very important for human well-being. However, the phylogenetic relationships among certain groups within the actinopterygians are still uncertain, and debates about these relationships have continued for a long time. Along with the progress achieved in sequencing technologies, phylogenetic analyses based on multi-gene sequences, termed phylogenomic approaches, are becoming increasingly common and often result in well-resolved and highly supported phylogenetic hypotheses. Based on the transcriptome sequences generated in this study and the extensive expression data currently available from public databases, we obtained alignments of 274 orthologue groups for 26 scientifically and commercially important actinopterygians, representing 17 out of 44 orders within the class Actinopterygii. Using these alignments and probabilistic methods, we recovered relationships between basal actinopterygians and teleosts, among teleosts within protacanthopterygians and related lineages, and also within acanthomorphs. These relationships were recovered with high confidence.; The actinopterygians comprise nearly one-half of all extant vertebrate species and are very important for human well-being. However, the phylogenetic relationships among certain groups within the actinopterygians are still uncertain, and debates about these relationships have continued for a long time. Along with the progress achieved in sequencing technologies, phylogenetic analyses based on multi-gene sequences, termed phylogenomic approaches, are becoming increasingly common and often result in well-resolved and highly supported phylogenetic hypotheses. Based on the transcriptome sequences generated in this study and the extensive expression data currently available from public databases, we obtained alignments of 274 orthologue groups for 26 scientifically and commercially important actinopterygians, representing 17 out of 44 orders within the class Actinopterygii. Using these alignments and probabilistic methods, we recovered relationships between basal actinopterygians and teleosts, among teleosts within protacanthopterygians and related lineages, and also within acanthomorphs. These relationships were recovered with high confidence.
SubtypeArticle
KeywordHigher Teleostean Phylogenies Mitochondrial-dna Sequences Mitogenomic Perspective Molecular Phylogenies Missing Data Time-scale Tree Interrelationships Inference Selection
Department[Zou, Ming; Tao, Wenjing; He, Shunping] Chinese Acad Sci, Inst Hydrobiol, Key Lab Aquat Biodivers & Conservat, Wuhan 430072, Peoples R China; [Zou, Ming; Tao, Wenjing] Chinese Acad Sci, Grad Univ, Beijing 100039, Peoples R China; [Guo, Baocheng] Univ Zurich, Inst Evolutionary Biol & Environm Studies, CH-8057 Zurich, Switzerland; [Guo, Baocheng] Swiss Inst Bioinformat, CH-1015 Lausanne, Switzerland; [Arratia, Gloria] Univ Kansas, Biodivers Res Inst, Lawrence, KS 66045 USA
DOI10.1038/srep00665
WOS HeadingsScience & Technology
Funding OrganizationMajor State Basic Research Development Program of China (973 Program) [2007CB411601] ; Major State Basic Research Development Program of China (973 Program) [2007CB411601] ; Major State Basic Research Development Program of China (973 Program) [2007CB411601] ; Major State Basic Research Development Program of China (973 Program) [2007CB411601]
Indexed BySCI
Language英语
WOS Research AreaScience & Technology - Other Topics
WOS SubjectMultidisciplinary Sciences
WOS IDWOS:000308863000001
WOS KeywordHIGHER TELEOSTEAN PHYLOGENIES ; MITOCHONDRIAL-DNA SEQUENCES ; MITOGENOMIC PERSPECTIVE ; MOLECULAR PHYLOGENIES ; MISSING DATA ; TIME-SCALE ; TREE ; INTERRELATIONSHIPS ; INFERENCE ; SELECTION
Funding OrganizationMajor State Basic Research Development Program of China (973 Program) [2007CB411601] ; Major State Basic Research Development Program of China (973 Program) [2007CB411601] ; Major State Basic Research Development Program of China (973 Program) [2007CB411601] ; Major State Basic Research Development Program of China (973 Program) [2007CB411601]
Citation statistics
Cited Times:11[WOS]   [WOS Record]     [Related Records in WOS]
Document Type期刊论文
Identifierhttp://ir.ihb.ac.cn/handle/342005/17158
Collection水生生物多样性与资源保护研究中心_期刊论文
Corresponding AuthorHe, SP (reprint author), Chinese Acad Sci, Inst Hydrobiol, Key Lab Aquat Biodivers & Conservat, Wuhan 430072, Peoples R China.
Affiliation1.Chinese Acad Sci, Inst Hydrobiol, Key Lab Aquat Biodivers & Conservat, Wuhan 430072, Peoples R China
2.Chinese Acad Sci, Grad Univ, Beijing 100039, Peoples R China
3.Univ Zurich, Inst Evolutionary Biol & Environm Studies, CH-8057 Zurich, Switzerland
4.Swiss Inst Bioinformat, CH-1015 Lausanne, Switzerland
5.Univ Kansas, Biodivers Res Inst, Lawrence, KS 66045 USA
Recommended Citation
GB/T 7714
Zou, Ming,Guo, Baocheng,Tao, Wenjing,et al. Integrating multi-origin expression data improves the resolution of deep phylogeny of ray-finned fish (Actinopterygii)[J]. SCIENTIFIC REPORTS,2012,2(-).
APA Zou, Ming,Guo, Baocheng,Tao, Wenjing,Arratia, Gloria,He, Shunping,&He, SP .(2012).Integrating multi-origin expression data improves the resolution of deep phylogeny of ray-finned fish (Actinopterygii).SCIENTIFIC REPORTS,2(-).
MLA Zou, Ming,et al."Integrating multi-origin expression data improves the resolution of deep phylogeny of ray-finned fish (Actinopterygii)".SCIENTIFIC REPORTS 2.-(2012).
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