Phylogenetic inference of calyptrates, with the first mitogenomes for Gasterophilinae (Diptera: Oestridae) and Paramacronychiinae (Diptera: Sarcophagidae)
Identifieur interne : 000720 ( Ncbi/Checkpoint ); précédent : 000719; suivant : 000721Phylogenetic inference of calyptrates, with the first mitogenomes for Gasterophilinae (Diptera: Oestridae) and Paramacronychiinae (Diptera: Sarcophagidae)
Auteurs : Dong Zhang [République populaire de Chine] ; Liping Yan [République populaire de Chine] ; Ming Zhang [République populaire de Chine] ; Hongjun Chu [République populaire de Chine] ; Jie Cao [République populaire de Chine] ; Kai Li [République populaire de Chine] ; Defu Hu [République populaire de Chine] ; Thomas Pape [Danemark]Source :
- International Journal of Biological Sciences [ 1449-2288 ] ; 2016.
Abstract
The complete mitogenome of the horse stomach bot fly
Url:
DOI: 10.7150/ijbs.12148
PubMed: 27019632
PubMed Central: 4807417
Affiliations:
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<record><TEI><teiHeader><fileDesc><titleStmt><title xml:lang="en">Phylogenetic inference of calyptrates, with the first mitogenomes for Gasterophilinae (Diptera: Oestridae) and Paramacronychiinae (Diptera: Sarcophagidae)</title><author><name sortKey="Zhang, Dong" sort="Zhang, Dong" uniqKey="Zhang D" first="Dong" last="Zhang">Dong Zhang</name><affiliation wicri:level="3"><nlm:aff id="A1">1. School of Nature Conservation, Beijing Forestry University, Beijing, China.</nlm:aff><country xml:lang="fr" wicri:curation="lc">République populaire de Chine</country><wicri:regionArea>1. School of Nature Conservation, Beijing Forestry University, Beijing</wicri:regionArea><placeName><settlement type="city">Pékin</settlement></placeName></affiliation></author><author><name sortKey="Yan, Liping" sort="Yan, Liping" uniqKey="Yan L" first="Liping" last="Yan">Liping Yan</name><affiliation wicri:level="3"><nlm:aff id="A1">1. School of Nature Conservation, Beijing Forestry University, Beijing, China.</nlm:aff><country xml:lang="fr" wicri:curation="lc">République populaire de Chine</country><wicri:regionArea>1. School of Nature Conservation, Beijing Forestry University, Beijing</wicri:regionArea><placeName><settlement type="city">Pékin</settlement></placeName></affiliation></author><author><name sortKey="Zhang, Ming" sort="Zhang, Ming" uniqKey="Zhang M" first="Ming" last="Zhang">Ming Zhang</name><affiliation wicri:level="3"><nlm:aff id="A1">1. School of Nature Conservation, Beijing Forestry University, Beijing, China.</nlm:aff><country xml:lang="fr" wicri:curation="lc">République populaire de Chine</country><wicri:regionArea>1. School of Nature Conservation, Beijing Forestry University, Beijing</wicri:regionArea><placeName><settlement type="city">Pékin</settlement></placeName></affiliation></author><author><name sortKey="Chu, Hongjun" sort="Chu, Hongjun" uniqKey="Chu H" first="Hongjun" last="Chu">Hongjun Chu</name><affiliation wicri:level="1"><nlm:aff id="A3">3. Wildlife Conservation Office of Altay Prefecture, Altay, Xinjiang, China.</nlm:aff><country xml:lang="fr" wicri:curation="lc">République populaire de Chine</country><wicri:regionArea>3. Wildlife Conservation Office of Altay Prefecture, Altay, Xinjiang</wicri:regionArea><wicri:noRegion>Xinjiang</wicri:noRegion></affiliation></author><author><name sortKey="Cao, Jie" sort="Cao, Jie" uniqKey="Cao J" first="Jie" last="Cao">Jie Cao</name><affiliation wicri:level="1"><nlm:aff id="A4">4. Xinjiang Research Centre for Breeding Przewalski's Horse, Ürümqi, Xinjiang, China.</nlm:aff><country xml:lang="fr" wicri:curation="lc">République populaire de Chine</country><wicri:regionArea>4. Xinjiang Research Centre for Breeding Przewalski's Horse, Ürümqi, Xinjiang</wicri:regionArea><wicri:noRegion>Xinjiang</wicri:noRegion></affiliation></author><author><name sortKey="Li, Kai" sort="Li, Kai" uniqKey="Li K" first="Kai" last="Li">Kai Li</name><affiliation wicri:level="3"><nlm:aff id="A1">1. School of Nature Conservation, Beijing Forestry University, Beijing, China.</nlm:aff><country xml:lang="fr" wicri:curation="lc">République populaire de Chine</country><wicri:regionArea>1. School of Nature Conservation, Beijing Forestry University, Beijing</wicri:regionArea><placeName><settlement type="city">Pékin</settlement></placeName></affiliation></author><author><name sortKey="Hu, Defu" sort="Hu, Defu" uniqKey="Hu D" first="Defu" last="Hu">Defu Hu</name><affiliation wicri:level="3"><nlm:aff id="A1">1. School of Nature Conservation, Beijing Forestry University, Beijing, China.</nlm:aff><country xml:lang="fr" wicri:curation="lc">République populaire de Chine</country><wicri:regionArea>1. School of Nature Conservation, Beijing Forestry University, Beijing</wicri:regionArea><placeName><settlement type="city">Pékin</settlement></placeName></affiliation></author><author><name sortKey="Pape, Thomas" sort="Pape, Thomas" uniqKey="Pape T" first="Thomas" last="Pape">Thomas Pape</name><affiliation wicri:level="3"><nlm:aff id="A2">2. Natural History Museum of Denmark, University of Copenhagen, Copenhagen, Denmark.</nlm:aff><country xml:lang="fr" wicri:curation="lc">Danemark</country><wicri:regionArea>2. Natural History Museum of Denmark, University of Copenhagen, Copenhagen</wicri:regionArea><placeName><settlement type="city">Copenhague</settlement><region type="région" nuts="2">Hovedstaden</region></placeName></affiliation></author></titleStmt><publicationStmt><idno type="wicri:source">PMC</idno><idno type="pmid">27019632</idno><idno type="pmc">4807417</idno><idno type="url">http://www.ncbi.nlm.nih.gov/pmc/articles/PMC4807417</idno><idno type="RBID">PMC:4807417</idno><idno type="doi">10.7150/ijbs.12148</idno><date when="2016">2016</date><idno type="wicri:Area/Pmc/Corpus">000111</idno><idno type="wicri:Area/Pmc/Curation">000111</idno><idno type="wicri:Area/Pmc/Checkpoint">000020</idno><idno type="wicri:Area/Ncbi/Merge">000720</idno><idno type="wicri:Area/Ncbi/Curation">000720</idno><idno type="wicri:Area/Ncbi/Checkpoint">000720</idno></publicationStmt><sourceDesc><biblStruct><analytic><title xml:lang="en" level="a" type="main">Phylogenetic inference of calyptrates, with the first mitogenomes for Gasterophilinae (Diptera: Oestridae) and Paramacronychiinae (Diptera: Sarcophagidae)</title><author><name sortKey="Zhang, Dong" sort="Zhang, Dong" uniqKey="Zhang D" first="Dong" last="Zhang">Dong Zhang</name><affiliation wicri:level="3"><nlm:aff id="A1">1. School of Nature Conservation, Beijing Forestry University, Beijing, China.</nlm:aff><country xml:lang="fr" wicri:curation="lc">République populaire de Chine</country><wicri:regionArea>1. School of Nature Conservation, Beijing Forestry University, Beijing</wicri:regionArea><placeName><settlement type="city">Pékin</settlement></placeName></affiliation></author><author><name sortKey="Yan, Liping" sort="Yan, Liping" uniqKey="Yan L" first="Liping" last="Yan">Liping Yan</name><affiliation wicri:level="3"><nlm:aff id="A1">1. School of Nature Conservation, Beijing Forestry University, Beijing, China.</nlm:aff><country xml:lang="fr" wicri:curation="lc">République populaire de Chine</country><wicri:regionArea>1. School of Nature Conservation, Beijing Forestry University, Beijing</wicri:regionArea><placeName><settlement type="city">Pékin</settlement></placeName></affiliation></author><author><name sortKey="Zhang, Ming" sort="Zhang, Ming" uniqKey="Zhang M" first="Ming" last="Zhang">Ming Zhang</name><affiliation wicri:level="3"><nlm:aff id="A1">1. School of Nature Conservation, Beijing Forestry University, Beijing, China.</nlm:aff><country xml:lang="fr" wicri:curation="lc">République populaire de Chine</country><wicri:regionArea>1. School of Nature Conservation, Beijing Forestry University, Beijing</wicri:regionArea><placeName><settlement type="city">Pékin</settlement></placeName></affiliation></author><author><name sortKey="Chu, Hongjun" sort="Chu, Hongjun" uniqKey="Chu H" first="Hongjun" last="Chu">Hongjun Chu</name><affiliation wicri:level="1"><nlm:aff id="A3">3. Wildlife Conservation Office of Altay Prefecture, Altay, Xinjiang, China.</nlm:aff><country xml:lang="fr" wicri:curation="lc">République populaire de Chine</country><wicri:regionArea>3. Wildlife Conservation Office of Altay Prefecture, Altay, Xinjiang</wicri:regionArea><wicri:noRegion>Xinjiang</wicri:noRegion></affiliation></author><author><name sortKey="Cao, Jie" sort="Cao, Jie" uniqKey="Cao J" first="Jie" last="Cao">Jie Cao</name><affiliation wicri:level="1"><nlm:aff id="A4">4. Xinjiang Research Centre for Breeding Przewalski's Horse, Ürümqi, Xinjiang, China.</nlm:aff><country xml:lang="fr" wicri:curation="lc">République populaire de Chine</country><wicri:regionArea>4. Xinjiang Research Centre for Breeding Przewalski's Horse, Ürümqi, Xinjiang</wicri:regionArea><wicri:noRegion>Xinjiang</wicri:noRegion></affiliation></author><author><name sortKey="Li, Kai" sort="Li, Kai" uniqKey="Li K" first="Kai" last="Li">Kai Li</name><affiliation wicri:level="3"><nlm:aff id="A1">1. School of Nature Conservation, Beijing Forestry University, Beijing, China.</nlm:aff><country xml:lang="fr" wicri:curation="lc">République populaire de Chine</country><wicri:regionArea>1. School of Nature Conservation, Beijing Forestry University, Beijing</wicri:regionArea><placeName><settlement type="city">Pékin</settlement></placeName></affiliation></author><author><name sortKey="Hu, Defu" sort="Hu, Defu" uniqKey="Hu D" first="Defu" last="Hu">Defu Hu</name><affiliation wicri:level="3"><nlm:aff id="A1">1. School of Nature Conservation, Beijing Forestry University, Beijing, China.</nlm:aff><country xml:lang="fr" wicri:curation="lc">République populaire de Chine</country><wicri:regionArea>1. School of Nature Conservation, Beijing Forestry University, Beijing</wicri:regionArea><placeName><settlement type="city">Pékin</settlement></placeName></affiliation></author><author><name sortKey="Pape, Thomas" sort="Pape, Thomas" uniqKey="Pape T" first="Thomas" last="Pape">Thomas Pape</name><affiliation wicri:level="3"><nlm:aff id="A2">2. Natural History Museum of Denmark, University of Copenhagen, Copenhagen, Denmark.</nlm:aff><country xml:lang="fr" wicri:curation="lc">Danemark</country><wicri:regionArea>2. Natural History Museum of Denmark, University of Copenhagen, Copenhagen</wicri:regionArea><placeName><settlement type="city">Copenhague</settlement><region type="région" nuts="2">Hovedstaden</region></placeName></affiliation></author></analytic><series><title level="j">International Journal of Biological Sciences</title><idno type="eISSN">1449-2288</idno><imprint><date when="2016">2016</date></imprint></series></biblStruct></sourceDesc></fileDesc><profileDesc><textClass></textClass></profileDesc></teiHeader><front><div type="abstract" xml:lang="en"><p>The complete mitogenome of the horse stomach bot fly <italic>Gasterophilus pecorum</italic> (Fabricius) and a near-complete mitogenome of Wohlfahrt's wound myiasis fly <italic>Wohlfahrtia magnifica</italic> (Schiner) were sequenced. The mitogenomes contain the typical 37 mitogenes found in metazoans, organized in the same order and orientation as in other cyclorrhaphan Diptera. Phylogenetic analyses of mitogenomes from 38 calyptrate taxa with and without two non-calyptrate outgroups were performed using Bayesian Inference and Maximum Likelihood. Three sub-analyses were performed on the concatenated data: (1) not partitioned; (2) partitioned by gene; (3) 3rd codon positions of protein-coding genes omitted. We estimated the contribution of each of the mitochondrial genes for phylogenetic analysis, as well as the effect of some popular methodologies on calyptrate phylogeny reconstruction. In the favoured trees, the Oestroidea are nested within the muscoid grade. Relationships at the family level within Oestroidea are (remaining Calliphoridae (Sarcophagidae (Oestridae, <italic>Pollenia</italic> + Tachinidae))). Our mito-phylogenetic reconstruction of the Calyptratae presents the most extensive taxon coverage so far, and the risk of long-branch attraction is reduced by an appropriate selection of outgroups. We find that in the Calyptratae the ND2, ND5, ND1, COIII, and COI genes are more phylogenetically informative compared with other mitochondrial protein-coding genes. Our study provides evidence that data partitioning and the inclusion of conserved tRNA genes have little influence on calyptrate phylogeny reconstruction, and that the 3rd codon positions of protein-coding genes are not saturated and therefore should be included.</p></div></front><back><div1 type="bibliography"><listBibl><biblStruct><analytic><author><name sortKey="Simon, C" uniqKey="Simon C">C Simon</name></author><author><name sortKey="Frati, F" uniqKey="Frati F">F Frati</name></author><author><name sortKey="Beckenbach, A" uniqKey="Beckenbach A">A Beckenbach</name></author></analytic></biblStruct><biblStruct><analytic><author><name sortKey="Trautwein, Md" uniqKey="Trautwein M">MD Trautwein</name></author><author><name sortKey="Wiegmann, Bm" uniqKey="Wiegmann B">BM Wiegmann</name></author><author><name sortKey="Beutel, R" uniqKey="Beutel R">R Beutel</name></author></analytic></biblStruct><biblStruct><analytic><author><name sortKey="Burger, G" uniqKey="Burger G">G 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populaire de Chine"><noRegion><name sortKey="Zhang, Dong" sort="Zhang, Dong" uniqKey="Zhang D" first="Dong" last="Zhang">Dong Zhang</name></noRegion><name sortKey="Cao, Jie" sort="Cao, Jie" uniqKey="Cao J" first="Jie" last="Cao">Jie Cao</name><name sortKey="Chu, Hongjun" sort="Chu, Hongjun" uniqKey="Chu H" first="Hongjun" last="Chu">Hongjun Chu</name><name sortKey="Hu, Defu" sort="Hu, Defu" uniqKey="Hu D" first="Defu" last="Hu">Defu Hu</name><name sortKey="Li, Kai" sort="Li, Kai" uniqKey="Li K" first="Kai" last="Li">Kai Li</name><name sortKey="Yan, Liping" sort="Yan, Liping" uniqKey="Yan L" first="Liping" last="Yan">Liping Yan</name><name sortKey="Zhang, Ming" sort="Zhang, Ming" uniqKey="Zhang M" first="Ming" last="Zhang">Ming Zhang</name></country><country name="Danemark"><region name="Hovedstaden"><name sortKey="Pape, Thomas" sort="Pape, Thomas" uniqKey="Pape T" first="Thomas" last="Pape">Thomas Pape</name></region></country></tree></affiliations></record>Pour manipuler ce document 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