Complete Mitochondrial Genome and Phylogenetic Analysis of the Blue Whistling Thrush ( Myophonus caeruleus )
The blue whistling thrush ( ) is a bird belonging to the order Passeriformes and family Muscicapidae. is widely distributed in China, Pakistan, India, and Myanmar and is a resident bird in the southern part of the Yangtze River in China and summer migratory bird in the northern part of the Yangtze R...
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| Veröffentlicht in: | Genes 2024-06, Vol.15 (7), p.830 |
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| creator | Yuan, Zhenfeng Liu, Peng Lu, Xi Zhu, Dong Liu, Jun Guo, Qiang Zhang, Wenping Duan, Yubao |
| description | The blue whistling thrush (
) is a bird belonging to the order Passeriformes and family Muscicapidae.
is widely distributed in China, Pakistan, India, and Myanmar and is a resident bird in the southern part of the Yangtze River in China and summer migratory bird in the northern part of the Yangtze River. At present, there are some controversies about the classification of
We use complete mitochondrial genomes to provide insights into the phylogenetic position of
and its relationships among Muscicapidae. The mitochondrial genome (GenBank: MN564936) is 16,815 bp long and contains 13 protein-coding genes (PCGs), 2 rRNA genes, 22 tRNA genes, and a non-coding control region (D-loop). The thirteen PCGs started with GTG and ATG and ended with five types of stop codons. The nucleotide composition of T was 23.71%, that of C was 31.45%, that of A was 30.06%, and that of G was 14.78%. The secondary structures of 22 tRNAs were predicted, all of which could form typical cloverleaf structures. There were 24 mismatches, mainly G-U mismatches. Through phylogenetic tree reconstruction, it was found that
,
,
, and
were clustered into one clade, together with the sister group of
. |
| doi_str_mv | 10.3390/genes15070830 |
| format | Article |
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) is a bird belonging to the order Passeriformes and family Muscicapidae.
is widely distributed in China, Pakistan, India, and Myanmar and is a resident bird in the southern part of the Yangtze River in China and summer migratory bird in the northern part of the Yangtze River. At present, there are some controversies about the classification of
We use complete mitochondrial genomes to provide insights into the phylogenetic position of
and its relationships among Muscicapidae. The mitochondrial genome (GenBank: MN564936) is 16,815 bp long and contains 13 protein-coding genes (PCGs), 2 rRNA genes, 22 tRNA genes, and a non-coding control region (D-loop). The thirteen PCGs started with GTG and ATG and ended with five types of stop codons. The nucleotide composition of T was 23.71%, that of C was 31.45%, that of A was 30.06%, and that of G was 14.78%. The secondary structures of 22 tRNAs were predicted, all of which could form typical cloverleaf structures. There were 24 mismatches, mainly G-U mismatches. Through phylogenetic tree reconstruction, it was found that
,
,
, and
were clustered into one clade, together with the sister group of
.</description><identifier>ISSN: 2073-4425</identifier><identifier>EISSN: 2073-4425</identifier><identifier>DOI: 10.3390/genes15070830</identifier><identifier>PMID: 39062609</identifier><language>eng</language><publisher>Switzerland: MDPI AG</publisher><subject>Animals ; Base Composition - genetics ; Bats ; China ; Codons ; family ; Genes ; Genetic engineering ; Genome, Mitochondrial ; Genomes ; Genomic analysis ; Genomics ; India ; Migratory birds ; Mitochondria ; Mitochondrial DNA ; mitochondrial genome ; Muscicapidae ; Mutation ; Myanmar ; Pakistan ; Phylogenetics ; Phylogeny ; Proteins ; RNA, Ribosomal - genetics ; RNA, Transfer - genetics ; rRNA ; Saxicola ; Software ; Songbirds - classification ; Songbirds - genetics ; stop codon ; Transfer RNA ; tRNA ; Yangtze River</subject><ispartof>Genes, 2024-06, Vol.15 (7), p.830</ispartof><rights>COPYRIGHT 2024 MDPI AG</rights><rights>2024 by the authors. Licensee MDPI, Basel, Switzerland. This article is an open access article distributed under the terms and conditions of the Creative Commons Attribution (CC BY) license (https://creativecommons.org/licenses/by/4.0/). Notwithstanding the ProQuest Terms and Conditions, you may use this content in accordance with the terms of the License.</rights><lds50>peer_reviewed</lds50><oa>free_for_read</oa><woscitedreferencessubscribed>false</woscitedreferencessubscribed><cites>FETCH-LOGICAL-c346t-88bba1066ee775da373885faaff85eb5cdbaa84ce828c0c664cfe2d8be931b363</cites><orcidid>0000-0003-1135-9556</orcidid></display><links><openurl>$$Topenurl_article</openurl><openurlfulltext>$$Topenurlfull_article</openurlfulltext><thumbnail>$$Tsyndetics_thumb_exl</thumbnail><link.rule.ids>314,776,780,27903,27904</link.rule.ids><backlink>$$Uhttps://www.ncbi.nlm.nih.gov/pubmed/39062609$$D View this record in MEDLINE/PubMed$$Hfree_for_read</backlink></links><search><creatorcontrib>Yuan, Zhenfeng</creatorcontrib><creatorcontrib>Liu, Peng</creatorcontrib><creatorcontrib>Lu, Xi</creatorcontrib><creatorcontrib>Zhu, Dong</creatorcontrib><creatorcontrib>Liu, Jun</creatorcontrib><creatorcontrib>Guo, Qiang</creatorcontrib><creatorcontrib>Zhang, Wenping</creatorcontrib><creatorcontrib>Duan, Yubao</creatorcontrib><title>Complete Mitochondrial Genome and Phylogenetic Analysis of the Blue Whistling Thrush ( Myophonus caeruleus )</title><title>Genes</title><addtitle>Genes (Basel)</addtitle><description>The blue whistling thrush (
) is a bird belonging to the order Passeriformes and family Muscicapidae.
is widely distributed in China, Pakistan, India, and Myanmar and is a resident bird in the southern part of the Yangtze River in China and summer migratory bird in the northern part of the Yangtze River. At present, there are some controversies about the classification of
We use complete mitochondrial genomes to provide insights into the phylogenetic position of
and its relationships among Muscicapidae. The mitochondrial genome (GenBank: MN564936) is 16,815 bp long and contains 13 protein-coding genes (PCGs), 2 rRNA genes, 22 tRNA genes, and a non-coding control region (D-loop). The thirteen PCGs started with GTG and ATG and ended with five types of stop codons. The nucleotide composition of T was 23.71%, that of C was 31.45%, that of A was 30.06%, and that of G was 14.78%. The secondary structures of 22 tRNAs were predicted, all of which could form typical cloverleaf structures. There were 24 mismatches, mainly G-U mismatches. Through phylogenetic tree reconstruction, it was found that
,
,
, and
were clustered into one clade, together with the sister group of
.</description><subject>Animals</subject><subject>Base Composition - genetics</subject><subject>Bats</subject><subject>China</subject><subject>Codons</subject><subject>family</subject><subject>Genes</subject><subject>Genetic engineering</subject><subject>Genome, Mitochondrial</subject><subject>Genomes</subject><subject>Genomic analysis</subject><subject>Genomics</subject><subject>India</subject><subject>Migratory birds</subject><subject>Mitochondria</subject><subject>Mitochondrial DNA</subject><subject>mitochondrial genome</subject><subject>Muscicapidae</subject><subject>Mutation</subject><subject>Myanmar</subject><subject>Pakistan</subject><subject>Phylogenetics</subject><subject>Phylogeny</subject><subject>Proteins</subject><subject>RNA, Ribosomal - genetics</subject><subject>RNA, Transfer - genetics</subject><subject>rRNA</subject><subject>Saxicola</subject><subject>Software</subject><subject>Songbirds - classification</subject><subject>Songbirds - genetics</subject><subject>stop codon</subject><subject>Transfer RNA</subject><subject>tRNA</subject><subject>Yangtze River</subject><issn>2073-4425</issn><issn>2073-4425</issn><fulltext>true</fulltext><rsrctype>article</rsrctype><creationdate>2024</creationdate><recordtype>article</recordtype><sourceid>EIF</sourceid><sourceid>ABUWG</sourceid><sourceid>AFKRA</sourceid><sourceid>AZQEC</sourceid><sourceid>BENPR</sourceid><sourceid>CCPQU</sourceid><sourceid>DWQXO</sourceid><sourceid>GNUQQ</sourceid><recordid>eNqFkk1v1DAQhi1ERau2R67IEpdySGvH8UeOywpapFZwKOIYOc5448qxFzs57L-vlxZKUSU8B4-s533HmhmE3lJyzlhLLjYQIFNOJFGMvEJHNZGsapqav_4rP0SnOd-RchpSE8LfoMOiFbUg7RHy6zhtPcyAb9wczRjDkJz2-BJCnADrMOBv487HfaXZGbwK2u-yyzhaPI-AP_oF8I_R5dm7sMG3Y1ryiM_wzS5ui9mSsdGQFg8l-3CCDqz2GU4f72P0_fOn2_VVdf318st6dV0Z1oi5UqrvNSVCAEjJB80kU4pbra1VHHpuhl5r1RhQtTLECNEYC_WgemgZ7Zlgx-jswXeb4s8F8txNLhvwXgeIS-4Y5UzIWnL2f5QoTqnkdO_6_h_0Li6p9OMX1bSkdLR5ojbaQ-eCjXPSZm_arRRhUta0JYU6f4EqMcDkTAxgXXl_JqgeBCbFnBPYbpvcpNOuo6Tb70L3bBcK_-7xs0s_wfCH_j15dg_-ja39</recordid><startdate>20240624</startdate><enddate>20240624</enddate><creator>Yuan, Zhenfeng</creator><creator>Liu, Peng</creator><creator>Lu, Xi</creator><creator>Zhu, Dong</creator><creator>Liu, Jun</creator><creator>Guo, Qiang</creator><creator>Zhang, Wenping</creator><creator>Duan, Yubao</creator><general>MDPI AG</general><scope>CGR</scope><scope>CUY</scope><scope>CVF</scope><scope>ECM</scope><scope>EIF</scope><scope>NPM</scope><scope>AAYXX</scope><scope>CITATION</scope><scope>8FD</scope><scope>8FE</scope><scope>8FH</scope><scope>ABUWG</scope><scope>AFKRA</scope><scope>AZQEC</scope><scope>BBNVY</scope><scope>BENPR</scope><scope>BHPHI</scope><scope>CCPQU</scope><scope>DWQXO</scope><scope>FR3</scope><scope>GNUQQ</scope><scope>HCIFZ</scope><scope>LK8</scope><scope>M7P</scope><scope>P64</scope><scope>PIMPY</scope><scope>PQEST</scope><scope>PQQKQ</scope><scope>PQUKI</scope><scope>RC3</scope><scope>7X8</scope><scope>7S9</scope><scope>L.6</scope><orcidid>https://orcid.org/0000-0003-1135-9556</orcidid></search><sort><creationdate>20240624</creationdate><title>Complete Mitochondrial Genome and Phylogenetic Analysis of the Blue Whistling Thrush ( Myophonus caeruleus )</title><author>Yuan, Zhenfeng ; Liu, Peng ; Lu, Xi ; Zhu, Dong ; Liu, Jun ; Guo, Qiang ; Zhang, Wenping ; Duan, Yubao</author></sort><facets><frbrtype>5</frbrtype><frbrgroupid>cdi_FETCH-LOGICAL-c346t-88bba1066ee775da373885faaff85eb5cdbaa84ce828c0c664cfe2d8be931b363</frbrgroupid><rsrctype>articles</rsrctype><prefilter>articles</prefilter><language>eng</language><creationdate>2024</creationdate><topic>Animals</topic><topic>Base Composition - genetics</topic><topic>Bats</topic><topic>China</topic><topic>Codons</topic><topic>family</topic><topic>Genes</topic><topic>Genetic engineering</topic><topic>Genome, Mitochondrial</topic><topic>Genomes</topic><topic>Genomic analysis</topic><topic>Genomics</topic><topic>India</topic><topic>Migratory birds</topic><topic>Mitochondria</topic><topic>Mitochondrial DNA</topic><topic>mitochondrial genome</topic><topic>Muscicapidae</topic><topic>Mutation</topic><topic>Myanmar</topic><topic>Pakistan</topic><topic>Phylogenetics</topic><topic>Phylogeny</topic><topic>Proteins</topic><topic>RNA, Ribosomal - genetics</topic><topic>RNA, Transfer - genetics</topic><topic>rRNA</topic><topic>Saxicola</topic><topic>Software</topic><topic>Songbirds - classification</topic><topic>Songbirds - genetics</topic><topic>stop codon</topic><topic>Transfer RNA</topic><topic>tRNA</topic><topic>Yangtze River</topic><toplevel>peer_reviewed</toplevel><toplevel>online_resources</toplevel><creatorcontrib>Yuan, Zhenfeng</creatorcontrib><creatorcontrib>Liu, Peng</creatorcontrib><creatorcontrib>Lu, Xi</creatorcontrib><creatorcontrib>Zhu, Dong</creatorcontrib><creatorcontrib>Liu, Jun</creatorcontrib><creatorcontrib>Guo, Qiang</creatorcontrib><creatorcontrib>Zhang, Wenping</creatorcontrib><creatorcontrib>Duan, Yubao</creatorcontrib><collection>Medline</collection><collection>MEDLINE</collection><collection>MEDLINE (Ovid)</collection><collection>MEDLINE</collection><collection>MEDLINE</collection><collection>PubMed</collection><collection>CrossRef</collection><collection>Technology Research Database</collection><collection>ProQuest SciTech Collection</collection><collection>ProQuest Natural Science Collection</collection><collection>ProQuest Central (Alumni Edition)</collection><collection>ProQuest Central UK/Ireland</collection><collection>ProQuest Central Essentials</collection><collection>Biological Science Collection</collection><collection>ProQuest Central</collection><collection>Natural Science Collection</collection><collection>ProQuest One Community College</collection><collection>ProQuest Central Korea</collection><collection>Engineering Research Database</collection><collection>ProQuest Central Student</collection><collection>SciTech Premium Collection</collection><collection>ProQuest Biological Science Collection</collection><collection>Biological Science Database</collection><collection>Biotechnology and BioEngineering Abstracts</collection><collection>Publicly Available Content Database</collection><collection>ProQuest One Academic Eastern Edition (DO NOT USE)</collection><collection>ProQuest One Academic</collection><collection>ProQuest One Academic UKI Edition</collection><collection>Genetics Abstracts</collection><collection>MEDLINE - Academic</collection><collection>AGRICOLA</collection><collection>AGRICOLA - Academic</collection><jtitle>Genes</jtitle></facets><delivery><delcategory>Remote Search Resource</delcategory><fulltext>fulltext</fulltext></delivery><addata><au>Yuan, Zhenfeng</au><au>Liu, Peng</au><au>Lu, Xi</au><au>Zhu, Dong</au><au>Liu, Jun</au><au>Guo, Qiang</au><au>Zhang, Wenping</au><au>Duan, Yubao</au><format>journal</format><genre>article</genre><ristype>JOUR</ristype><atitle>Complete Mitochondrial Genome and Phylogenetic Analysis of the Blue Whistling Thrush ( Myophonus caeruleus )</atitle><jtitle>Genes</jtitle><addtitle>Genes (Basel)</addtitle><date>2024-06-24</date><risdate>2024</risdate><volume>15</volume><issue>7</issue><spage>830</spage><pages>830-</pages><issn>2073-4425</issn><eissn>2073-4425</eissn><abstract>The blue whistling thrush (
) is a bird belonging to the order Passeriformes and family Muscicapidae.
is widely distributed in China, Pakistan, India, and Myanmar and is a resident bird in the southern part of the Yangtze River in China and summer migratory bird in the northern part of the Yangtze River. At present, there are some controversies about the classification of
We use complete mitochondrial genomes to provide insights into the phylogenetic position of
and its relationships among Muscicapidae. The mitochondrial genome (GenBank: MN564936) is 16,815 bp long and contains 13 protein-coding genes (PCGs), 2 rRNA genes, 22 tRNA genes, and a non-coding control region (D-loop). The thirteen PCGs started with GTG and ATG and ended with five types of stop codons. The nucleotide composition of T was 23.71%, that of C was 31.45%, that of A was 30.06%, and that of G was 14.78%. The secondary structures of 22 tRNAs were predicted, all of which could form typical cloverleaf structures. There were 24 mismatches, mainly G-U mismatches. Through phylogenetic tree reconstruction, it was found that
,
,
, and
were clustered into one clade, together with the sister group of
.</abstract><cop>Switzerland</cop><pub>MDPI AG</pub><pmid>39062609</pmid><doi>10.3390/genes15070830</doi><orcidid>https://orcid.org/0000-0003-1135-9556</orcidid><oa>free_for_read</oa></addata></record> |
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| source | MEDLINE; Elektronische Zeitschriftenbibliothek - Frei zugängliche E-Journals; PubMed Central Open Access; MDPI - Multidisciplinary Digital Publishing Institute; PubMed Central |
| subjects | Animals Base Composition - genetics Bats China Codons family Genes Genetic engineering Genome, Mitochondrial Genomes Genomic analysis Genomics India Migratory birds Mitochondria Mitochondrial DNA mitochondrial genome Muscicapidae Mutation Myanmar Pakistan Phylogenetics Phylogeny Proteins RNA, Ribosomal - genetics RNA, Transfer - genetics rRNA Saxicola Software Songbirds - classification Songbirds - genetics stop codon Transfer RNA tRNA Yangtze River |
| title | Complete Mitochondrial Genome and Phylogenetic Analysis of the Blue Whistling Thrush ( Myophonus caeruleus ) |
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