Sequencing and Characterisation of Complete Mitogenome DNA for Rasbora hobelmani (Cyprinidae) with Phylogenetic Consideration
The Kottelat rasbora Rasbora hobelmani is a small ray-finned fish categorized under the genus Rasbora in the Cyprinidae family. In this study, the complete mitogenome sequence of R. hobelmani was sequenced using two pairs of primers covering overlapping regions. The mitogenome is 16 541 bp in length...
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| Veröffentlicht in: | Journal of ichthyology 2020, Vol.60 (1), p.90-98 |
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| creator | Chung, H. H. Kamar, C. K. A. Lim, L. W. K. Liao, Y. Lam, T. T. Chong, Y. L. |
| description | The Kottelat rasbora
Rasbora hobelmani
is a small ray-finned fish categorized under the genus
Rasbora
in the Cyprinidae family. In this study, the complete mitogenome sequence of
R. hobelmani
was sequenced using two pairs of primers covering overlapping regions. The mitogenome is 16 541 bp in length, housing 22 transfer RNA genes, 13 protein-coding genes, two ribosomal RNA genes and one putative control region. Identical gene organisation was spotted between this species and other
Rasbora
genus members. The heavy strand contains 28 genes while the light strand contains the remaining nine genes. Most protein-coding genes employ ATG as start codon, except for the COI gene, which exploits GTG instead. The central conserved sequence blocks (CSB-F, CSB-E and CSB-D), variable sequence blocks (CSB-3, CSB-2 and CSB-1) as well as the terminal associated sequence (TAS) are conserved in the control region. The maximum likelihood phylogenetic tree revealed the close phylogeny of
R. hobelmani
with
R. sumatrana
,
R. aprotaenia
,
R. lateristriata
and
R. steineri
with bootstrap value of at least 99%. This work acts as milestone towards future evolution and population genetics studies of this species as well as the
Rasbora
genus. |
| doi_str_mv | 10.1134/S0032945220010014 |
| format | Article |
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Rasbora hobelmani
is a small ray-finned fish categorized under the genus
Rasbora
in the Cyprinidae family. In this study, the complete mitogenome sequence of
R. hobelmani
was sequenced using two pairs of primers covering overlapping regions. The mitogenome is 16 541 bp in length, housing 22 transfer RNA genes, 13 protein-coding genes, two ribosomal RNA genes and one putative control region. Identical gene organisation was spotted between this species and other
Rasbora
genus members. The heavy strand contains 28 genes while the light strand contains the remaining nine genes. Most protein-coding genes employ ATG as start codon, except for the COI gene, which exploits GTG instead. The central conserved sequence blocks (CSB-F, CSB-E and CSB-D), variable sequence blocks (CSB-3, CSB-2 and CSB-1) as well as the terminal associated sequence (TAS) are conserved in the control region. The maximum likelihood phylogenetic tree revealed the close phylogeny of
R. hobelmani
with
R. sumatrana
,
R. aprotaenia
,
R. lateristriata
and
R. steineri
with bootstrap value of at least 99%. This work acts as milestone towards future evolution and population genetics studies of this species as well as the
Rasbora
genus.</description><identifier>ISSN: 0032-9452</identifier><identifier>EISSN: 1555-6425</identifier><identifier>DOI: 10.1134/S0032945220010014</identifier><language>eng</language><publisher>Moscow: Pleiades Publishing</publisher><subject>Biomedical and Life Sciences ; COI protein ; Conserved sequence ; Cyprinidae ; DNA ; DNA sequencing ; Fish ; Genes ; Genetics ; Housing ; Life Sciences ; Nucleic acids ; Nucleotide sequence ; Phylogenetics ; Phylogeny ; Population genetics ; Population studies ; Primers ; Proteins ; Rasbora ; Rasbora hobelmani ; RNA ; rRNA ; Sequencing ; Transfer RNA ; Zoology</subject><ispartof>Journal of ichthyology, 2020, Vol.60 (1), p.90-98</ispartof><rights>Pleiades Publishing, Ltd. 2020</rights><rights>2020© Pleiades Publishing, Ltd. 2020</rights><lds50>peer_reviewed</lds50><oa>free_for_read</oa><woscitedreferencessubscribed>false</woscitedreferencessubscribed><citedby>FETCH-LOGICAL-c359t-5dc453d1ee148a42c8a494ef775015fb010e923f32ed8a329e8d82d06bc5aa483</citedby><cites>FETCH-LOGICAL-c359t-5dc453d1ee148a42c8a494ef775015fb010e923f32ed8a329e8d82d06bc5aa483</cites></display><links><openurl>$$Topenurl_article</openurl><openurlfulltext>$$Topenurlfull_article</openurlfulltext><thumbnail>$$Tsyndetics_thumb_exl</thumbnail><linktopdf>$$Uhttps://link.springer.com/content/pdf/10.1134/S0032945220010014$$EPDF$$P50$$Gspringer$$H</linktopdf><linktohtml>$$Uhttps://link.springer.com/10.1134/S0032945220010014$$EHTML$$P50$$Gspringer$$H</linktohtml><link.rule.ids>314,780,784,27924,27925,41488,42557,51319</link.rule.ids></links><search><creatorcontrib>Chung, H. H.</creatorcontrib><creatorcontrib>Kamar, C. K. A.</creatorcontrib><creatorcontrib>Lim, L. W. K.</creatorcontrib><creatorcontrib>Liao, Y.</creatorcontrib><creatorcontrib>Lam, T. T.</creatorcontrib><creatorcontrib>Chong, Y. L.</creatorcontrib><title>Sequencing and Characterisation of Complete Mitogenome DNA for Rasbora hobelmani (Cyprinidae) with Phylogenetic Consideration</title><title>Journal of ichthyology</title><addtitle>J. Ichthyol</addtitle><description>The Kottelat rasbora
Rasbora hobelmani
is a small ray-finned fish categorized under the genus
Rasbora
in the Cyprinidae family. In this study, the complete mitogenome sequence of
R. hobelmani
was sequenced using two pairs of primers covering overlapping regions. The mitogenome is 16 541 bp in length, housing 22 transfer RNA genes, 13 protein-coding genes, two ribosomal RNA genes and one putative control region. Identical gene organisation was spotted between this species and other
Rasbora
genus members. The heavy strand contains 28 genes while the light strand contains the remaining nine genes. Most protein-coding genes employ ATG as start codon, except for the COI gene, which exploits GTG instead. The central conserved sequence blocks (CSB-F, CSB-E and CSB-D), variable sequence blocks (CSB-3, CSB-2 and CSB-1) as well as the terminal associated sequence (TAS) are conserved in the control region. The maximum likelihood phylogenetic tree revealed the close phylogeny of
R. hobelmani
with
R. sumatrana
,
R. aprotaenia
,
R. lateristriata
and
R. steineri
with bootstrap value of at least 99%. This work acts as milestone towards future evolution and population genetics studies of this species as well as the
Rasbora
genus.</description><subject>Biomedical and Life Sciences</subject><subject>COI protein</subject><subject>Conserved sequence</subject><subject>Cyprinidae</subject><subject>DNA</subject><subject>DNA sequencing</subject><subject>Fish</subject><subject>Genes</subject><subject>Genetics</subject><subject>Housing</subject><subject>Life Sciences</subject><subject>Nucleic acids</subject><subject>Nucleotide sequence</subject><subject>Phylogenetics</subject><subject>Phylogeny</subject><subject>Population genetics</subject><subject>Population studies</subject><subject>Primers</subject><subject>Proteins</subject><subject>Rasbora</subject><subject>Rasbora hobelmani</subject><subject>RNA</subject><subject>rRNA</subject><subject>Sequencing</subject><subject>Transfer RNA</subject><subject>Zoology</subject><issn>0032-9452</issn><issn>1555-6425</issn><fulltext>true</fulltext><rsrctype>article</rsrctype><creationdate>2020</creationdate><recordtype>article</recordtype><recordid>eNp1UE1Lw0AQXUTBWv0B3ha86CG6n2lylPgJ9QOr57BJJs2WdLfubpEe_O9urOBBhGGG4c17w3sIHVNyTikXFzNCOMuFZIwQGkvsoBGVUiapYHIXjQY4GfB9dOD9Iq55SrIR-pzB-xpMrc0cK9PgolNO1QGc9ipoa7BtcWGXqx4C4Acd7ByMXQK-erzErXX4RfnKOoU7W0G_VEbj02KzctroRsEZ_tChw8_dph94EHQdxYzXDbhv9UO016rew9HPHKO3m-vX4i6ZPt3eF5fTpOYyD4lsaiF5QwGoyJRgdWy5gHYykYTKtoqOIWe85QyaTMUcIGsy1pC0qqVSIuNjdLLVXTkb7fpQLuzamfiyZDzjJBUpncQrur2qnfXeQVtGI0vlNiUl5ZBy-SflyGFbjh9Mz8H9Kv9P-gJbtX9m</recordid><startdate>2020</startdate><enddate>2020</enddate><creator>Chung, H. H.</creator><creator>Kamar, C. K. A.</creator><creator>Lim, L. W. K.</creator><creator>Liao, Y.</creator><creator>Lam, T. T.</creator><creator>Chong, Y. L.</creator><general>Pleiades Publishing</general><general>Springer Nature B.V</general><scope>AAYXX</scope><scope>CITATION</scope><scope>7TN</scope><scope>8FD</scope><scope>F1W</scope><scope>FR3</scope><scope>H95</scope><scope>H99</scope><scope>L.F</scope><scope>L.G</scope><scope>P64</scope></search><sort><creationdate>2020</creationdate><title>Sequencing and Characterisation of Complete Mitogenome DNA for Rasbora hobelmani (Cyprinidae) with Phylogenetic Consideration</title><author>Chung, H. H. ; Kamar, C. K. A. ; Lim, L. W. K. ; Liao, Y. ; Lam, T. T. ; Chong, Y. L.</author></sort><facets><frbrtype>5</frbrtype><frbrgroupid>cdi_FETCH-LOGICAL-c359t-5dc453d1ee148a42c8a494ef775015fb010e923f32ed8a329e8d82d06bc5aa483</frbrgroupid><rsrctype>articles</rsrctype><prefilter>articles</prefilter><language>eng</language><creationdate>2020</creationdate><topic>Biomedical and Life Sciences</topic><topic>COI protein</topic><topic>Conserved sequence</topic><topic>Cyprinidae</topic><topic>DNA</topic><topic>DNA sequencing</topic><topic>Fish</topic><topic>Genes</topic><topic>Genetics</topic><topic>Housing</topic><topic>Life Sciences</topic><topic>Nucleic acids</topic><topic>Nucleotide sequence</topic><topic>Phylogenetics</topic><topic>Phylogeny</topic><topic>Population genetics</topic><topic>Population studies</topic><topic>Primers</topic><topic>Proteins</topic><topic>Rasbora</topic><topic>Rasbora hobelmani</topic><topic>RNA</topic><topic>rRNA</topic><topic>Sequencing</topic><topic>Transfer RNA</topic><topic>Zoology</topic><toplevel>peer_reviewed</toplevel><toplevel>online_resources</toplevel><creatorcontrib>Chung, H. H.</creatorcontrib><creatorcontrib>Kamar, C. K. A.</creatorcontrib><creatorcontrib>Lim, L. W. K.</creatorcontrib><creatorcontrib>Liao, Y.</creatorcontrib><creatorcontrib>Lam, T. T.</creatorcontrib><creatorcontrib>Chong, Y. L.</creatorcontrib><collection>CrossRef</collection><collection>Oceanic Abstracts</collection><collection>Technology Research Database</collection><collection>ASFA: Aquatic Sciences and Fisheries Abstracts</collection><collection>Engineering Research Database</collection><collection>Aquatic Science & Fisheries Abstracts (ASFA) 1: Biological Sciences & Living Resources</collection><collection>ASFA: Marine Biotechnology Abstracts</collection><collection>Aquatic Science & Fisheries Abstracts (ASFA) Marine Biotechnology Abstracts</collection><collection>Aquatic Science & Fisheries Abstracts (ASFA) Professional</collection><collection>Biotechnology and BioEngineering Abstracts</collection><jtitle>Journal of ichthyology</jtitle></facets><delivery><delcategory>Remote Search Resource</delcategory><fulltext>fulltext</fulltext></delivery><addata><au>Chung, H. H.</au><au>Kamar, C. K. A.</au><au>Lim, L. W. K.</au><au>Liao, Y.</au><au>Lam, T. T.</au><au>Chong, Y. L.</au><format>journal</format><genre>article</genre><ristype>JOUR</ristype><atitle>Sequencing and Characterisation of Complete Mitogenome DNA for Rasbora hobelmani (Cyprinidae) with Phylogenetic Consideration</atitle><jtitle>Journal of ichthyology</jtitle><stitle>J. Ichthyol</stitle><date>2020</date><risdate>2020</risdate><volume>60</volume><issue>1</issue><spage>90</spage><epage>98</epage><pages>90-98</pages><issn>0032-9452</issn><eissn>1555-6425</eissn><abstract>The Kottelat rasbora
Rasbora hobelmani
is a small ray-finned fish categorized under the genus
Rasbora
in the Cyprinidae family. In this study, the complete mitogenome sequence of
R. hobelmani
was sequenced using two pairs of primers covering overlapping regions. The mitogenome is 16 541 bp in length, housing 22 transfer RNA genes, 13 protein-coding genes, two ribosomal RNA genes and one putative control region. Identical gene organisation was spotted between this species and other
Rasbora
genus members. The heavy strand contains 28 genes while the light strand contains the remaining nine genes. Most protein-coding genes employ ATG as start codon, except for the COI gene, which exploits GTG instead. The central conserved sequence blocks (CSB-F, CSB-E and CSB-D), variable sequence blocks (CSB-3, CSB-2 and CSB-1) as well as the terminal associated sequence (TAS) are conserved in the control region. The maximum likelihood phylogenetic tree revealed the close phylogeny of
R. hobelmani
with
R. sumatrana
,
R. aprotaenia
,
R. lateristriata
and
R. steineri
with bootstrap value of at least 99%. This work acts as milestone towards future evolution and population genetics studies of this species as well as the
Rasbora
genus.</abstract><cop>Moscow</cop><pub>Pleiades Publishing</pub><doi>10.1134/S0032945220010014</doi><tpages>9</tpages><oa>free_for_read</oa></addata></record> |
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| subjects | Biomedical and Life Sciences COI protein Conserved sequence Cyprinidae DNA DNA sequencing Fish Genes Genetics Housing Life Sciences Nucleic acids Nucleotide sequence Phylogenetics Phylogeny Population genetics Population studies Primers Proteins Rasbora Rasbora hobelmani RNA rRNA Sequencing Transfer RNA Zoology |
| title | Sequencing and Characterisation of Complete Mitogenome DNA for Rasbora hobelmani (Cyprinidae) with Phylogenetic Consideration |
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