Repetitive sequences in the lamprey mitochondrial DNA control region and speciation of Lethenteron
The sequence of the mitochondrial DNA control region was examined in four species of lamprey in the genus Lethenteron. The 3′ half of the control region contains highly variable repeat sequences, showing variation in both copy number and nucleotide sequence, even within local populations. Detailed a...
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| Veröffentlicht in: | Gene 2010-10, Vol.465 (1), p.45-52 |
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| creator | Okada, Kazunori Yamazaki, Yuji Yokobori, Shinichi Wada, Hiroshi |
| description | The sequence of the mitochondrial DNA control region was examined in four species of lamprey in the genus
Lethenteron. The 3′ half of the control region contains highly variable repeat sequences, showing variation in both copy number and nucleotide sequence, even within local populations. Detailed analyses of the sequences of the repeats allowed us to deduce that slipped-strand mispairing during DNA replication, accompanied by a high rate of substitutions and indels, was primarily responsible for the variation in the repeats. We also found that some cases might be better explained by gene conversion, due to intermolecular recombination. Based on the observed variable nature of the mitochondrial control region, we searched for molecular markers in mitochondrial DNA, because there are few fixed genetic markers for distinguishing between
Lethenteron japonicum and
Lethenteron kessleri. However, we found no reliable markers in the control region. No fixed substitution was observed in intron sequences of the nuclear gene
SoxD. Thus, these two species likely diverged quite recently and may possess only a limited number of fixed genetic loci. |
| doi_str_mv | 10.1016/j.gene.2010.06.009 |
| format | Article |
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Lethenteron. The 3′ half of the control region contains highly variable repeat sequences, showing variation in both copy number and nucleotide sequence, even within local populations. Detailed analyses of the sequences of the repeats allowed us to deduce that slipped-strand mispairing during DNA replication, accompanied by a high rate of substitutions and indels, was primarily responsible for the variation in the repeats. We also found that some cases might be better explained by gene conversion, due to intermolecular recombination. Based on the observed variable nature of the mitochondrial control region, we searched for molecular markers in mitochondrial DNA, because there are few fixed genetic markers for distinguishing between
Lethenteron japonicum and
Lethenteron kessleri. However, we found no reliable markers in the control region. No fixed substitution was observed in intron sequences of the nuclear gene
SoxD. Thus, these two species likely diverged quite recently and may possess only a limited number of fixed genetic loci.</description><identifier>ISSN: 0378-1119</identifier><identifier>EISSN: 1879-0038</identifier><identifier>DOI: 10.1016/j.gene.2010.06.009</identifier><identifier>PMID: 20599597</identifier><language>eng</language><publisher>Netherlands: Elsevier B.V</publisher><subject>Animals ; Base Sequence ; DNA Primers ; DNA, Mitochondrial - chemistry ; DNA, Mitochondrial - genetics ; Gene Conversion ; Lamprey ; Lampreys - genetics ; Lethenteron ; Lethenteron japonicum ; Lethenteron kessleri ; Mitochondrial control region ; Molecular Sequence Data ; Nucleic Acid Conformation ; Petromyzontidae ; Repetitive sequence ; Repetitive Sequences, Nucleic Acid ; RNA, Transfer - chemistry ; RNA, Transfer - genetics ; Sequence Homology, Nucleic Acid</subject><ispartof>Gene, 2010-10, Vol.465 (1), p.45-52</ispartof><rights>2010 Elsevier B.V.</rights><rights>(c) 2010 Elsevier B.V. All rights reserved.</rights><lds50>peer_reviewed</lds50><oa>free_for_read</oa><woscitedreferencessubscribed>false</woscitedreferencessubscribed><citedby>FETCH-LOGICAL-c497t-2e6ebdbe0337b9f6847c0a63931f81f4f029ed21e6d7160dea6ffddce9c807f03</citedby><cites>FETCH-LOGICAL-c497t-2e6ebdbe0337b9f6847c0a63931f81f4f029ed21e6d7160dea6ffddce9c807f03</cites></display><links><openurl>$$Topenurl_article</openurl><openurlfulltext>$$Topenurlfull_article</openurlfulltext><thumbnail>$$Tsyndetics_thumb_exl</thumbnail><linktohtml>$$Uhttps://www.sciencedirect.com/science/article/pii/S0378111910002581$$EHTML$$P50$$Gelsevier$$H</linktohtml><link.rule.ids>314,776,780,3536,27903,27904,65309</link.rule.ids><backlink>$$Uhttps://www.ncbi.nlm.nih.gov/pubmed/20599597$$D View this record in MEDLINE/PubMed$$Hfree_for_read</backlink></links><search><creatorcontrib>Okada, Kazunori</creatorcontrib><creatorcontrib>Yamazaki, Yuji</creatorcontrib><creatorcontrib>Yokobori, Shinichi</creatorcontrib><creatorcontrib>Wada, Hiroshi</creatorcontrib><title>Repetitive sequences in the lamprey mitochondrial DNA control region and speciation of Lethenteron</title><title>Gene</title><addtitle>Gene</addtitle><description>The sequence of the mitochondrial DNA control region was examined in four species of lamprey in the genus
Lethenteron. The 3′ half of the control region contains highly variable repeat sequences, showing variation in both copy number and nucleotide sequence, even within local populations. Detailed analyses of the sequences of the repeats allowed us to deduce that slipped-strand mispairing during DNA replication, accompanied by a high rate of substitutions and indels, was primarily responsible for the variation in the repeats. We also found that some cases might be better explained by gene conversion, due to intermolecular recombination. Based on the observed variable nature of the mitochondrial control region, we searched for molecular markers in mitochondrial DNA, because there are few fixed genetic markers for distinguishing between
Lethenteron japonicum and
Lethenteron kessleri. However, we found no reliable markers in the control region. No fixed substitution was observed in intron sequences of the nuclear gene
SoxD. Thus, these two species likely diverged quite recently and may possess only a limited number of fixed genetic loci.</description><subject>Animals</subject><subject>Base Sequence</subject><subject>DNA Primers</subject><subject>DNA, Mitochondrial - chemistry</subject><subject>DNA, Mitochondrial - genetics</subject><subject>Gene Conversion</subject><subject>Lamprey</subject><subject>Lampreys - genetics</subject><subject>Lethenteron</subject><subject>Lethenteron japonicum</subject><subject>Lethenteron kessleri</subject><subject>Mitochondrial control region</subject><subject>Molecular Sequence Data</subject><subject>Nucleic Acid Conformation</subject><subject>Petromyzontidae</subject><subject>Repetitive sequence</subject><subject>Repetitive Sequences, Nucleic Acid</subject><subject>RNA, Transfer - chemistry</subject><subject>RNA, Transfer - genetics</subject><subject>Sequence Homology, Nucleic Acid</subject><issn>0378-1119</issn><issn>1879-0038</issn><fulltext>true</fulltext><rsrctype>article</rsrctype><creationdate>2010</creationdate><recordtype>article</recordtype><sourceid>EIF</sourceid><recordid>eNqFkU9r3DAQxUVpaLZpv0APRbeevB3ZXsmCXkKS_oElhdKehSyNEi225EraQL59ZDbtsZ3LMMNvHsx7hLxjsGXA-MfD9g4DbluoC-BbAPmCbNggZAPQDS_JBjoxNIwxeU5e53yAWrtd-4qct7CTcifFhow_cMHii39AmvH3EYPBTH2g5R7ppOcl4SOdfYnmPgabvJ7o9e0lNTGUFCea8M7HQHWwNC9ovC7rGB3dYxUIBVMMb8iZ01PGt8_9gvz6fPPz6muz__7l29XlvjG9FKVpkeNoR4SuE6N0fOiFAc072TE3MNc7aCXaliG3gnGwqLlz1hqUZgDhoLsgH066S4r1kVzU7LPBadIB4zErwduW17_7_5P9IAfeMV7J9kSaFHNO6NSS_KzTo2Kg1hDUQa0hqDUEBVzVEOrR-2f54zij_Xvyx_UKfDoBWO148JhUNn513vqEpigb_b_0nwDhj5n2</recordid><startdate>20101001</startdate><enddate>20101001</enddate><creator>Okada, Kazunori</creator><creator>Yamazaki, Yuji</creator><creator>Yokobori, Shinichi</creator><creator>Wada, Hiroshi</creator><general>Elsevier B.V</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>7X8</scope><scope>7TM</scope><scope>8FD</scope><scope>F1W</scope><scope>FR3</scope><scope>H95</scope><scope>L.G</scope><scope>P64</scope><scope>RC3</scope></search><sort><creationdate>20101001</creationdate><title>Repetitive sequences in the lamprey mitochondrial DNA control region and speciation of Lethenteron</title><author>Okada, Kazunori ; Yamazaki, Yuji ; Yokobori, Shinichi ; Wada, Hiroshi</author></sort><facets><frbrtype>5</frbrtype><frbrgroupid>cdi_FETCH-LOGICAL-c497t-2e6ebdbe0337b9f6847c0a63931f81f4f029ed21e6d7160dea6ffddce9c807f03</frbrgroupid><rsrctype>articles</rsrctype><prefilter>articles</prefilter><language>eng</language><creationdate>2010</creationdate><topic>Animals</topic><topic>Base Sequence</topic><topic>DNA Primers</topic><topic>DNA, Mitochondrial - chemistry</topic><topic>DNA, Mitochondrial - genetics</topic><topic>Gene Conversion</topic><topic>Lamprey</topic><topic>Lampreys - genetics</topic><topic>Lethenteron</topic><topic>Lethenteron japonicum</topic><topic>Lethenteron kessleri</topic><topic>Mitochondrial control region</topic><topic>Molecular Sequence Data</topic><topic>Nucleic Acid Conformation</topic><topic>Petromyzontidae</topic><topic>Repetitive sequence</topic><topic>Repetitive Sequences, Nucleic Acid</topic><topic>RNA, Transfer - chemistry</topic><topic>RNA, Transfer - genetics</topic><topic>Sequence Homology, Nucleic Acid</topic><toplevel>peer_reviewed</toplevel><toplevel>online_resources</toplevel><creatorcontrib>Okada, Kazunori</creatorcontrib><creatorcontrib>Yamazaki, Yuji</creatorcontrib><creatorcontrib>Yokobori, Shinichi</creatorcontrib><creatorcontrib>Wada, Hiroshi</creatorcontrib><collection>Medline</collection><collection>MEDLINE</collection><collection>MEDLINE (Ovid)</collection><collection>MEDLINE</collection><collection>MEDLINE</collection><collection>PubMed</collection><collection>CrossRef</collection><collection>MEDLINE - Academic</collection><collection>Nucleic Acids 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>Aquatic Science & Fisheries Abstracts (ASFA) Professional</collection><collection>Biotechnology and BioEngineering Abstracts</collection><collection>Genetics Abstracts</collection><jtitle>Gene</jtitle></facets><delivery><delcategory>Remote Search Resource</delcategory><fulltext>fulltext</fulltext></delivery><addata><au>Okada, Kazunori</au><au>Yamazaki, Yuji</au><au>Yokobori, Shinichi</au><au>Wada, Hiroshi</au><format>journal</format><genre>article</genre><ristype>JOUR</ristype><atitle>Repetitive sequences in the lamprey mitochondrial DNA control region and speciation of Lethenteron</atitle><jtitle>Gene</jtitle><addtitle>Gene</addtitle><date>2010-10-01</date><risdate>2010</risdate><volume>465</volume><issue>1</issue><spage>45</spage><epage>52</epage><pages>45-52</pages><issn>0378-1119</issn><eissn>1879-0038</eissn><abstract>The sequence of the mitochondrial DNA control region was examined in four species of lamprey in the genus
Lethenteron. The 3′ half of the control region contains highly variable repeat sequences, showing variation in both copy number and nucleotide sequence, even within local populations. Detailed analyses of the sequences of the repeats allowed us to deduce that slipped-strand mispairing during DNA replication, accompanied by a high rate of substitutions and indels, was primarily responsible for the variation in the repeats. We also found that some cases might be better explained by gene conversion, due to intermolecular recombination. Based on the observed variable nature of the mitochondrial control region, we searched for molecular markers in mitochondrial DNA, because there are few fixed genetic markers for distinguishing between
Lethenteron japonicum and
Lethenteron kessleri. However, we found no reliable markers in the control region. No fixed substitution was observed in intron sequences of the nuclear gene
SoxD. Thus, these two species likely diverged quite recently and may possess only a limited number of fixed genetic loci.</abstract><cop>Netherlands</cop><pub>Elsevier B.V</pub><pmid>20599597</pmid><doi>10.1016/j.gene.2010.06.009</doi><tpages>8</tpages><oa>free_for_read</oa></addata></record> |
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| subjects | Animals Base Sequence DNA Primers DNA, Mitochondrial - chemistry DNA, Mitochondrial - genetics Gene Conversion Lamprey Lampreys - genetics Lethenteron Lethenteron japonicum Lethenteron kessleri Mitochondrial control region Molecular Sequence Data Nucleic Acid Conformation Petromyzontidae Repetitive sequence Repetitive Sequences, Nucleic Acid RNA, Transfer - chemistry RNA, Transfer - genetics Sequence Homology, Nucleic Acid |
| title | Repetitive sequences in the lamprey mitochondrial DNA control region and speciation of Lethenteron |
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