The mitochondrial genome of the predatory mite Metaseiulus occidentalis (Arthropoda: Chelicerata: Acari: Phytoseiidae) is unexpectedly large and contains several novel features
The complete mitochondrial genome of the phytoseiid Metaseiulus occidentalis (Arthropoda: Chelicerata: Acari: Phytoseiidae) has been sequenced. It is 24,961 bp in length and contains a 14,695-bp unique region, a 345-bp triplicated region, and a 9921-bp duplicated region, in that order. The A+T conte...
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| description | The complete mitochondrial genome of the phytoseiid
Metaseiulus occidentalis (Arthropoda: Chelicerata: Acari: Phytoseiidae) has been sequenced. It is 24,961 bp in length and contains a 14,695-bp unique region, a 345-bp triplicated region, and a 9921-bp duplicated region, in that order. The A+T content of the unique region is 76.9% and contains 11 protein coding (
COI–III;
ATP6–8;
CytB;
ND1,
2,
4,
5 and
4L), two ribosomal RNA (
srRNA and
lrRNA), 22 transfer RNA (
tRNA) genes, and two copies of D-loop control sequence. Two genes (
ND3 and
6) appear to be missing, but there is a large intergenic spacer (390 bp) present, which could contain
ND3 if a different codon usage is employed. The gene order is completely different from the pattern in all other known chelicerates, including the horseshoe crab
Limulus polyphemus [Lavrov et al., Mol. Biol. Evol., 2000; 17:813–824]. All the inferred
tRNA genes are missing the TΨC arm, but this arm has fused with the variable arm to generate a TV replacement loop. The duplicated region (9921 bp) contains 18 genes in the same order as in the unique region from
CytB to
tRNA-His, plus one copy of D-loop control sequence (311 bp) and a partial
tRNA-Leu2 sequence (34 bp). The small triplicated region (345 bp) contains a D-loop control sequence (311 bp) and a partial
tRNA-Leu2 sequence (34 bp). Because of these anomalies, amplifying sequences posed technical difficulties, but were accomplished by using a primer-walking strategy and increasing the AT content to 75% in the high-fidelity PCR dNTP mix. This is the first phytoseiid mitochondrial genome to be completely sequenced and the largest (25 kb) detected from the Chelicerata. |
| doi_str_mv | 10.1016/j.gene.2007.01.012 |
| format | Article |
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Metaseiulus occidentalis (Arthropoda: Chelicerata: Acari: Phytoseiidae) has been sequenced. It is 24,961 bp in length and contains a 14,695-bp unique region, a 345-bp triplicated region, and a 9921-bp duplicated region, in that order. The A+T content of the unique region is 76.9% and contains 11 protein coding (
COI–III;
ATP6–8;
CytB;
ND1,
2,
4,
5 and
4L), two ribosomal RNA (
srRNA and
lrRNA), 22 transfer RNA (
tRNA) genes, and two copies of D-loop control sequence. Two genes (
ND3 and
6) appear to be missing, but there is a large intergenic spacer (390 bp) present, which could contain
ND3 if a different codon usage is employed. The gene order is completely different from the pattern in all other known chelicerates, including the horseshoe crab
Limulus polyphemus [Lavrov et al., Mol. Biol. Evol., 2000; 17:813–824]. All the inferred
tRNA genes are missing the TΨC arm, but this arm has fused with the variable arm to generate a TV replacement loop. The duplicated region (9921 bp) contains 18 genes in the same order as in the unique region from
CytB to
tRNA-His, plus one copy of D-loop control sequence (311 bp) and a partial
tRNA-Leu2 sequence (34 bp). The small triplicated region (345 bp) contains a D-loop control sequence (311 bp) and a partial
tRNA-Leu2 sequence (34 bp). Because of these anomalies, amplifying sequences posed technical difficulties, but were accomplished by using a primer-walking strategy and increasing the AT content to 75% in the high-fidelity PCR dNTP mix. This is the first phytoseiid mitochondrial genome to be completely sequenced and the largest (25 kb) detected from the Chelicerata.</description><identifier>ISSN: 0378-1119</identifier><identifier>EISSN: 1879-0038</identifier><identifier>DOI: 10.1016/j.gene.2007.01.012</identifier><identifier>PMID: 17321074</identifier><language>eng</language><publisher>Netherlands: Elsevier B.V</publisher><subject>Acari ; Animals ; Arthropoda ; Base Composition ; Base Sequence ; Chelicerata ; Decapoda ; DNA, Intergenic - genetics ; DNA, Mitochondrial - chemistry ; DNA, Mitochondrial - genetics ; Gene amplification ; Gene Order ; Limulus polyphemus ; Metaseiulus occidentalis ; Mites - genetics ; Mitochondrial genome ; Mitochondrial Proteins - genetics ; Molecular Sequence Data ; Multiple D-loop copies ; Novel gene order ; Phytoseiidae ; RNA, Ribosomal - genetics ; RNA, Transfer - genetics ; Sequence Analysis, DNA ; TV replacement loop</subject><ispartof>Gene, 2007-04, Vol.391 (1), p.264-274</ispartof><rights>2007 Elsevier B.V.</rights><lds50>peer_reviewed</lds50><woscitedreferencessubscribed>false</woscitedreferencessubscribed><citedby>FETCH-LOGICAL-c385t-cfeebbfd6300f9d5589041a2dd8b88af1aacb7f824ce8d236df9863676ea9dd83</citedby><cites>FETCH-LOGICAL-c385t-cfeebbfd6300f9d5589041a2dd8b88af1aacb7f824ce8d236df9863676ea9dd83</cites></display><links><openurl>$$Topenurl_article</openurl><openurlfulltext>$$Topenurlfull_article</openurlfulltext><thumbnail>$$Tsyndetics_thumb_exl</thumbnail><linktohtml>$$Uhttps://www.sciencedirect.com/science/article/pii/S0378111907000418$$EHTML$$P50$$Gelsevier$$H</linktohtml><link.rule.ids>314,776,780,3537,27903,27904,65309</link.rule.ids><backlink>$$Uhttps://www.ncbi.nlm.nih.gov/pubmed/17321074$$D View this record in MEDLINE/PubMed$$Hfree_for_read</backlink></links><search><creatorcontrib>Jeyaprakash, Ayyamperumal</creatorcontrib><creatorcontrib>Hoy, Marjorie A.</creatorcontrib><title>The mitochondrial genome of the predatory mite Metaseiulus occidentalis (Arthropoda: Chelicerata: Acari: Phytoseiidae) is unexpectedly large and contains several novel features</title><title>Gene</title><addtitle>Gene</addtitle><description>The complete mitochondrial genome of the phytoseiid
Metaseiulus occidentalis (Arthropoda: Chelicerata: Acari: Phytoseiidae) has been sequenced. It is 24,961 bp in length and contains a 14,695-bp unique region, a 345-bp triplicated region, and a 9921-bp duplicated region, in that order. The A+T content of the unique region is 76.9% and contains 11 protein coding (
COI–III;
ATP6–8;
CytB;
ND1,
2,
4,
5 and
4L), two ribosomal RNA (
srRNA and
lrRNA), 22 transfer RNA (
tRNA) genes, and two copies of D-loop control sequence. Two genes (
ND3 and
6) appear to be missing, but there is a large intergenic spacer (390 bp) present, which could contain
ND3 if a different codon usage is employed. The gene order is completely different from the pattern in all other known chelicerates, including the horseshoe crab
Limulus polyphemus [Lavrov et al., Mol. Biol. Evol., 2000; 17:813–824]. All the inferred
tRNA genes are missing the TΨC arm, but this arm has fused with the variable arm to generate a TV replacement loop. The duplicated region (9921 bp) contains 18 genes in the same order as in the unique region from
CytB to
tRNA-His, plus one copy of D-loop control sequence (311 bp) and a partial
tRNA-Leu2 sequence (34 bp). The small triplicated region (345 bp) contains a D-loop control sequence (311 bp) and a partial
tRNA-Leu2 sequence (34 bp). Because of these anomalies, amplifying sequences posed technical difficulties, but were accomplished by using a primer-walking strategy and increasing the AT content to 75% in the high-fidelity PCR dNTP mix. This is the first phytoseiid mitochondrial genome to be completely sequenced and the largest (25 kb) detected from the Chelicerata.</description><subject>Acari</subject><subject>Animals</subject><subject>Arthropoda</subject><subject>Base Composition</subject><subject>Base Sequence</subject><subject>Chelicerata</subject><subject>Decapoda</subject><subject>DNA, Intergenic - genetics</subject><subject>DNA, Mitochondrial - chemistry</subject><subject>DNA, Mitochondrial - genetics</subject><subject>Gene amplification</subject><subject>Gene Order</subject><subject>Limulus polyphemus</subject><subject>Metaseiulus occidentalis</subject><subject>Mites - genetics</subject><subject>Mitochondrial genome</subject><subject>Mitochondrial Proteins - genetics</subject><subject>Molecular Sequence Data</subject><subject>Multiple D-loop copies</subject><subject>Novel gene order</subject><subject>Phytoseiidae</subject><subject>RNA, Ribosomal - genetics</subject><subject>RNA, Transfer - genetics</subject><subject>Sequence Analysis, DNA</subject><subject>TV replacement loop</subject><issn>0378-1119</issn><issn>1879-0038</issn><fulltext>true</fulltext><rsrctype>article</rsrctype><creationdate>2007</creationdate><recordtype>article</recordtype><sourceid>EIF</sourceid><recordid>eNqFkcuOFCEUhonROD2jL-DCsDLOolqgbtTETafjLRmji3FNKDhM0aGKEqiO_VY-olS6E3dKTkII3_8tzo_QK0q2lNDm3WH7CBNsGSHtltA87AnaUN52BSElf4o2pGx5QSntrtB1jAeST12z5-iKtiWjpK026PfDAHi0yavBTzpY6XCW-hGwNzjlvzmAlsmH00oB_gpJRrCLWyL2SlkNU5LORvx2F9IQ_Oy1vMP7AZxVEGTKj52Swd7h78Mp-Ry1WsItzollgl8zqATanbCT4RGwnDRWPhvtFHGEYzY4PPkjOGxApiVAfIGeGekivLzcN-jHxw8P-8_F_bdPX_a7-0KVvE6FMgB9b3RTEmI6Xde8IxWVTGvecy4NlVL1reGsUsA1KxttOt6UTduA7DJU3qA3Z-8c_M8FYhKjjQqckxP4JYqWsKrrSPlfkHZNU9XlamRnUAUfYwAj5mBHGU6CErEWKg5iLVSshQpC87Acen2xL_0I-m_k0mAG3p8ByMs4WggiKguTAm1DXq7Q3v7L_weCirbc</recordid><startdate>20070415</startdate><enddate>20070415</enddate><creator>Jeyaprakash, Ayyamperumal</creator><creator>Hoy, Marjorie A.</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>7SS</scope><scope>8FD</scope><scope>FR3</scope><scope>P64</scope><scope>RC3</scope><scope>7X8</scope></search><sort><creationdate>20070415</creationdate><title>The mitochondrial genome of the predatory mite Metaseiulus occidentalis (Arthropoda: Chelicerata: Acari: Phytoseiidae) is unexpectedly large and contains several novel features</title><author>Jeyaprakash, Ayyamperumal ; Hoy, Marjorie A.</author></sort><facets><frbrtype>5</frbrtype><frbrgroupid>cdi_FETCH-LOGICAL-c385t-cfeebbfd6300f9d5589041a2dd8b88af1aacb7f824ce8d236df9863676ea9dd83</frbrgroupid><rsrctype>articles</rsrctype><prefilter>articles</prefilter><language>eng</language><creationdate>2007</creationdate><topic>Acari</topic><topic>Animals</topic><topic>Arthropoda</topic><topic>Base Composition</topic><topic>Base Sequence</topic><topic>Chelicerata</topic><topic>Decapoda</topic><topic>DNA, Intergenic - genetics</topic><topic>DNA, Mitochondrial - chemistry</topic><topic>DNA, Mitochondrial - genetics</topic><topic>Gene amplification</topic><topic>Gene Order</topic><topic>Limulus polyphemus</topic><topic>Metaseiulus occidentalis</topic><topic>Mites - genetics</topic><topic>Mitochondrial genome</topic><topic>Mitochondrial Proteins - genetics</topic><topic>Molecular Sequence Data</topic><topic>Multiple D-loop copies</topic><topic>Novel gene order</topic><topic>Phytoseiidae</topic><topic>RNA, Ribosomal - genetics</topic><topic>RNA, Transfer - genetics</topic><topic>Sequence Analysis, DNA</topic><topic>TV replacement loop</topic><toplevel>peer_reviewed</toplevel><toplevel>online_resources</toplevel><creatorcontrib>Jeyaprakash, Ayyamperumal</creatorcontrib><creatorcontrib>Hoy, Marjorie A.</creatorcontrib><collection>Medline</collection><collection>MEDLINE</collection><collection>MEDLINE (Ovid)</collection><collection>MEDLINE</collection><collection>MEDLINE</collection><collection>PubMed</collection><collection>CrossRef</collection><collection>Entomology Abstracts (Full archive)</collection><collection>Technology Research Database</collection><collection>Engineering Research Database</collection><collection>Biotechnology and BioEngineering Abstracts</collection><collection>Genetics Abstracts</collection><collection>MEDLINE - Academic</collection><jtitle>Gene</jtitle></facets><delivery><delcategory>Remote Search Resource</delcategory><fulltext>fulltext</fulltext></delivery><addata><au>Jeyaprakash, Ayyamperumal</au><au>Hoy, Marjorie A.</au><format>journal</format><genre>article</genre><ristype>JOUR</ristype><atitle>The mitochondrial genome of the predatory mite Metaseiulus occidentalis (Arthropoda: Chelicerata: Acari: Phytoseiidae) is unexpectedly large and contains several novel features</atitle><jtitle>Gene</jtitle><addtitle>Gene</addtitle><date>2007-04-15</date><risdate>2007</risdate><volume>391</volume><issue>1</issue><spage>264</spage><epage>274</epage><pages>264-274</pages><issn>0378-1119</issn><eissn>1879-0038</eissn><abstract>The complete mitochondrial genome of the phytoseiid
Metaseiulus occidentalis (Arthropoda: Chelicerata: Acari: Phytoseiidae) has been sequenced. It is 24,961 bp in length and contains a 14,695-bp unique region, a 345-bp triplicated region, and a 9921-bp duplicated region, in that order. The A+T content of the unique region is 76.9% and contains 11 protein coding (
COI–III;
ATP6–8;
CytB;
ND1,
2,
4,
5 and
4L), two ribosomal RNA (
srRNA and
lrRNA), 22 transfer RNA (
tRNA) genes, and two copies of D-loop control sequence. Two genes (
ND3 and
6) appear to be missing, but there is a large intergenic spacer (390 bp) present, which could contain
ND3 if a different codon usage is employed. The gene order is completely different from the pattern in all other known chelicerates, including the horseshoe crab
Limulus polyphemus [Lavrov et al., Mol. Biol. Evol., 2000; 17:813–824]. All the inferred
tRNA genes are missing the TΨC arm, but this arm has fused with the variable arm to generate a TV replacement loop. The duplicated region (9921 bp) contains 18 genes in the same order as in the unique region from
CytB to
tRNA-His, plus one copy of D-loop control sequence (311 bp) and a partial
tRNA-Leu2 sequence (34 bp). The small triplicated region (345 bp) contains a D-loop control sequence (311 bp) and a partial
tRNA-Leu2 sequence (34 bp). Because of these anomalies, amplifying sequences posed technical difficulties, but were accomplished by using a primer-walking strategy and increasing the AT content to 75% in the high-fidelity PCR dNTP mix. This is the first phytoseiid mitochondrial genome to be completely sequenced and the largest (25 kb) detected from the Chelicerata.</abstract><cop>Netherlands</cop><pub>Elsevier B.V</pub><pmid>17321074</pmid><doi>10.1016/j.gene.2007.01.012</doi><tpages>11</tpages></addata></record> |
| fulltext | fulltext |
| identifier | ISSN: 0378-1119 |
| ispartof | Gene, 2007-04, Vol.391 (1), p.264-274 |
| issn | 0378-1119 1879-0038 |
| language | eng |
| recordid | cdi_proquest_miscellaneous_70249903 |
| source | MEDLINE; Elsevier ScienceDirect Journals |
| subjects | Acari Animals Arthropoda Base Composition Base Sequence Chelicerata Decapoda DNA, Intergenic - genetics DNA, Mitochondrial - chemistry DNA, Mitochondrial - genetics Gene amplification Gene Order Limulus polyphemus Metaseiulus occidentalis Mites - genetics Mitochondrial genome Mitochondrial Proteins - genetics Molecular Sequence Data Multiple D-loop copies Novel gene order Phytoseiidae RNA, Ribosomal - genetics RNA, Transfer - genetics Sequence Analysis, DNA TV replacement loop |
| title | The mitochondrial genome of the predatory mite Metaseiulus occidentalis (Arthropoda: Chelicerata: Acari: Phytoseiidae) is unexpectedly large and contains several novel features |
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