Gabriel Iketani, Luciana Pimentel, Ezequias Dos Santos Torres, Péricles Sena do Rêgo, Iracilda Sampaio
{"title":"亚马逊沼虾线粒体异质性和假基因(Heller, 1862): DNA条形码及其系统地理意义。","authors":"Gabriel Iketani, Luciana Pimentel, Ezequias Dos Santos Torres, Péricles Sena do Rêgo, Iracilda Sampaio","doi":"10.1080/24701394.2020.1844677","DOIUrl":null,"url":null,"abstract":"<p><p>The mitochondrial cytochrome oxidase c subunit 1 (COI) gene has been widely used in phylogenetic studies of crustaceans and analyses in population genetics. As COI studies have become more popular, there has been an increase in the number of reports of the presence of nuclear insertions of mitochondrial DNA (Numts) and mitochondrial heteroplasmy. Here, we provide evidence of both types of event in the COI sequences of <i>Macrobrachium amazonicum</i>, an economically important freshwater prawn, which is widespread in South America. Heteroplasmy and Numts were confirmed by different methods of DNA extraction (genomic, mitochondrial, and nuclear-enriched DNA), cloning, and sequencing, and were observed in 11 of the 14 populations sampled, primarily in the Amazon region. We discuss how the occurrence of these events affects the interpretation of the genetic relationships among the <i>M. amazonicum</i> populations, and we recommend caution when using COI for genetic inferences in prawns of the genus <i>Macrobrachium</i>, and in particular that any analysis should include nuclear markers.</p>","PeriodicalId":74204,"journal":{"name":"Mitochondrial DNA. Part A, DNA mapping, sequencing, and analysis","volume":null,"pages":null},"PeriodicalIF":0.0000,"publicationDate":"2021-01-01","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"https://sci-hub-pdf.com/10.1080/24701394.2020.1844677","citationCount":"4","resultStr":"{\"title\":\"Mitochondrial heteroplasmy and pseudogenes in the freshwater prawn, <i>Macrobrachium amazonicum</i> (Heller, 1862): DNA barcoding and phylogeographic implications.\",\"authors\":\"Gabriel Iketani, Luciana Pimentel, Ezequias Dos Santos Torres, Péricles Sena do Rêgo, Iracilda Sampaio\",\"doi\":\"10.1080/24701394.2020.1844677\",\"DOIUrl\":null,\"url\":null,\"abstract\":\"<p><p>The mitochondrial cytochrome oxidase c subunit 1 (COI) gene has been widely used in phylogenetic studies of crustaceans and analyses in population genetics. As COI studies have become more popular, there has been an increase in the number of reports of the presence of nuclear insertions of mitochondrial DNA (Numts) and mitochondrial heteroplasmy. Here, we provide evidence of both types of event in the COI sequences of <i>Macrobrachium amazonicum</i>, an economically important freshwater prawn, which is widespread in South America. Heteroplasmy and Numts were confirmed by different methods of DNA extraction (genomic, mitochondrial, and nuclear-enriched DNA), cloning, and sequencing, and were observed in 11 of the 14 populations sampled, primarily in the Amazon region. We discuss how the occurrence of these events affects the interpretation of the genetic relationships among the <i>M. amazonicum</i> populations, and we recommend caution when using COI for genetic inferences in prawns of the genus <i>Macrobrachium</i>, and in particular that any analysis should include nuclear markers.</p>\",\"PeriodicalId\":74204,\"journal\":{\"name\":\"Mitochondrial DNA. Part A, DNA mapping, sequencing, and analysis\",\"volume\":null,\"pages\":null},\"PeriodicalIF\":0.0000,\"publicationDate\":\"2021-01-01\",\"publicationTypes\":\"Journal Article\",\"fieldsOfStudy\":null,\"isOpenAccess\":false,\"openAccessPdf\":\"https://sci-hub-pdf.com/10.1080/24701394.2020.1844677\",\"citationCount\":\"4\",\"resultStr\":null,\"platform\":\"Semanticscholar\",\"paperid\":null,\"PeriodicalName\":\"Mitochondrial DNA. Part A, DNA mapping, sequencing, and analysis\",\"FirstCategoryId\":\"1085\",\"ListUrlMain\":\"https://doi.org/10.1080/24701394.2020.1844677\",\"RegionNum\":0,\"RegionCategory\":null,\"ArticlePicture\":[],\"TitleCN\":null,\"AbstractTextCN\":null,\"PMCID\":null,\"EPubDate\":\"2020/11/9 0:00:00\",\"PubModel\":\"Epub\",\"JCR\":\"\",\"JCRName\":\"\",\"Score\":null,\"Total\":0}","platform":"Semanticscholar","paperid":null,"PeriodicalName":"Mitochondrial DNA. Part A, DNA mapping, sequencing, and analysis","FirstCategoryId":"1085","ListUrlMain":"https://doi.org/10.1080/24701394.2020.1844677","RegionNum":0,"RegionCategory":null,"ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":null,"EPubDate":"2020/11/9 0:00:00","PubModel":"Epub","JCR":"","JCRName":"","Score":null,"Total":0}
Mitochondrial heteroplasmy and pseudogenes in the freshwater prawn, Macrobrachium amazonicum (Heller, 1862): DNA barcoding and phylogeographic implications.
The mitochondrial cytochrome oxidase c subunit 1 (COI) gene has been widely used in phylogenetic studies of crustaceans and analyses in population genetics. As COI studies have become more popular, there has been an increase in the number of reports of the presence of nuclear insertions of mitochondrial DNA (Numts) and mitochondrial heteroplasmy. Here, we provide evidence of both types of event in the COI sequences of Macrobrachium amazonicum, an economically important freshwater prawn, which is widespread in South America. Heteroplasmy and Numts were confirmed by different methods of DNA extraction (genomic, mitochondrial, and nuclear-enriched DNA), cloning, and sequencing, and were observed in 11 of the 14 populations sampled, primarily in the Amazon region. We discuss how the occurrence of these events affects the interpretation of the genetic relationships among the M. amazonicum populations, and we recommend caution when using COI for genetic inferences in prawns of the genus Macrobrachium, and in particular that any analysis should include nuclear markers.