Probing the potential of InDel polymorphisms on the molecular identification of cetaceans
Studies with cetaceans using degraded samples have faced challenges for molecular identification based on the barcoding methodology and other sequencing techniques due to the fragmented nature of the genetic material found on these samples. In this article, we evaluated the use of inserti...
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Academia.edu Journals
2023-04-01
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| Series: | Academia Biology |
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| author | Dafne Adriana Abreu dos Anjos Rodrigo Goldenberg Barbosa Anna Luiza dos Santos Donato Elizeu Fagundes de Carvalho Cesar Rogerio Leal do Amaral |
| author_facet | Dafne Adriana Abreu dos Anjos Rodrigo Goldenberg Barbosa Anna Luiza dos Santos Donato Elizeu Fagundes de Carvalho Cesar Rogerio Leal do Amaral |
| author_sort | Dafne Adriana Abreu dos Anjos |
| collection | DOAJ |
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Studies with cetaceans using degraded samples have faced challenges for molecular identification based on the barcoding methodology and other sequencing techniques due to the fragmented nature of the genetic material found on these samples. In this article, we evaluated the use of insertion–deletion regions for the molecular identification of cetaceans. The presented methodology allows the identification of species based on numeric profiles related to the chosen InDel regions, a forensic gold standard commonly used for degraded samples that cannot be sequenced easily. We carried out an in silico analysis using previously published 16S rRNA and adjacent tRNA-Leu mitochondrial sequences obtained from the NCBI database and found that accurate identification of all species included in our assay could be obtained by combining the lengths of three InDel regions. The regions selected in this study can be used for the construction of molecular identification assays for phylogeny and conservation studies, especially when degraded samples are included. |
| format | Article |
| id | doaj-art-b2a6ee1826f64fccb68b1bd5e99deb72 |
| institution | Kabale University |
| issn | 2837-4010 |
| language | English |
| publishDate | 2023-04-01 |
| publisher | Academia.edu Journals |
| record_format | Article |
| series | Academia Biology |
| spelling | doaj-art-b2a6ee1826f64fccb68b1bd5e99deb722025-02-11T23:52:50ZengAcademia.edu JournalsAcademia Biology2837-40102023-04-011210.20935/AcadBiol6032Probing the potential of InDel polymorphisms on the molecular identification of cetaceansDafne Adriana Abreu dos Anjos0Rodrigo Goldenberg Barbosa1Anna Luiza dos Santos Donato2Elizeu Fagundes de Carvalho3Cesar Rogerio Leal do Amaral4Laboratório de Radioecologia e Mudanças Globais, Núcleo de Genética Molecular e Astrobiologia, Departamen to de Biofísica e Biometria, Instituto de Biologia Roberto Alcântara Gomes, Universidade do Estado do Rio de Janeiro, Rio de Janeiro, RJ, Brasil.Laboratório de Radioecologia e Mudanças Globais, Núcleo de Genética Molecular e Astrobiologia, Departamen to de Biofísica e Biometria, Instituto de Biologia Roberto Alcântara Gomes, Universidade do Estado do Rio de Janeiro, Rio de Janeiro, RJ, Brasil.Laboratório de Radioecologia e Mudanças Globais, Núcleo de Genética Molecular e Astrobiologia, Departamen to de Biofísica e Biometria, Instituto de Biologia Roberto Alcântara Gomes, Universidade do Estado do Rio de Janeiro, Rio de Janeiro, RJ, Brasil.Laboratorio de Diagnosticos por DNA, Instituto de Biologia Roberto Alcantara Gomes, Universidade do Estado do Rio de Janeiro, Rio de Janeiro, RJ, Brasil.Laboratório de Radioecologia e Mudanças Globais, Núcleo de Genética Molecular e Astrobiologia, Departamen to de Biofísica e Biometria, Instituto de Biologia Roberto Alcântara Gomes, Universidade do Estado do Rio de Janeiro, Rio de Janeiro, RJ, Brasil. Studies with cetaceans using degraded samples have faced challenges for molecular identification based on the barcoding methodology and other sequencing techniques due to the fragmented nature of the genetic material found on these samples. In this article, we evaluated the use of insertion–deletion regions for the molecular identification of cetaceans. The presented methodology allows the identification of species based on numeric profiles related to the chosen InDel regions, a forensic gold standard commonly used for degraded samples that cannot be sequenced easily. We carried out an in silico analysis using previously published 16S rRNA and adjacent tRNA-Leu mitochondrial sequences obtained from the NCBI database and found that accurate identification of all species included in our assay could be obtained by combining the lengths of three InDel regions. The regions selected in this study can be used for the construction of molecular identification assays for phylogeny and conservation studies, especially when degraded samples are included.https://www.academia.edu/100453036/Probing_the_potential_of_InDel_polymorphisms_on_the_molecular_identification_of_cetaceans |
| spellingShingle | Dafne Adriana Abreu dos Anjos Rodrigo Goldenberg Barbosa Anna Luiza dos Santos Donato Elizeu Fagundes de Carvalho Cesar Rogerio Leal do Amaral Probing the potential of InDel polymorphisms on the molecular identification of cetaceans Academia Biology |
| title | Probing the potential of InDel polymorphisms on the molecular identification of cetaceans |
| title_full | Probing the potential of InDel polymorphisms on the molecular identification of cetaceans |
| title_fullStr | Probing the potential of InDel polymorphisms on the molecular identification of cetaceans |
| title_full_unstemmed | Probing the potential of InDel polymorphisms on the molecular identification of cetaceans |
| title_short | Probing the potential of InDel polymorphisms on the molecular identification of cetaceans |
| title_sort | probing the potential of indel polymorphisms on the molecular identification of cetaceans |
| url | https://www.academia.edu/100453036/Probing_the_potential_of_InDel_polymorphisms_on_the_molecular_identification_of_cetaceans |
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