DNA barcoding of Stolephorus indicus, Stolephorus commersonnii and Terapon jarbua of Parangipettai Coastal Waters
Three teleost fishes, Stolephorus indicus, Stolephorus commersonnii and Terapon jarbua occurring in Parangipettai waters, were barcoded (sequenced) for 648 bp region of the mitochondrial cytochrome oxidase subunit I gene (COI) for phylogenetic analysis. All the possible barcode sequences of these th...
| Main Authors: | , , , , , |
|---|---|
| Format: | Article |
| Language: | English |
| Published: |
Asian Network for Scientific Information
2010
|
| Subjects: | |
| Online Access: | http://irep.iium.edu.my/4212/1/373-377.pdf |
| _version_ | 1796875105354121216 |
|---|---|
| author | Khan, S. Ajmal Lyla, P.S. John, Akbar Kumar, C. Prasanna Murugan, S. Khan Chowdhury, Ahmed Jalal |
| author_facet | Khan, S. Ajmal Lyla, P.S. John, Akbar Kumar, C. Prasanna Murugan, S. Khan Chowdhury, Ahmed Jalal |
| author_sort | Khan, S. Ajmal |
| collection | IIUM |
| description | Three teleost fishes, Stolephorus indicus, Stolephorus commersonnii and Terapon jarbua occurring in Parangipettai waters, were barcoded (sequenced) for 648 bp region of the mitochondrial cytochrome oxidase subunit I gene (COI) for phylogenetic analysis. All the possible barcode sequences of these three fishes were also extracted via FASTA format from NCBI (National Centre for Biotechnological Information). The genetic distances within the species was small compared to the genetic distances between the species i.e., the genetic distances within S. indicus was 7.67% and the average genetic distance between S. indicus and S. commersonnii was 9.11%. The genetic distance between the families Engraulidae and Terapontidae was 26.48% which was found higher than the genetic distance calculated within the family of Engraulidae (9.11%). This clearly showed that when organisms from distantly placed families are taken, the genetic distance increases. In the present study some phylogeographical signal was apparent in the data. In the neighbor-joining tree for all 10 sequences, two major groups were apparent: clade A comprising of Terapon jarbua and clade B comprising of Stolephorus species. The grouping pattern of clade A showed some phylogeographical signals. The barcode sequence of Lates calcarifer shuffled within other sequences during phylogram constructions was unambiguously placed as an out group in the phylogram. The clades after bootstrapping corresponded well with the expectations. We conclude that precise and accurate identification of Stolephorus indicus, S.commersonnii and Terapon jarbua could be performed using the barcode sequences of the mitochondrial DNA (in the COI gene) of these fishes. |
| first_indexed | 2024-03-05T22:33:59Z |
| format | Article |
| id | oai:generic.eprints.org:4212 |
| institution | International Islamic University Malaysia |
| language | English |
| last_indexed | 2024-03-05T22:33:59Z |
| publishDate | 2010 |
| publisher | Asian Network for Scientific Information |
| record_format | dspace |
| spelling | oai:generic.eprints.org:42122017-12-07T05:05:11Z http://irep.iium.edu.my/4212/ DNA barcoding of Stolephorus indicus, Stolephorus commersonnii and Terapon jarbua of Parangipettai Coastal Waters Khan, S. Ajmal Lyla, P.S. John, Akbar Kumar, C. Prasanna Murugan, S. Khan Chowdhury, Ahmed Jalal QL Zoology Three teleost fishes, Stolephorus indicus, Stolephorus commersonnii and Terapon jarbua occurring in Parangipettai waters, were barcoded (sequenced) for 648 bp region of the mitochondrial cytochrome oxidase subunit I gene (COI) for phylogenetic analysis. All the possible barcode sequences of these three fishes were also extracted via FASTA format from NCBI (National Centre for Biotechnological Information). The genetic distances within the species was small compared to the genetic distances between the species i.e., the genetic distances within S. indicus was 7.67% and the average genetic distance between S. indicus and S. commersonnii was 9.11%. The genetic distance between the families Engraulidae and Terapontidae was 26.48% which was found higher than the genetic distance calculated within the family of Engraulidae (9.11%). This clearly showed that when organisms from distantly placed families are taken, the genetic distance increases. In the present study some phylogeographical signal was apparent in the data. In the neighbor-joining tree for all 10 sequences, two major groups were apparent: clade A comprising of Terapon jarbua and clade B comprising of Stolephorus species. The grouping pattern of clade A showed some phylogeographical signals. The barcode sequence of Lates calcarifer shuffled within other sequences during phylogram constructions was unambiguously placed as an out group in the phylogram. The clades after bootstrapping corresponded well with the expectations. We conclude that precise and accurate identification of Stolephorus indicus, S.commersonnii and Terapon jarbua could be performed using the barcode sequences of the mitochondrial DNA (in the COI gene) of these fishes. Asian Network for Scientific Information 2010 Article PeerReviewed application/pdf en http://irep.iium.edu.my/4212/1/373-377.pdf Khan, S. Ajmal and Lyla, P.S. and John, Akbar and Kumar, C. Prasanna and Murugan, S. and Khan Chowdhury, Ahmed Jalal (2010) DNA barcoding of Stolephorus indicus, Stolephorus commersonnii and Terapon jarbua of Parangipettai Coastal Waters. Biotechnology, 9 (3). pp. 373-377. ISSN 1682-2978 (O), 1682-296X (P) http://scialert.net/abstract/?doi=biotech.2010.373.377 10.3923/biotech.2010.373.377 |
| spellingShingle | QL Zoology Khan, S. Ajmal Lyla, P.S. John, Akbar Kumar, C. Prasanna Murugan, S. Khan Chowdhury, Ahmed Jalal DNA barcoding of Stolephorus indicus, Stolephorus commersonnii and Terapon jarbua of Parangipettai Coastal Waters |
| title | DNA barcoding of Stolephorus indicus, Stolephorus commersonnii and Terapon jarbua of Parangipettai Coastal Waters |
| title_full | DNA barcoding of Stolephorus indicus, Stolephorus commersonnii and Terapon jarbua of Parangipettai Coastal Waters |
| title_fullStr | DNA barcoding of Stolephorus indicus, Stolephorus commersonnii and Terapon jarbua of Parangipettai Coastal Waters |
| title_full_unstemmed | DNA barcoding of Stolephorus indicus, Stolephorus commersonnii and Terapon jarbua of Parangipettai Coastal Waters |
| title_short | DNA barcoding of Stolephorus indicus, Stolephorus commersonnii and Terapon jarbua of Parangipettai Coastal Waters |
| title_sort | dna barcoding of stolephorus indicus stolephorus commersonnii and terapon jarbua of parangipettai coastal waters |
| topic | QL Zoology |
| url | http://irep.iium.edu.my/4212/1/373-377.pdf |
| work_keys_str_mv | AT khansajmal dnabarcodingofstolephorusindicusstolephoruscommersonniiandteraponjarbuaofparangipettaicoastalwaters AT lylaps dnabarcodingofstolephorusindicusstolephoruscommersonniiandteraponjarbuaofparangipettaicoastalwaters AT johnakbar dnabarcodingofstolephorusindicusstolephoruscommersonniiandteraponjarbuaofparangipettaicoastalwaters AT kumarcprasanna dnabarcodingofstolephorusindicusstolephoruscommersonniiandteraponjarbuaofparangipettaicoastalwaters AT murugans dnabarcodingofstolephorusindicusstolephoruscommersonniiandteraponjarbuaofparangipettaicoastalwaters AT khanchowdhuryahmedjalal dnabarcodingofstolephorusindicusstolephoruscommersonniiandteraponjarbuaofparangipettaicoastalwaters |