Intraspecific variations in Cyt b and D-loop sequences of Testudine species, Lissemys punctata from south Karnataka
The freshwater Testudine species have gained importance in recent years, as most of their population is threatened due to exploitation for delicacy and pet trade. In this regard, Lissemys punctata, a freshwater terrapin, predominantly distributed in Asian countries has gained its significance for th...
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| Format: | Article |
| Language: | English |
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Elsevier
2018-01-01
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| Series: | Journal of Advanced Research |
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| Online Access: | http://www.sciencedirect.com/science/article/pii/S209012321730111X |
| _version_ | 1818012901247549440 |
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| author | R. Lalitha V.R. Chandavar |
| author_facet | R. Lalitha V.R. Chandavar |
| author_sort | R. Lalitha |
| collection | DOAJ |
| description | The freshwater Testudine species have gained importance in recent years, as most of their population is threatened due to exploitation for delicacy and pet trade. In this regard, Lissemys punctata, a freshwater terrapin, predominantly distributed in Asian countries has gained its significance for the study. A pilot study report on mitochondrial markers (Cyt b and D-loop) conducted on L. punctata species from southern Karnataka, India was presented in this investigation. A complete region spanning 1.14 kb and ∼1 kb was amplified by HotStart PCR and sequenced by Sanger sequencing. The Cyt b sequence revealed 85 substitution sites, no indels and 17 parsimony informative sites, whereas D-loop showed 189 variable sites, 51 parsimony informative sites with 5′ functional domains TAS, CSB-F, CSBs (1, 2, 3) preceding tandem repeat at 3′ end. Current data highlights the intraspecific variations in these target regions and variations validated using suitable evolutionary models points out that the overall point mutations observed in the region are transitions leading to no structural and functional alterations. The mitochondrial data generated uncover the genetic diversity within species and conservationist can utilize the data to estimate the effective population size or for forensic identification of animal or its seizures during unlawful trade activities. |
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| format | Article |
| id | doaj.art-f68b1dd86352462e99f8e3ca4d909678 |
| institution | Directory Open Access Journal |
| issn | 2090-1232 2090-1224 |
| language | English |
| last_indexed | 2024-04-14T06:26:36Z |
| publishDate | 2018-01-01 |
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| spelling | doaj.art-f68b1dd86352462e99f8e3ca4d9096782022-12-22T02:07:49ZengElsevierJournal of Advanced Research2090-12322090-12242018-01-019C879510.1016/j.jare.2017.10.007Intraspecific variations in Cyt b and D-loop sequences of Testudine species, Lissemys punctata from south KarnatakaR. LalithaV.R. ChandavarThe freshwater Testudine species have gained importance in recent years, as most of their population is threatened due to exploitation for delicacy and pet trade. In this regard, Lissemys punctata, a freshwater terrapin, predominantly distributed in Asian countries has gained its significance for the study. A pilot study report on mitochondrial markers (Cyt b and D-loop) conducted on L. punctata species from southern Karnataka, India was presented in this investigation. A complete region spanning 1.14 kb and ∼1 kb was amplified by HotStart PCR and sequenced by Sanger sequencing. The Cyt b sequence revealed 85 substitution sites, no indels and 17 parsimony informative sites, whereas D-loop showed 189 variable sites, 51 parsimony informative sites with 5′ functional domains TAS, CSB-F, CSBs (1, 2, 3) preceding tandem repeat at 3′ end. Current data highlights the intraspecific variations in these target regions and variations validated using suitable evolutionary models points out that the overall point mutations observed in the region are transitions leading to no structural and functional alterations. The mitochondrial data generated uncover the genetic diversity within species and conservationist can utilize the data to estimate the effective population size or for forensic identification of animal or its seizures during unlawful trade activities.http://www.sciencedirect.com/science/article/pii/S209012321730111XTrionychidaeLissemys punctataCyt bD-loopHotstart PCRVNTRs |
| spellingShingle | R. Lalitha V.R. Chandavar Intraspecific variations in Cyt b and D-loop sequences of Testudine species, Lissemys punctata from south Karnataka Journal of Advanced Research Trionychidae Lissemys punctata Cyt b D-loop Hotstart PCR VNTRs |
| title | Intraspecific variations in Cyt b and D-loop sequences of Testudine species, Lissemys punctata from south Karnataka |
| title_full | Intraspecific variations in Cyt b and D-loop sequences of Testudine species, Lissemys punctata from south Karnataka |
| title_fullStr | Intraspecific variations in Cyt b and D-loop sequences of Testudine species, Lissemys punctata from south Karnataka |
| title_full_unstemmed | Intraspecific variations in Cyt b and D-loop sequences of Testudine species, Lissemys punctata from south Karnataka |
| title_short | Intraspecific variations in Cyt b and D-loop sequences of Testudine species, Lissemys punctata from south Karnataka |
| title_sort | intraspecific variations in cyt b and d loop sequences of testudine species lissemys punctata from south karnataka |
| topic | Trionychidae Lissemys punctata Cyt b D-loop Hotstart PCR VNTRs |
| url | http://www.sciencedirect.com/science/article/pii/S209012321730111X |
| work_keys_str_mv | AT rlalitha intraspecificvariationsincytbanddloopsequencesoftestudinespecieslissemyspunctatafromsouthkarnataka AT vrchandavar intraspecificvariationsincytbanddloopsequencesoftestudinespecieslissemyspunctatafromsouthkarnataka |