PCR-RFLP and Sequencing of trnS/trnfM Fragment of Enhalus acoriodes from Sanur Coastal Waters, Bali, Indonesia: A Preliminary Study
This study aimed to evaluate the resolution of PCR-RFLP and sequencing of trnS/trnfM in detecting genetic diversity of seagrass Enhalus acoroides at Sanur Beach, Sindhu Beach and Semawang Beach. This research used six samples E. acoroides from each location. DNA extraction method followed Doyle and...
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| Format: | Article |
| Language: | English |
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University of Brawijaya
2016-05-01
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| Series: | Journal of Tropical Life Science |
| Subjects: | |
| Online Access: | http://jtrolis.ub.ac.id/index.php/jtrolis/article/view/423 |
| _version_ | 1797669326005731328 |
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| author | Made Pharmawati Eka Fibayani Imaniar |
| author_facet | Made Pharmawati Eka Fibayani Imaniar |
| author_sort | Made Pharmawati |
| collection | DOAJ |
| description | This study aimed to evaluate the resolution of PCR-RFLP and sequencing of trnS/trnfM in detecting genetic diversity of seagrass Enhalus acoroides at Sanur Beach, Sindhu Beach and Semawang Beach. This research used six samples E. acoroides from each location. DNA extraction method followed Doyle and Doyle. PCR amplifications were done using primers P672/P673, P674/P675 and ITS4/ITS5 followed by digestion using restriction enzymes EcoRI, PstI, HindIII, BamHI, Rsa, Mva and HinfI. Sequencing analysis used PCR products of primers trnS/trnfM. Testing of DNA sequences of E. acoroides were conducted using BLAST (Basic Local Alignment Search Tool). DNA sequences were further analyzed using MEGA 5.2 software (Molecular Evolutionary Genetic Analysis) to evaluate variations of DNA. The sequence alignments were done using ClustalW software to determine the homology between the DNA sequences. The results showed that 18 samples of E. acoroides from Sanur, Sindhu and Semawang Beach have no polymorphism based on restriction enzyme analyses. Furthermore, sequencing of trnS/trnfM region of 18 samples E. acoroides showed that the sequences were identical. |
| first_indexed | 2024-03-11T20:42:36Z |
| format | Article |
| id | doaj.art-a241902e3c5043e8b9f4bb31ef4680ef |
| institution | Directory Open Access Journal |
| issn | 2087-5517 2527-4376 |
| language | English |
| last_indexed | 2024-03-11T20:42:36Z |
| publishDate | 2016-05-01 |
| publisher | University of Brawijaya |
| record_format | Article |
| series | Journal of Tropical Life Science |
| spelling | doaj.art-a241902e3c5043e8b9f4bb31ef4680ef2023-10-02T01:28:02ZengUniversity of BrawijayaJournal of Tropical Life Science2087-55172527-43762016-05-016211812210.11594/jtls.06.02.10174PCR-RFLP and Sequencing of trnS/trnfM Fragment of Enhalus acoriodes from Sanur Coastal Waters, Bali, Indonesia: A Preliminary StudyMade Pharmawati0Eka Fibayani Imaniar1Biology Department Faculty of Mathematics and Natural Sciences Udayana University Kampus Bukit Jimbaran, BaliBiology Department Faculty of Mathematics and Natural Sciences Udayana University Kampus Bukit Jimbaran, BaliThis study aimed to evaluate the resolution of PCR-RFLP and sequencing of trnS/trnfM in detecting genetic diversity of seagrass Enhalus acoroides at Sanur Beach, Sindhu Beach and Semawang Beach. This research used six samples E. acoroides from each location. DNA extraction method followed Doyle and Doyle. PCR amplifications were done using primers P672/P673, P674/P675 and ITS4/ITS5 followed by digestion using restriction enzymes EcoRI, PstI, HindIII, BamHI, Rsa, Mva and HinfI. Sequencing analysis used PCR products of primers trnS/trnfM. Testing of DNA sequences of E. acoroides were conducted using BLAST (Basic Local Alignment Search Tool). DNA sequences were further analyzed using MEGA 5.2 software (Molecular Evolutionary Genetic Analysis) to evaluate variations of DNA. The sequence alignments were done using ClustalW software to determine the homology between the DNA sequences. The results showed that 18 samples of E. acoroides from Sanur, Sindhu and Semawang Beach have no polymorphism based on restriction enzyme analyses. Furthermore, sequencing of trnS/trnfM region of 18 samples E. acoroides showed that the sequences were identical.http://jtrolis.ub.ac.id/index.php/jtrolis/article/view/423Enhalus acoroidesPCR-RFLPSequencing trnS/trnfMSanur |
| spellingShingle | Made Pharmawati Eka Fibayani Imaniar PCR-RFLP and Sequencing of trnS/trnfM Fragment of Enhalus acoriodes from Sanur Coastal Waters, Bali, Indonesia: A Preliminary Study Journal of Tropical Life Science Enhalus acoroides PCR-RFLP Sequencing trnS/trnfM Sanur |
| title | PCR-RFLP and Sequencing of trnS/trnfM Fragment of Enhalus acoriodes from Sanur Coastal Waters, Bali, Indonesia: A Preliminary Study |
| title_full | PCR-RFLP and Sequencing of trnS/trnfM Fragment of Enhalus acoriodes from Sanur Coastal Waters, Bali, Indonesia: A Preliminary Study |
| title_fullStr | PCR-RFLP and Sequencing of trnS/trnfM Fragment of Enhalus acoriodes from Sanur Coastal Waters, Bali, Indonesia: A Preliminary Study |
| title_full_unstemmed | PCR-RFLP and Sequencing of trnS/trnfM Fragment of Enhalus acoriodes from Sanur Coastal Waters, Bali, Indonesia: A Preliminary Study |
| title_short | PCR-RFLP and Sequencing of trnS/trnfM Fragment of Enhalus acoriodes from Sanur Coastal Waters, Bali, Indonesia: A Preliminary Study |
| title_sort | pcr rflp and sequencing of trns trnfm fragment of enhalus acoriodes from sanur coastal waters bali indonesia a preliminary study |
| topic | Enhalus acoroides PCR-RFLP Sequencing trnS/trnfM Sanur |
| url | http://jtrolis.ub.ac.id/index.php/jtrolis/article/view/423 |
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