Mitochondrial genome of Rattus tiomanicus (Rodentia: Muridae) and molecular phylogeny of murinae
Rattus tiomanicus is a murid rodent of considerable agricultural and public health importance in Southeast Asia. The whole mitochondrial genome of R. tiomanicus was sequenced by the Ion Torrent PGM platform. It had a total length of 16,309 bp, consisting of 13 protein-coding genes, two rRNA gene...
| Main Authors: | , , , |
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| Format: | Article |
| Language: | English |
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Penerbit Universiti Kebangsaan Malaysia
2021
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| Online Access: | http://journalarticle.ukm.my/17169/1/7.pdf |
| _version_ | 1796932604680732672 |
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| author | Song, Sze-Looi Lim, Phaik-Eem Yong, Hoi-Sen Tan, Ji |
| author_facet | Song, Sze-Looi Lim, Phaik-Eem Yong, Hoi-Sen Tan, Ji |
| author_sort | Song, Sze-Looi |
| collection | UKM |
| description | Rattus tiomanicus is a murid rodent of considerable agricultural and public health importance in Southeast Asia. The
whole mitochondrial genome of R. tiomanicus was sequenced by the Ion Torrent PGM platform. It had a total length of
16,309 bp, consisting of 13 protein-coding genes, two rRNA genes, 22 tRNA genes and two non-coding regions (L-strand
replication origin and control region). Only TAA and incomplete T-stop codons were represented in the protein-coding
genes. Of the tRNAs, tryptophan (W) had ACU anticodon. The cloverleaf structure for serine S1 (AGN) tRNA lacked the
entire D-arm, while in lysine (K) tRNA, the DHU arm lacked the D-loop. Molecular phylogeny based on 15 mt-genes
indicated R. tiomanicus having closest genetic affinity to R. rattus complex (R. rattus, R. tanezumi). There were two
major clades for the Murinae subfamily namely the Rattini tribe and the Apodemini, Murini and Hydromyini tribes.
The whole mitogenome of R. tiomanicus will serve as a useful dataset for studying the systematics and phylogenetic
relationships of the murid rodents. |
| first_indexed | 2024-03-06T04:34:59Z |
| format | Article |
| id | ukm.eprints-17169 |
| institution | Universiti Kebangsaan Malaysia |
| language | English |
| last_indexed | 2024-03-06T04:34:59Z |
| publishDate | 2021 |
| publisher | Penerbit Universiti Kebangsaan Malaysia |
| record_format | dspace |
| spelling | ukm.eprints-171692021-07-26T02:35:47Z http://journalarticle.ukm.my/17169/ Mitochondrial genome of Rattus tiomanicus (Rodentia: Muridae) and molecular phylogeny of murinae Song, Sze-Looi Lim, Phaik-Eem Yong, Hoi-Sen Tan, Ji Rattus tiomanicus is a murid rodent of considerable agricultural and public health importance in Southeast Asia. The whole mitochondrial genome of R. tiomanicus was sequenced by the Ion Torrent PGM platform. It had a total length of 16,309 bp, consisting of 13 protein-coding genes, two rRNA genes, 22 tRNA genes and two non-coding regions (L-strand replication origin and control region). Only TAA and incomplete T-stop codons were represented in the protein-coding genes. Of the tRNAs, tryptophan (W) had ACU anticodon. The cloverleaf structure for serine S1 (AGN) tRNA lacked the entire D-arm, while in lysine (K) tRNA, the DHU arm lacked the D-loop. Molecular phylogeny based on 15 mt-genes indicated R. tiomanicus having closest genetic affinity to R. rattus complex (R. rattus, R. tanezumi). There were two major clades for the Murinae subfamily namely the Rattini tribe and the Apodemini, Murini and Hydromyini tribes. The whole mitogenome of R. tiomanicus will serve as a useful dataset for studying the systematics and phylogenetic relationships of the murid rodents. Penerbit Universiti Kebangsaan Malaysia 2021-04 Article PeerReviewed application/pdf en http://journalarticle.ukm.my/17169/1/7.pdf Song, Sze-Looi and Lim, Phaik-Eem and Yong, Hoi-Sen and Tan, Ji (2021) Mitochondrial genome of Rattus tiomanicus (Rodentia: Muridae) and molecular phylogeny of murinae. Sains Malaysiana, 50 (4). pp. 953-965. ISSN 0126-6039 https://www.ukm.my/jsm/malay_journals/jilid50bil4_2021/KandunganJilid50Bil4_2021.html |
| spellingShingle | Song, Sze-Looi Lim, Phaik-Eem Yong, Hoi-Sen Tan, Ji Mitochondrial genome of Rattus tiomanicus (Rodentia: Muridae) and molecular phylogeny of murinae |
| title | Mitochondrial genome of Rattus tiomanicus (Rodentia: Muridae) and molecular phylogeny of murinae |
| title_full | Mitochondrial genome of Rattus tiomanicus (Rodentia: Muridae) and molecular phylogeny of murinae |
| title_fullStr | Mitochondrial genome of Rattus tiomanicus (Rodentia: Muridae) and molecular phylogeny of murinae |
| title_full_unstemmed | Mitochondrial genome of Rattus tiomanicus (Rodentia: Muridae) and molecular phylogeny of murinae |
| title_short | Mitochondrial genome of Rattus tiomanicus (Rodentia: Muridae) and molecular phylogeny of murinae |
| title_sort | mitochondrial genome of rattus tiomanicus rodentia muridae and molecular phylogeny of murinae |
| url | http://journalarticle.ukm.my/17169/1/7.pdf |
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