The complete mitochondrial genome of the Asian tapirs (
            <i>Tapirus indicus</i>
            ): the only extant Tapiridae species in the old world

Muangkram, Yuttamol; Wajjwalku, Worawidh; Kaolim, Nongnid; Buddhakosai, Waradee; Kamolnorranath, Sumate; Siriaroonrat, Boripat; Tipkantha, Wanlaya; Dongsaard, Khwanruean; Maikaew, Umaporn; Sanannu, Saowaphang

doi:10.3109/19401736.2014.898283

Cited by 8 publications

(19 citation statements)

References 6 publications

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“…1 , Table 1 ). The gene order, and distribution on each strand, is identical to that reported in the congeneric Tapirus indicus ( Muangkram et al, 2015 ), as well as in the rhinoceros Diceros bicornis ( Willerslev et al, 2009 ) and horses Equus kiang ( Luo et al, 2011 ) and Equus caballus ( Xu & Arnason, 1994 ), all members of Perissodactyla. Mitochondrial genome arrangements in mammals tend to remain stable, therefore the identical mitochondrial genome arrangement of Tapirus to members of Perissodactyla is expected, and exhibits the typical vertebrate arrangement ( Boore, 2001 ).…”

Section: Resultssupporting

confidence: 74%

First genomic resource for an endangered neotropical mega-herbivore: the complete mitochondrial genome of the forest-dweller (Baird’s) tapir (Tapirus bairdii)

Ennis

Ortega

Baeza

2022

PeerJ

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Baird’s tapir, or the Central American Tapir Tapirus bairdii (family Tapiridae), is one of the largest mammals native to the forests and wetlands of southern North America and Central America, and is categorized as ‘endangered’ on the 2014 IUCN Red List of Threatened Species. This study reports, for the first time, the complete mitochondrial genome of T. bairdii and examines the phylogenetic position of T. bairdii amongst closely related species in the same family and order to which it belongs using mitochondrial protein-coding genes (PCG’s). The circular, double-stranded, A-T rich mitochondrial genome of T. bairdii is 16,697 bp in length consisting of 13 protein-coding genes (PCG’s), two ribosomal RNA genes (rrnS (12s ribosomal RNA and rrnL (16s ribosomal RNA)), and 22 transfer RNA (tRNA) genes. A 33 bp long region was identified to be the origin of replication for the light strand (OL), and a 1,247 bp long control region (CR) contains the origin of replication for the heavy strand (OH). A majority of the PCG’s and tRNA genes are encoded on the positive, or heavy, strand. The gene order in T. baiirdi is identical to that of T. indicus and T. terrestris, the only two other species of extant tapirs with assembled mitochondrial genomes. An analysis of Ka/Ks ratios for all the PCG’s show values <1, suggesting that all these PCGs experience strong purifying selection. A maximum-likelihood phylogenetic analysis supports the monophyly of the genus Tapirus and the order Perissodactyla. The complete annotation and analysis of the mitochondrial genome of T. bairdii will contribute to a better understanding of the population genomic diversity and structure of this species, and it will assist in the conservation and protection of its dwindling populations.

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Section: Resultssupporting

confidence: 74%

First genomic resource for an endangered neotropical mega-herbivore: the complete mitochondrial genome of the forest-dweller (Baird’s) tapir (Tapirus bairdii)

Ennis

Ortega

Baeza

2022

PeerJ

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“…DNA was extracted using a modified phenol/chloroform technique with ethanol precipitation (Nelson & Krawetz 1992). The full-length of the CR was amplified using DreamTaq Õ DNA Polymerase (Fermentas International, Saskatchewan, Canada) and one primer pair: the forward primer on tRNA Pro 5'-CAC CCA TCA ACA CCC AAA GCT-3' (Muangkram et al 2016) and the reverse primer on tRNA Phe 5'-GGG CAT CTT CAG TGC CTC GCT T-3' (Ward et al 1999). The total reaction volume for each PCR was 50 ml, which included 5 ml of 10Â Taq buffer with (NH 4 ) 2 SO 4 , 5 ml of dNTP (0.2 mM of each), 1 mM of each primer, 4 mM of MgCl 2 , 1.25 U Taq polymerase, 1 mg of template DNA, and nuclease-free water.…”

Section: Methodsmentioning

confidence: 99%

“…Recently, the full length of complete mitochondrial genome is elucidated by our previous study (Muangkram et al 2016). The genetic studies in this endangered species provide the valuable tools for the management of threatened species (Schwartz et al 2007).…”

Section: Introductionmentioning

confidence: 99%

“…The most variable segments of the mtDNA genome are located in the control region (CR) or displacement loop (D-loop) in most mammal species (Cann et al 1984), including Asian tapirs (Muangkram et al 2016). The mitochondrial control region contains the major regulatory elements for replication and expression of the mitochondrial genome and it is commonly used to determine the intra-specific level of genetic diversity among populations (Sbisà et al 1997).…”

Section: Introductionmentioning

confidence: 99%

“…CSB1 in particular is an essential element of the mammalian mtDNA genome (Saccone et al 1987;Sbisà et al 1997). To date, the CR sequences of two Tapiridae species have been deposited in GenBank including one haplotype of Brazilian tapir (accession number AJ428947) (Arnason et al 2008) and three haplotypes of Asian tapir (accession number NC023838, KJ417808, and KJ417810) from our previous study (Muangkram et al 2016).…”

Section: Introductionmentioning

confidence: 99%

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Genetic diversity of the captive Asian tapir population in Thailand, based on mitochondrial control region sequence data and the comparison of its nucleotide structure with Brazilian tapir

Muangkram

Amano

Wajjwalku

et al. 2016

Mitochondrial DNA Part A

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The Asian tapir (Tapirus indicus) has been classified as Endangered on the IUCN Red List of Threatened Species (2008). Genetic diversity data provide important information for the management of captive breeding and conservation of this species. We analyzed mitochondrial control region (CR) sequences from 37 captive Asian tapirs in Thailand. Multiple alignments of the full-length CR sequences sized 1268 bp comprised three domains as described in other mammal species. Analysis of 16 parsimony-informative variable sites revealed 11 haplotypes. Furthermore, the phylogenetic analysis using median-joining network clearly showed three clades correlated with our earlier cytochrome b gene study in this endangered species. The repetitive motif is located between first and second conserved sequence blocks, similar to the Brazilian tapir. The highest polymorphic site was located in the extended termination associated sequences domain. The results could be applied for future genetic management based in captivity and wild that shows stable populations.

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Evolution, Biogeography, and Genetics of Living Tapirs

Pinho,

Lim,

Annavi

et al. 2024

Fascinating Life Sciences

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The complete mitochondrial genome of the Asian tapirs ( Tapirus indicus ): the only extant Tapiridae species in the old world

Cited by 8 publications

References 6 publications

First genomic resource for an endangered neotropical mega-herbivore: the complete mitochondrial genome of the forest-dweller (Baird’s) tapir (Tapirus bairdii)

First genomic resource for an endangered neotropical mega-herbivore: the complete mitochondrial genome of the forest-dweller (Baird’s) tapir (Tapirus bairdii)

Genetic diversity of the captive Asian tapir population in Thailand, based on mitochondrial control region sequence data and the comparison of its nucleotide structure with Brazilian tapir

Evolution, Biogeography, and Genetics of Living Tapirs

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