Mitochondrial Genome of Endangered Hylobatidae, Hylobates agilis and Hylobates lar, of Peninsular Malaysia

https://doi.org/10.55230/mabjournal.v53i3.3047

Authors

  • Roberta Chaya Tawie Tingga Department of Biological Sciences and Biotechnology, Faculty of Science and Technology, Universiti Kebangsaan Malaysia, 43600, Bangi, Selangor, Malaysia; Centre for Pre-University Studies, Universiti Malaysia Sarawak, 94300, Kota Samarahan, Sarawak, Malaysia https://orcid.org/0000-0002-6739-656X
  • Millawati Gani Department of Biological Sciences and Biotechnology, Faculty of Science and Technology, Universiti Kebangsaan Malaysia, 43600, Bangi, Selangor, Malaysia; National Wildlife Forensic Laboratory (NWFL), Ex-Situ Conservation Division, Department of Wildlife and National Parks (PERHILITAN), KM 10 Jalan Cheras, 56100, Kuala Lumpur, Malaysia https://orcid.org/0000-0002-9508-7481
  • Badrul Munir Md-Zain Department of Biological Sciences and Biotechnology, Faculty of Science and Technology, Universiti Kebangsaan Malaysia, 43600, Bangi, Selangor, Malaysia https://orcid.org/0000-0003-4037-8115

Keywords:

Hylobates agilis, Hylobates lar, mitogenome, next-generation sequencing

Abstract

Hylobates agilis and Hylobates lar, members of the family Hylobatidae, are classified as endangered species in Malaysia due to threats such as population decline and habitat loss. The aim of this study was to sequence and characterize the mitochondrial genome of H. lar and H. agilis. This study reported the total length of mitogenome of H. agilis and H. lar to be 16,473 and 15,949 base pair (bp), respectively. Each sequence contained 13 protein-coding sequences, 2 rRNAs, 22 tRNAs, and a control region D-loop (H. agilis); meanwhile for H. lar, there are 13 protein-coding sequences, 2 rRNAs, 19 trNAs, and a control region D-loop. Phylogenetic analysis showed both species formed a strong monophyletic clade within Hylobates grouping. Mitogenomic data of this study is essential for future references in evolutionary biology and conservation management of endangered Malaysian gibbons in captivity.

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References

Aifat, N.R. & Md-Zain, B.M. Genetic identification of white-handed gibbons (Hylobates lar) in captivity. 2021. Journal of Sustainability Science and Management, 16(4): 316-326.

Baiz, M.D., Tucker, P.K. & Cortés-Ortiz, L. 2018. Multiple forms of selection shape reproductive isolation in a primate hybrid zone. Molecular Ecology, 28(5): 1056-1069.

Bernt, M., Donath, A., Jühling, F., Externbrink, F., Florentz, C., Fritzsch, G., Pütz, J., Middendorf, M. & Stadler, P.F. 2013. MITOS: Improved de novo metazoan mitochondrial genome annotation. Molecular Phylogenetics and Evolution, 69(2): 313-319.

Besnard, G., Bertrand J.A.M., Delahaie, B., Bourgeois, Y.X.C., Lhuillier, E. & Thébaud, C. 2016. Valuing museum specimens: high-throughput DNA sequencing on historical collections of New Guinea crowned pigeons (Goura). Biological Journal of the Linnean Society, 117(1): 71-82.

Campbell, C.O., Cheyne, S.M. & Rawson, B.M. 2015. Best practice guidelines for the rehabilitation and translocation of gibbons. International Union for Conservation of Nature, Gland, Switzerland.

Chan, Y.C., Roos, C., Inoue-Murayama, M., Inoue, E., Shih, C.C., Pei, K.J.C. & Vigilant, L. 2010. Mitochondrial genome sequences effectively reveal the phylogeny of Hylobates gibbons. PLoS ONE, 5(12): e14419.

Chen, L., Lin, Y., Xiao, Q., Lin, Y., Du, Y., Lin, C., Ward-Fear, G., Hu, C., Qu, Y. & Li, H. 2021. Characterization of the complete mitochondrial genome of the many-lined sun skink (Eutropis multifasciata) and comparison with other Scincomorpha species. Genomics, 113(4): 2526-2536.

Cortés-Ortiz, L., Roos, C. & Zinner, D. 2019. Introduction to special issue on primate hybridization and hybrid zones. International Journal of Primatology, 40(1): 1-8.

Crampton-Platt, A., Timmermans, M.J.T.N., Gimmel, M.L., Kutty, S.N., Cockerill, T.D., Vun Khen, C. & Vogler, A.P. 2015. Soup to tree: The phylogeny of beetles inferred by mitochondrial metagenomics of a Bornean rainforest sample. Molecular Biology and Evolution, 32(9): 2302-2316.

Evanno, G., Regnaut, S. & Goudet, J. 2005. Detecting the number of clusters of individuals using the software structure: A simulation study. Molecular Ecology, 14(8): 2611-2620.

Finstermeier, K., Zinner, D., Brameier, M., Meyer, M., Kreuz, E., Hofreiter, M. & Roos, C. 2013. A mitogenomic phylogeny of living primates. PLoS ONE, 8(7): e69504.

Gaur, A., Umapathy, G., Vasudevan, K., Sontakke, S., Rao, S., Goel, S., Kumar, D., Gupta, B., Singh, D.N. & Kumar, A. 2017. Manual for Biological Sample Collection and Preservation for Genetic, Reproductive and Disease Analyses 2017. Central Zoo Authority and LaCONES, New Delhi. 19 pp.

İbiş, O. 2020. Partial mitogenome sequence of the indian crested porcupine (Hystrix indica) in Turkey, with the phylogeny of the subgenus Hystrix. Biology Bulletin, 47(4): 399-406.

Kanthaswamy, S., Gill, L., Satkoski, J., Goyal, V., Malladi, V., Kou, A., Kirin Basuta, Sarkisyan, L., George, D. & David Glenn Smith. 2009. Development of a chinese-indian hybrid (chindian) rhesus macaque colony at the California National Primate Research Center by introgression. Journal of Medical Primatology, 38(2): 86-96.

Kanthaswamy, S., Satkoski, J., George, D.A., Kou, A., Joy, B. & David Glenn Smith. 2008. Hybridization and stratification of nuclear genetic variation in Macaca mulatta and M. fascicularis. International Journal of Primatology, 29(5): 1295-1311.

Matsudaira, K. & Ishida, T. 2021. Divergence and introgression in small apes, the genus Hylobates, revealed by reduced representation sequencing. 127(3), 312-322.

Matsudaira, K., Reichard, U.H., Ishida, T. & Malaivijitnond, S. 2022. Introgression and mating patterns between white-handed gibbons (Hylobates lar) and pileated gibbons (Hylobates pileatus) in a natural hybrid zone. PLoS ONE, 17(3): e0264519.

Matsudaira, K., Reichard, U.H., Malaivijitnond, S. & Ishida, T. 2013. Molecular evidence for the introgression between Hylobates lar and H. pileatus in the wild. Primates, 54:33-37.

Md-Zain, B.M., Abdul-Latiff, M.A.B, Mohd-Ridwan, A.R. & Najmuddin, M.F. 2022. Primat Semenanjung Malaysia. Jabatan Perhilitan Semenanjung Malaysia, Kuala Lumpur.

Md-Zain, B.M., Mohd-Ridwan, A.R., Muhd-Sahimi, H.N., Abdul-Latiff, M.A.B. & Chan, E. 2021. Mixed-species association among Malaysian primates during the Covid-19 outbreak in Genting Highlands, Peninsular Malaysia. Journal of Sustainability Science and Management, 16(1): 1-10.

Mootnick, A.R. 2006. Gibbon (Hylobatidae) species identification recommended for rescue or breeding centers. Primate Conservation, 21: 103-138.

Palombit, R.A. 1995. Longitudinal patterns of reproduction in wild female siamang (Hylobates syndactylus) and white-handed gibbons (Hylobates lar). International Journal of Primatology, 16(5): 739-760.

Roos, C. Phylogeny and classification of gibbons (Hylobatidae). 2016. In: Evolution of gibbons and siamang. Developments in Primatology: Progress and Prospects. U.H. Reichard, H. Hirai and C. Barelli (Eds.). Springer, New York.

Tamura, K., Stecher, G. & Kumar, S. 2021. MEGA11: Molecular Evolutionary Genetics Analysis Version 11. Molecular Biology and Evolution, 38(7): 022-3027.

Thinh, V.N., Mootnick, A.R., Geissmann, T., Li, M., Ziegler, T., Agil, M., Moisson, P., Nadler, T., Walter, L. & Roos, C. 2010. Mitochondrial evidence for multiple radiations in the evolutionary history of small apes. BMC Evolutionary Biology, 10(1): 74.

Wick, R.R., Judd, L.M., Gorrie, C.L. & Holt, K.E. 2017a. Completing bacterial genome assemblies with multiplex MinION sequencing. Microbial Genomic, 3(10): e000132.

Wick, R.R., Judd, L.M., Gorrie, C.L. & Holt, K.E. 2017b. Unicycler: Resolving bacterial genome assemblies from short and long sequencing reads. PLOS Computational Biology, 13(6): e1005595.

Yimkao, P. & Srikosamatara, S. 2006. Ecology and site-based conservation of the white-handed gibbon (Hylobates lar L.) in human-use forests in Mae Hong Son province, Northern Thailand. Natural History Bulletin of the Siam Society, 54(1): 109-138.

Published

30-09-2024

How to Cite

Tingga, R. C. T., Gani, M., & Md-Zain, B. M. (2024). Mitochondrial Genome of Endangered Hylobatidae, Hylobates agilis and Hylobates lar, of Peninsular Malaysia. Malaysian Applied Biology, 53(3), 51–58. https://doi.org/10.55230/mabjournal.v53i3.3047

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Research Articles

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