Genetic Variation of Baram River Frog,  Pulchrana baramica  (Boettger, 1900), In Java, Sumatra, and Kalimantan based on  16S  Mitochondrial Gene

Luthfi Fauzi; Tuty Arisuryanti; Katon Waskito Aji; Awal Riyanto; Eric N. Smith; Amir Hamidy

doi:10.22146/jtbb.84814

Genetic Variation of Baram River Frog, Pulchrana baramica (Boettger, 1900), In Java, Sumatra, and Kalimantan based on 16S Mitochondrial Gene

https://doi.org/10.22146/jtbb.84814

Luthfi Fauzi⁽¹⁾, Tuty Arisuryanti^(2*), Katon Waskito Aji⁽³⁾, Awal Riyanto⁽⁴⁾, Eric N. Smith⁽⁵⁾, Amir Hamidy⁽⁶⁾

(1) Laboratory of Genetics and Breeding, Faculty of Biology, Universitas Gadjah Mada, Jl.Teknika Selatan, Sekip Utara, Yogyakarta 55281, Indonesia
(2) Laboratory of Genetics and Breeding, Faculty of Biology, Universitas Gadjah Mada, Jl.Teknika Selatan, Sekip Utara, Yogyakarta 55281, Indonesia SCOPUS ID: 57190940210
(3) Laboratory of Genetics and Breeding, Faculty of Biology, Universitas Gadjah Mada, Jl.Teknika Selatan, Sekip Utara, Yogyakarta 55281, Indonesia
(4) Laboratory of Herpetology, Museum Zoologicum Bogoriense, Research Centre for Biosystematics and Evolution, National Research and Innovation Agency (BRIN), Gd. Widyasatwaloka, Jl. Raya Jakarta-Bogor Km 46, Cibinong, West Java, Indonesia
(5) The Amphibian and Reptile Diversity Research Centre and Department of Biology; University of Texas at Arlington; 501 S. Nedderman Drive; Arlington, TX 76010; 775-351-5277, USA
(6) Laboratory of Herpetology, Museum Zoologicum Bogoriense, Research Centre for Biosystematics and Evolution, National Research and Innovation Agency (BRIN), Gd. Widyasatwaloka, Jl. Raya Jakarta-Bogor Km 46, Cibinong, West Java, Indonesia
(*) Corresponding Author

Abstract

Baram River Frog (Pulchrana baramica) is a ranid species distributed in the Malay Peninsula, Borneo, Sumatra and represents the sole species from the genus Pulchrana on Java Island. Cryptic species are commonly encountered within the amphibian group which can cause confusion in the identification process. Due to the broad distribution range of P. baramica and the frequent occurrence of cryptic species within the amphibian group, it is important to evaluate the taxonomic status of P. baramica. Therefore, we investigated the taxonomic position of P. baramica from three populations (Kalimantan, Sumatra, and Java) and identified the interpopulation genetic variation based on molecular data of the 16S mitochondrial gene. We reconstructed phylogenetic relationships using Neighbour Joining, Maximum Likelihood, and Bayesian Inference. The research results revealed that Pulchrana baramica is a monophyletic group and nested within a group together with P. glandulosa and P. laterimaculata. The monophyletic group of P. baramica consisted of four distinct lineages that molecularly showed interspecific genetic variation. Clade 1 represents the population of Sumatra and Borneo (Kalimantan), clade 2 comprises the population from Borneo (Sarawak), clade 3 consists of population from Java, and clade 4 represents the population from Sumatra. Further research is required with the addition of morphological and acoustic data as supportive evidence to obtain more extensive comprehension of species identification.

Keywords

Distinct lineages; Genetic variation; Pulchrana baramica; 16S rrna

Full Text:

PDF

References

Chan, K.O. et al., 2014. A New Species of Frog (Amphibia: Anura: Ranidae) of the Hylarana signata Complex from Peninsular Malaysia. Herpetologica, 70(2), pp.228–240. Doi: 10.1655/HERPETOLOGICA-D-13-00057

Herlambang, A.E. et al., 2022. After 16 years: an update checklist of herpetofauna on the Natuna Islands, Indonesia. Treubia, 49(2), pp.67-84. Doi: 10.14203/treubia.v49i2.4379

Chowdhury, M. et al., 2021. Molecular characterization of Copy’s Frog Hydrophylax leptoglossa based on 16s rrna gene. Bangladesh Journal of Zoology, 49(1), pp.105–115. Doi: 10.3329/bjz.v49i1.53686

Darriba, D. et al., 2012. Jmodeltest 2: more models, new heuristics and parallel computing. Nature Methods, 9(8), 772. Doi: 10.1038/nmeth.2109.

Das, I. et al., 2007. Species diversity, elevational distribution and reproductive models in an amphibian community at the Matang Range, Sarawak (Borneo). Mitteilungen aus dem Hamburgischen Zoologischen Museum und Institut, 158, pp.141–174.

Fouquet, A. et al., 2007. Underestimation of Species Richness in Neotropical Frogs Revealed by mtdna Analyses. Plos ONE, 2(10), e1109. doi: 10.1371/journal.pone.0001109

Frost, D.R. 2021. Amphibian Species of the World: an Online Reference. Version 6.0 (May, 22nd 2023). Electronic Database accessible at http://research.amnh.org/herpetology/amphibia/index.html. New York: American Museum of Natural History.

Hamidy, A. et al., 2011. Morphological and genetic discordance in two species of Bornean Leptobrachium (Amphibia, Anura, Megophryidae). Molecular Phylogenetics and Evolution, 61, pp.904–913. doi: 10.1016/j.ympev.2011.08.020

Hamidy, A. et al., 2012. Detection of cryptic taxa in Leptobrachium nigrops (Amphibia, Anura, Megophryidae) with description of two new species, Zootaxa, 3398, pp.22–39.

Hebert, P.D., Ratnasingham, S. & Ward, J.R., 2003. Barcoding Animal Life: Cytochrome C Oxidase Subunit 1 Divergences among Closely Related Species. Proceedings of The Royal Society, 270, pp.96-99. doi: 10.1098/rsbl.2003.0025

Hedges, S.B., Nussbaum, R.A. & Maxson, L.R., 1993. Caecilian phylogeny and biogeography inferred from mitochondrial DNA sequences of the 12S rrna and 16S rrna genes (Amphibia: Gymnophiona). Herpetological Monographs, 7, pp.64-76. doi: 10.2307/1466952

Inger, R.F., 1966. The Systematics and Zoogeography of the Amphibia of Kalimantan. Field Museum of Natural History, 52, pp.160-187.

Iskandar, D.T., 1998. Amfibi Jawa dan Bali: Seri Panduan Lapangan. Cetakan pertama. Bogor: Puslitbang Biologi–LIPI.

Kumar, S. et al., 2018. MEGA X: Molecular Evolutionary Genetics Analysis across Computing Platforms. Molecular Biology and Evolution, 35(6), pp.1547–1549. doi: 10.1093/molbev/msy096.

Leong, T.M. & Lim, B.L., 2003. A new species of Rana (Amphibia: Anura: Ranidae) from the highlands of the Malay Peninsula, with diagnostic larval descriptions. Rafﬂes Bulletin of Zoology, 51, pp.115–122. Doi: 10.5281/zenodo.13229211

Maddison, W.P. & Maddison, D.R., 2021. Mesquite: a modular system for evolutionary analysis. Ver 3.31. http://mesquiteproject.org.

Munir, M. et al., 2018. A New Megophrys Kuhl and Van Hasselt (Amphibia: Megophryidae) from southwestern Sumatra, Indonesia. Zootaxa, 4442 (3), 389-412.

Munir, M. et al., 2021. Two new species of Megophrys Kuhl and Van Hasselt (Amphibia: Megophryidae) from Sumatra, Indonesia. Zootaxa, 5057 (4), 503-529

Suchard, M.A. et al., 2018. Bayesian phylogenetic and phylodynamic data integration using BEAST 1.10. Virus Evolution, 4(1), vey016. Doi: 10.1093/ve/vey016.

Van Kampen, P.N., 1923. The Amphibia of the Indo–Australian Archipelago. Leiden: E. Brill Ltd.

DOI: https://doi.org/10.22146/jtbb.84814