Genetic Relationship and the Putative Occurrence of A Species Complex Within the Indonesian Calotes (Daudin, 1802) (Squamata, Agamidae) Genus Based on COI Gene Sequences

Q3 Agricultural and Biological Sciences
Muhammad Indra Maulana, S. Pakpahan, Andy Darmawan, Yanti Ariyanti
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Abstract

The Calotes genus presents a challenge due to the complexity of its species. However, research on the cryptic species complex within the Indonesian Calotes genus is still lacking. This study aims to determine the extent of genetic relationships and assess the potential existence of a species complex within the Indonesian genus Calotes (Daudin, 1802) (Squamata, Agamidae) using the partial Cytochrome c Oxidase Subunit 1 (COI) gene sequence as a molecular marker. Samples of the Indonesian Calotes genus in this study were collected from South Lampung (Lampung), Bogor (West Java), and Langkat (North Sumatra). By aligning 582 bp sequence similarities with reference sequences in GenBank, we confirmed that seven out of eight samples analyzed belonged to Calotes vultuosus, while one sample was identified as Calotes versicolor. The identity values ranged from 96 to 100%. The C. vultuosus samples in this study displayed lower genetic distances, ranging from 0 to 3%, with the reference C. vultuosus sequence from Indonesia compared to the reference sequence from India, which ranged from 6 to 9%. Phylogenetic tree reconstruction, utilizing both maximum likelihood with IQ-Tree and Bayesian Inference with BEAST methods, further supports these findings. It reveals distinct groupings between C. vultuosus samples from Indonesia and India. These results suggest the potential occurrence of a species complex within the Indonesian genus Calotes. Furthermore, the inclusion of eight COI gene sequences from two Calotes species in the GenBank database has the potential to confirm the existence of previously undocumented species in Indonesia.
基于 COI 基因序列的印度尼西亚 Calotes(Daudin,1802 年)(有鳞目,蟾蜍科)属内部的遗传关系和一个物种复合体的存在可能性
Calotes 属因其物种的复杂性而成为一项挑战。然而,印尼菖蒲属中的隐性物种群研究仍然缺乏。本研究旨在利用部分细胞色素 c 氧化酶亚基 1(COI)基因序列作为分子标记,确定印尼 Calotes 属(Daudin,1802 年)(有鳞目,蟾蜍科)的遗传关系范围,并评估该属可能存在的物种复合体。本研究中的印尼菖蒲属样本采集自南楠榜(楠榜)、茂物(西爪哇)和兰卡(北苏门答腊)。通过与 GenBank 中的参考序列进行 582 bp 序列相似性比对,我们确认分析的 8 个样本中有 7 个属于 Calotes vultuosus,1 个样本被鉴定为 Calotes versicolor。同一性值从 96%到 100%不等。与来自印度的 C. vultuosus 参考序列相比,本研究中的 C. vultuosus 样本与来自印度尼西亚的 C. vultuosus 参考序列的遗传距离较低,从 0% 到 3% 不等,而来自印度的 C. vultuosus 参考序列的遗传距离则从 6% 到 9% 不等。利用最大似然法(IQ-Tree)和贝叶斯推理法(BEAST)重建的系统发生树进一步证实了这些发现。它揭示了来自印度尼西亚和印度的 C. vultuosus 样本之间不同的分组。这些结果表明,在印度尼西亚的 Calotes 属中可能存在一个物种复合体。此外,GenBank 数据库中包含了来自两个 Calotes 物种的八个 COI 基因序列,这有可能证实印度尼西亚存在以前未记录的物种。
本文章由计算机程序翻译,如有差异,请以英文原文为准。
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来源期刊
HAYATI Journal of Biosciences
HAYATI Journal of Biosciences Agricultural and Biological Sciences-Agricultural and Biological Sciences (all)
CiteScore
1.10
自引率
0.00%
发文量
75
审稿时长
24 weeks
期刊介绍: HAYATI Journal of Biosciences (HAYATI J Biosci) is an international peer-reviewed and open access journal that publishes significant and important research from all area of biosciences fields such as biodiversity, biosystematics, ecology, physiology, behavior, genetics and biotechnology. All life forms, ranging from microbes, fungi, plants, animals, and human, including virus, are covered by HAYATI J Biosci. HAYATI J Biosci published by Department of Biology, Bogor Agricultural University, Indonesia and the Indonesian Society for Biology. We accept submission from all over the world. Our Editorial Board members are prominent and active international researchers in biosciences fields who ensure efficient, fair, and constructive peer-review process. All accepted articles will be published on payment of an article-processing charge, and will be freely available to all readers with worldwide visibility and coverage.
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