Hew, Yan Xin and Ya'cob, Zubaidah and Adler, Peter H. and Chen, Chee Dhang and Lau, Koon Weng and Sofian-Azirun, Mohd and Muhammad-Rasul, Abdullah Halim and Putt, Qi Yan and Izwan-Anas, Noor and Hadi, Upik Kesumawati and Suana, I. Wayan and Takaoka, Hiroyuki and Low, Van Lun (2023) DNA barcoding of black flies (Diptera: Simuliidae) in Indonesia. Parasites & Vectors, 16 (1). ISSN 1756-3305, DOI https://doi.org/10.1186/s13071-023-05875-1.
Full text not available from this repository.Abstract
Background DNA barcoding is a valuable taxonomic tool for rapid and accurate species identification and cryptic species discovery in black flies. Indonesia has 143 nominal species of black flies, but information on their biological aspects, including vectorial capacity and biting habits, remains underreported, in part because of identification problems. The current study represents the first comprehensive DNA barcoding of Indonesian black flies using mitochondrial cytochrome c oxidase subunit I (COI) gene sequences. Methods Genomic DNA of Indonesian black fly samples were extracted and sequenced, producing 86 COI sequences in total. Two hundred four COI sequences, including 118 GenBank sequences, were analysed. Maximum likelihood (ML) and Bayesian inference (BI) trees were constructed and species delimitation analyses, including ASAP, GMYC and single PTP, were performed to determine whether the species of Indonesian black flies could be delineated. Intra- and interspecific genetic distances were also calculated and the efficacy of COI sequences for species identification was tested. Results The DNA barcodes successfully distinguished most morphologically distinct species (> 80% of sampled taxa). Nonetheless, high maximum intraspecific distances (3.32-13.94%) in 11 species suggested cryptic diversity. Notably, populations of the common taxa Simulium (Gomphostilbia) cheongi, S. (Gomphostilbia) sheilae, S. (Nevermannia) feuerborni and S. (Simulium) tani in the islands of Indonesia were genetically distinct from those on the Southeast Asian mainland (Malaysia and Thailand). Integrated morphological, cytogenetic and nuclear DNA studies are warranted to clarify the taxonomic status of these more complex taxa. Conclusions The findings showed that COI barcoding is a promising taxonomic tool for Indonesian black flies. The DNA barcodes will aid in correct identification and genetic study of Indonesian black flies, which will be helpful in the control and management of potential vector species.
| Item Type: | Article |
|---|---|
| Funders: | Ministry of Higher Education, Malaysia under the Higher Institution Centre of Excellence (HICoE) niche area vector and vector-borne diseases [Grant no. MO002-2019], Program Dana Langganan Sukuk Pakej Rangsangan Ekonomi Prihatin Rakyat [Grant no. MO002-2021], Ministry of Environment, Government of Japan under GBIF Biodiversity Information Fund for Asia (BIFA) program [Grant no. BIFA6_017], United States Department of Agriculture (USDA) [Grant no. SC-1700596] |
| Uncontrolled Keywords: | Simulium; Indonesia; COI; Phylogenetic |
| Subjects: | Q Science > QH Natural history > QH301 Biology |
| Divisions: | Faculty of Science > Institute of Biological Sciences Institute of Advanced Studies Deputy Vice Chancellor (Research & Innovation) Office > Tropical Infectious Diseases Research and Education Centre |
| Depositing User: | Ms. Juhaida Abd Rahim |
| Date Deposited: | 31 Oct 2025 01:39 |
| Last Modified: | 31 Oct 2025 01:39 |
| URI: | http://eprints.um.edu.my/id/eprint/48691 |
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