Morphology and molecular analysis of the Brittle star (Ophiocoma scolopendrina) in the coastal waters of Aceh Besar, Indonesia
Main Article Content
Abstract
Abstract. Mursawal A, Wahyuni S, Cahyani NKD, Sarong MA, Effendi I, Kurniawan R. 2026. Morphology and molecular analysis of the Brittle star (Ophiocoma scolopendrina) in the coastal waters of Aceh Besar, Indonesia. Biodiversitas 27 (5): d270512. https://doi.org/10.13057/biodiv/d270512. Brittle stars (Ophiuroidea) are important benthic organisms that play a key role in ecological processes within coastal and coral reef ecosystems. However, information on the combined morphological and genetic characteristics of brittle star populations in the coastal waters of Aceh Besar, Indonesia, remains limited. This study aimed to examine morphological characteristics and genetic diversity of Ophiocoma scolopendrina from three coastal sites in Aceh Besar using a combined morpho-molecular approach. Specimens were collected from Lhok Mee (LM), Lhok Redeup (LR), and Lhok Seudu (LS) using purposive sampling of intact adult individuals suitable for morphological and molecular analyses. A total of 96 specimens were analyzed. Morphological identification was based on standard diagnostic characters, while molecular analysis targeted partial mitochondrial 16S rRNA gene sequences (~430 bp). Genetic diversity indices, including haplotype diversity (Hd) and nucleotide diversity (π), were calculated, and population structure was assessed using pairwise FST and Analysis of Molecular Variance (AMOVA). Results showed consistent morphological traits across locations with minor variation in coloration. Genetic analysis revealed high haplotype diversity (Hd = 0.867-0.962) and low nucleotide diversity (π = 0.010-0.016). Pairwise FST values were low (0.002-0.016), and AMOVA indicated weak and non-significant genetic differentiation among populations (FST = 0.012; P = 0.088). These findings suggest weak mitochondrial population structuring among sites. However, results should be interpreted cautiously due to the use of a single mitochondrial marker and purposive sampling design. This study provides baseline data on morphology and genetic diversity of O. scolopendrina in Aceh Besar, supporting biodiversity monitoring research in tropical coastal ecosystems.
Article Details
Issue
Section

This work is licensed under a Creative Commons Attribution-NonCommercial-ShareAlike 4.0 International License.
References
Adams NL, Heyland A, Rice LL, Foltz KR. 2019. Procuring animals and culturing of eggs and embryos. Methods Cell Biol 150: 3-46. https://doi.org/10.1016/bs.mcb.2018.11.006.
Alemdag M, Öztürk RÇ, Firidin SI, Altinok I. 2026. Genetic structure, species boundaries, and evidence of hybridization in Turkish brown trout populations. Hydrobiologia 853: 2643-2667. https://doi.org/10.1007/s10750-025-06101-y.
Aziz A. 1991. Some notes on ophiurids as benthic fauna. Oseana 16 (1): 13-22.
Bar S, Vershkov D, Keshet G, Lezmi E, Meller N, Yilmaz A, Yanuka O, Nissim-Rafinia M, Meshorer E, Eldar-Geva T, Benvenisty N. 2021. Identifying regulators of parental imprinting by CRISPR/Cas9 screening in haploid human embryonic stem cells. Nat Commun 12: 6718. https://doi.org/10.1038/s41467-021-26949-7.
Boos K. 2012. Tooth morphology and food processing in Ophiothrix fragilis (Abildgaard, in O.F. Müller, 1789) and Ophiura albida Forbes, 1839 (Echinodermata: Ophiuroidea). Zoosymposia 7: 111-119. https://doi.org/10.11646/zoosymposia.7.1.11.
Cerca J, Rivera-Colón AG, Ferreira MS, Ravinet M, Nowak MD, Catchen JM, Struck TH. 2021. Incomplete lineage sorting and ancient admixture, and speciation without morphological change in ghost-worm cryptic species. PeerJ 9: e10896. https://doi.org/10.7717/peerj.10896.
Chen Z, Chen W, Du H. 2025. Phylogeographic pattern of Sargassum hemiphyllum var. chinense (Phaeophyceae, Ochrophyta) in Chinese coastal waters. Plants 14 (9): 1269. https://doi.org/10.3390/plants14091269.
Cui J, Zhang J, Liu J, Wang Z, Guo Y, Yang J, Wang Z. 2025. Establishment of a COI haplotype baseline and genetic diversity evaluation of Vespa soror (Hymenoptera: Vespidae) in Southern China based on mitochondrial gene sequences. Diversity 17 (11): 756. https://doi.org/10.3390/d17110756.
Czarkwiani A, Ferrario C, Dylus DV, Sugni M, Oliveri P. 2016. Skeletal regeneration in the brittle star Amphiura filiformis. Front Zool 13: 18. https://doi.org/10.1186/s12983-016-0149-x.
Dash SS, Golive P, Parameswaran C, Rath PC, Chatterjee H, Mukherjee AK, Tripathy PS, Nayak AK, Mohapatra S, Behera BK, Das Mohapatra S. 2025. Genetic diversity and population structure of Cnaphalocrocis medinalis across India and South Asia: Insights from COI and ITS2 gene analyses. Curr Res Biotechnol 9: 100281. https://doi.org/10.1016/j.crbiot.2025.100281.
Dauvin J, Méar Y, Murat A, Poizot E, Lozach S, Beryouni K. 2013. Interactions between aggregations and environmental factors explain spatio-temporal patterns of the brittle-star Ophiothrix fragilis in the Eastern Bay of Seine. Estuarine, Coastal and Shelf Science 131: 171-181. http://doi.org/10.1016/j.ecss.2013.07.005.
de Moura Barboza CA, Mattos G, Paiva PC. 2015. Brittle stars from the Saint Peter and Saint Paul Archipelago: Morphological and molecular data. Mar Biodivers Rec 8 (e16): 1-9. https://doi.org/10.1017/S1755267214001511.
Dharmayanti N. 2011. Molecular phylogenetic: Organism taxonomy method based on evolution history. Wartazoa 21: 1-10.
Dylus DV, Czarkwiani A, Blowes LM, Elphick MR, Oliveri P. 2018. Developmental transcriptomics of the brittle star Amphiura filiformis reveals gene regulatory network rewiring in echinoderm larval skeleton evolution. Genome Biol 19: 26. https://doi.org/10.1186/s13059-018-1402-8.
Farhadi A, Vazirzadeh A, Jeffs AG, Lavery SD. 2024. Genetic insights into the population connectivity, biogeography, and management of fisheries-important spiny lobsters (Palinuridae). Rev Fish Sci Aquac 32 (4): 579-611. https://doi.org/10.1080/23308249.2024.2355576.
Fourdrilis S, Mardulyn P, Hardy OJ, Jordaens K, de Frias Martins AM, Backeljau T. 2016. Mitochondrial DNA hyperdiversity and its potential causes in the marine periwinkle Melarhaphe neritoides (Mollusca: Gastropoda). PeerJ 4: e2549. https://doi.org/10.7717/peerj.2549.
Glück M, Geue JC, Thomassen HA. 2022. Environmental differences explain subtle yet detectable genetic structure in a widespread pollinator. BMC Ecol Evol 22: 8. https://doi.org/10.1186/s12862-022-01963-5.
Jose A, Sukumaran S, Roul SK, Azeez PA, Kizhakudan SJ, Raj N, Nisha K, Gopalakrishnan A. 2023. Genetic analyses reveal panmixia in Indian waters and population subdivision across the Indian Ocean and the Indo-Malay Archipelago for Decapterus russelli. Sci Rep 13: 22860. https://doi.org/10.1038/s41598-023-49805-8.
Kaewmungkoon S, Pradit N, Pilap W, Ninlaphay S, Chatiwong T, Saijuntha J, Jaroenchaiwattanachote C, Tawong W, Suksavate W, Pramual P, Tantrawatpan C, Saijuntha W. 2025. Genetic diversity, genetic structure and demographic history of the leaf beetle Platycorynus peregrinus (Herbst, 1783) (Coleoptera: Chrysomelidae) from Thailand. Biology 14 (9): 1266. https://doi.org/10.3390/biology14091266.
Kimura M. 1980. A simple method for estimating evolutionary rates of base substitutions through comparative studies of nucleotide sequences. J Mol Evol 16: 111-120. https://doi.org/10.1007/bf01731581.
Kochanova E, Nair A, Sukhikh N, Väinölä R, Husby A. 2021. Patterns of cryptic diversity and phylogeography in four freshwater copepod crustaceans in European lakes. Diversity 13 (9): 448. https://doi.org/10.3390/d13090448.
Lessios HA, Hendler G. 2022. Mitochondrial phylogeny of the brittle star genus Ophioderma. Sci Rep 12: 5304. https://doi.org/10.1038/s41598-022-08944-0.
Li Y-Q, Huang X-P, Li D, Wu T, Fu X-Y, Zhang Y-N, Huang Q, Wei G-F, Wan L-L, Zhang Q. 2026. Mitochondrial Cyt b reveals low diversity and basin-scale population structure in black carp (Mylopharyngodon piceus) from the Yangtze, Pearl, and Red River Basins. Animals 16 (5): 768. https://doi.org/10.3390/ani16050768.
Mackenzie CL, Kent FEA, Baxter JM, Gormley KSG, Cassidy AJ, Sanderson WG, Porter JS. 2022. Genetic connectivity and diversity of a protected, habitat-forming species: Evidence demonstrating the need for wider environmental protection and integration of the marine protected area network. Front Mar Sci 9: 772259. https://doi.org/10.3389/fmars.2022.772259.
Madduppa HH. 2013. Bioekologi dan Biosistematika Ikan Terumbu. IPB Press, Bogor. [Indonesian]
Melroy LM, Cohen CS. 2021. Temporal and spatial variation in population structure among brooding sea stars in the genus Leptasterias. Ecol Evol 11 (7): 3313-3331. https://doi.org/10.1002/ece3.7283.
Michie C, Lundquist CJ, Lavery SD, Penna AD. 2024. Spatial and temporal variation in the predicted dispersal of marine larvae around coastal Aotearoa, New Zealand. Front Mar Sci 10: 1292081. https://doi.org/10.3389/fmars.2023.1292081.
Nugroho W, Ruswahyuni R, Suryanti S. 2014. Kelimpahan bintang mengular (Ophiuroidea) di perairan Pantai Sundak dan Pantai Kukup, Kabupaten Gunungkidul, Yogyakarta. J Management of Aquatic Resources 3 (4): 51-57. [Indonesian]
Nurdiansah D, Supono. 2017. Diversity of brittle stars (Ophiuroidea) in Talise Waters, North Sulawesi. J Ilmu Teknologi Kelautan Tropis 9 (2): 709-716. https://doi.org/10.29244/jitkt.v9i2.19303.
O’Hara T, Hugall A, Thuy B, Stöhr S, Martynov AV. 2017. Restructuring higher taxonomy using broad-scale phylogenomics: The living Ophiuroidea. Molecular Phylogenetics and Evolution 107: 415-430. http://doi.org/10.1016/j.ympev.2016.12.006.
Otwoma LM, Kochzius M. 2016. Genetic population structure of the coral reef sea star Linckia laevigata in the Western Indian Ocean and Indo-West Pacific. PLoS One 11 (10): e0165552. https://doi.org/10.1371/journal.pone.0165552.
Pechenik JA. 2005. Biology of the Invertebrates. McGraw-Hill Higher Education, Boston.
Pomory CM. 2007. Key to the common shallow-water brittle stars (Echinodermata: Ophiuroidea) of the Gulf of Mexico and Caribbean Sea. Caribb J Sci Spec Publ 10: 1-42.
Quintero-Galvis JF, Bruning P, Paleo-López R, Gómez D, Sánchez R, Cárdenas L. 2020. Temporal variation in the genetic diversity of a marine invertebrate with a long larval phase, the muricid gastropod Concholepas concholepas. J Exp Mar Biol Ecol 530-531: 151432. https://doi.org/10.1016/j.jembe.2020.151432.
Raj N, Sukumaran S, Jose A, Nisha K, Roul SK, Rahangdale S, Kizhakudan SJ, Gopalakrishnan A. 2024. Population genetic structure of randall's threadfin bream, Nemipterus randalli, in Indian waters based on mitochondrial and nuclear gene sequences. Sci Rep 14: 7556. https://doi.org/10.1038/s41598-024-58047-1.
Robalo JI, Francisco SM, Vendrell C, Lima CS, Pereira A, Brunner BP, Dia M, Gordo L, Castilho R. 2020. Against all odds: A tale of marine range expansion with maintenance of extremely high genetic diversity. Sci Rep 10: 12707. https://doi.org/10.1038/s41598-020-69374-4.
Rostikawati RT, Susanto LH, Ichsan IZ, Marhento G. 2023. Development of biology learning media based on echinoderm diversity for supporting environmental sustainability. J Penelitian Pendidikan IPA 9 (3): 1217-1225. https://doi.org/10.29303/jppipa.v9i3.3098.
Sanger F, Nicklen S, Coulson AR. 1977. DNA sequencing with chain-terminating inhibitors. Proc Natl Acad Sci USA 74 (12): 5463-5467. https://doi.org/10.1073/pnas.74.12.5463.
Sarong MA, Saputrie M, Maslim. 2014. Wajah Pesisir Aceh. Pena, Banda Aceh. [Indonesian]
Sobczyk R, Presler P, Czortek P, Serigstad B, Pabis K. 2023. Diversity, distribution patterns, and indicatory potential of echinoderm communities of the tropical East Atlantic (Gulf of Guinea): Influence of multiple natural and anthropogenic factors along a 25-1000 m depth gradient. Ecol Indic 156: 111108. https://doi.org/10.1016/j.ecolind.2023.111108.
Sun C-H, Yang F, Huang Q, Zeng X-S, Zhang Y-N, Li S, Yu J-F, Zhang Q. 2022. Genetic population structure and demographic history of the endemic fish Paralichthys olivaceus of the Northwest Pacific Ocean. Ecol Evol 12 (11): e9506. https://doi.org/10.1002/ece3.9506.
Supono. 2018. Difficulties in the identification of deep-sea Ophiuroidea post-larvae from Makassar Strait, Indonesia, and their implication for taxonomic studies. Oseanologi dan Limnologi di Indonesia 3 (1): 11-18. https://doi.org/10.14203/oldi.2018.v3i1.127.
Tamura K, Stecher G, Peterson D, Filipski A, Kumar S. 2013. MEGA6: Molecular Evolutionary Genetics Analysis Version 6.0. Mol Biol Evol 30 (12): 2725-2729. https://doi.org/10.1093/molbev/mst197.
Waheed Z, Bos AR, Kochzius M, Hoeksema BW. 2023. Genetic population structure of the blue sea star (Linckia laevigata) and the boring giant clam (Tridacna crocea) across Malaysia. Hydrobiologia 850: 81-95. https://doi.org/10.1007/s10750-022-05044-y.
Wakita D, Kagaya K, Aonuma H. 2020. A general model of locomotion of brittle stars with a variable number of arms. J R Soc Interface 17 (162): 20190374. https://doi.org/10.1098/rsif.2019.0374.
Ward RD, Holmes BH, O’Hara TD. 2008. DNA barcoding discriminates echinoderm species. Mol Ecol Resour 8 (6): 1202-1211. https://doi.org/10.1111/j.1755-0998.2008.02332.x.
Wilkie IC. 2016. Functional morphology of the arm spine joint and adjacent structures of the brittle star Ophiocomina nigra (Echinodermata: Ophiuroidea). PLoS One 11 (12): e0167533. https://doi.org/10.1371/journal.pone.0167533.
Wu H, Qi S, Fan S, Li H, Zhang Y, Zhang Y, Xu Q, Chen G. 2024. Analysis of the mitochondrial COI gene and genetic diversity of endangered goose breeds. Genes 15 (8): 1037. https://doi.org/10.3390/genes15081037.