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Investigating the Diversity of Sea Urchins (Echinoidea) in Yogyakarta, Indonesia using Molecular Approaches, Abundance, and Ecological Index Cover

Investigating the Diversity of Sea Urchins (Echinoidea) in Yogyakarta, Indonesia using Molecular Approaches, Abundance, and Ecological Index

Open Access
|Sep 2025

References

  1. Angellia, V., Nugrahapraja, H. (2023): Study of the sea urchins (Echinoidea) influence on the coral reef communities in the Nusa Dua Bali conservation area. Environmental and Materials, 1(1). https://doi.org/10.61511/eam.v1i1.2023.63
  2. Archana, A., Babu K.R. (2016): Nutrient composition and antioxidant activity of gonads of sea urchins Stomopneustes variolaris. Food Chemistry, 197, 597-602. http://dx.doi.org/10.1016/j.foodchem.2015.11.003
  3. Arthaz, C.P., Suryanti, Ruswahyuni. (2015): Hubungan kelimpahan bulu babi (sea urchin) dengan bahan organik substrat dasar perairan di Pantai Krakal, Yogyakarta. Diponegoro Journal of Maquares, 4(3), 148-155. https://doi.org/10.14710/marj.v4i3.9332
  4. Bahri, S., Patech, L.R., Zulhalifah, Z., Septiani, D.A., Siswadi, S. (2021): Distribution and Diversity of Echinoderms in the Coastal Waters of South Beach of Lombok Island. Jurnal Biologi Tropis, 21(1): 22–31. https://doi.org/10.29303/jbt.v21i1.2320
  5. Beddingfield, S.D., McClintock J.B. (2000): Demographic characteristics of Lytechinus variegatus (Echinoidea: Echinodermata) from three habitats in a North Florida Bay, Gulf of Mexico. Marine Ecology, 21(17), 40. https://doi.org/10.1046/j.1439-0485.2000.00688.x
  6. Bernal-Ibáñez A., Cacabelos E., Melo R., Gestoso I. (2021): The Role of Sea-Urchins in Marine Forests from Azores, Webbnesia, and Cabo Verde: Human Pressures, Climate-Change Effects and Restoration Opportunities. Frontiers in Marine Sciences, 8, 649873. https://doi.org/10.3389/fmars.2021.649873
  7. Boudouresque, C.F., Verlaque M. (2020): Paracentrotus lividus, in: Lawrence JM (ed) Sea urchins: Biology and Ecology. Developments in Aquaculture and Fisheries Science. Elsevier, pp. 447-485. https://doi.org/10.1016/S0167-9309(01)80013-2
  8. Brower, J.E., Zar, J.H., Von, C.E. (1990): Ekologi Umum, Metode lapangan dan Laboratorium. Browen Company Publisher, Dubuque, Lowa.
  9. Brusca, R.C., Moore, W., Shuster, S.M. (2016): Invertebrates. Third. Sunderland, Massachusetts, USA: Sinauer Associates, Inc, 1104
  10. Clark, A.M. Rowe, F.W.E. (1971): Monograph of shallow-water Indo West Pasific Echinoderms. Trustees of the British Museum (Natural History). London.
  11. Clemente, S., Hernández, J.C. (2008): Influence of wave exposure and habitat complexity in determining spatial variation of the sea urchin Diadema aff. antillarum (Echinoidea: Diadematidae) pop ulations and macroalgal cover (Canary Islands–Eastern Atlantic Ocean). Rev Biol Trop, 56, 229–254.
  12. Coppard, S. E, and A. C. Campbell. (2005): Distribution and Abudance of Regular Sea Urchins on two coral reefs in Fiji. Micronesica. 37(2), 229 – 269.
  13. Cordeiro, C.A.M.M., Harbone A.R., Ferreira, C.E.L. (2014): Patterns of distribution and composition of sea urchin assemblages on Brazilian subtropical rocky reefs. Marine Biology, 161, 2221-2232. https://doi.org/10.1007/s00227-014-2500-0
  14. Cox, G.W. (1972): Laboratory Manual of General. Wm C. Brown Co.Pub, Iowa.
  15. Crespi-Abril, A.C., Rubilar, T. (2023): Ethical considerations for Echinoderm: New Initiatives in Welfare. Animals, 13 (21), 3377. https://doi.org/10.3390/ani13213377
  16. Edgar, R.C. (2004): MUSCLE: Multiple Sequence Alignment With High Accuracy and High Throughput. Nucleic Acid Research, 32 (5), 1792-1792. https://doi.org/10.1093/nar/gkh340.
  17. Elmasry E., Abdelrazek, A.A., El-Sayed, A.F.M. (2023): Growth pattern and population status of the sea urchin Paracentrotus lividus (Lamarck, 1816) on the Mediterranean coast of Egypt, The Egyptian Journal of Aquatic Research, 49 (3), 409-416. https://doi.org/10.1016/j.ejar.2023.07.001
  18. Gobala Krishnan, M., Radhika Rajasree, S.R., Karthih, M.G., Aranganathan, L. (2020): Spawning and larval rearing of red sea urchin Salmacis bicolor (L. Agassiz and Desor, 1846; Echinodermata: Echinoidea). Iranian Journal of Fisheries Sciences, 19 (6), 3098-3011. https://doi.org/10.22092/ijfs.2020.122939
  19. Goh, B. P. L., Lim, D.Y.F. (2015): Distribution and abudance of sea urchins in Singapore reefs and their potential ecological impacts on macroalgae and coral communities. Ocean Science, 50 (2), 211-219. https://doi.org/10.1007/s12601-015-0018-0
  20. Hardianto, E., Satriyo T.B. (2023): Molecular phylogenetic analysis of commercially important Asian monsoon scallop, Amusium Pleuronectes (Linnaeus 1758) from Indonesia. Jurnal Kelautan Tropis, 26 (3), 442-450. https://doi.org/10.14710/jkt.v26i3.18049
  21. Haurissa, J., Luthfi, L., Toha., A.H.A. (2021): Struktur komunitas bulu babi (Echinoidea) di zona intertidal perairan Monokrawi. Jurnal Kelautan, 14 (2), 132-142. https://doi.org/10.21107/JK.V14I2.10834
  22. Hereu, B., Zabala, M., Linares, C., Sala, E. (2004): Temporal and spatial variability in settlement of the sea urchin Paracentrotus lividus in the NW Mediterranean. Marine Biology, 144, 1011–1018. https://doi.org/10.1007/s00227-003-1266-6
  23. Hermosillo-Núñez, B.B. (2020): Contribution of echinoderms to keystone species complexes and macroscopic properties in kelp forest ecosystems (northern Chile). Hydrobiologia, 847, 739-756. https://doi.org/10.1007/s10750-019-04134-8.
  24. Jeon, B.H., Yang, K.M., Kim J.H. (2015): Changes in macroalgal assemblage with sea urchin density on the east coast of South Korea. Algae, 30 (2), 139-146. https://doi.org/10.4490/algae.2015.30.2.139
  25. Kumar, S., Stecher, G., Tamura, K. (2016) : MEGA7: Molecular Evolutionary Genetic Analysis Version 7.0 for Bigger Datasets. Molecular Biology Evolution, 33 (7), 1870 – 1874. https://doi.org/10.1093/molbev/msw054
  26. Kurniati, E., Munisa, A., Arsal, A.F. (2023): Diversity of sea urchins on the Samboang beach, Bulukumba district. Journal Bionature, 24 (2), 263-272. https://doi.org/10.35580/bionature.v24i2.52523
  27. Latuconsina, H. (2021): Ekologi Ikan Perairan Tropis Biodiversitas, Adaptasi, Ancaman, dan Pengelolaannya. Gadjah Mada University Press, Yogyakarta.
  28. McClanahan T. R, N.A. Muthiga. (2020): Chapter 28: Echinometra. In: Lawrence JM (ed) Sea Urchins: Biology and Ecology. Vol. 43. Elsevier, pp 497-517.
  29. Moreno-García, D.M., Salas-Rojas, M., Fernández-Martínez, E., López-Cuellar, Md, R., Sosa-Gutierrez, C.G., Peláez-Acero, A., Rivero-Perez, N., Zaragoza-Bastida, A., Ojeda-Ramírez, D. 2022. Sea urchins: an update on their pharmacological properties. PeerJ, 10:e13606. DOI 10.7717/peerj.13606
  30. Moura, A.J., Garner, A.M., Narvaez, C.A., Cucchiara, J.P., Atrak, A.Y., Russel, M.P. (2023): Hyposalinity reduces coordination and adhesion of sea urchin tube feet. Journal of Experimental Biology, 226 (13), jeb245750. https://doi.org/10.1242/jeb.245750
  31. Nomleni, A., Widodo, M.S., Kilawati, Y., Valen, F.S. (2020): Cotemporary records of sea urchin Tripneustes gratilla (Echinodermata: Echinoidea) in Timor Island, Indonesia. AACL Bioflux, 13 (4), 1899-1905. http://www.bioflux.com.ro/aacl
  32. Novinta, H, Adharini, R.I. (2022): Struktur Komunitas dan Asosiasi Gastropoda pada Ekosistem Lamun di Pulau Harapan, Kepulauan Seribu. Jurnal Kelautan Nasional, 17 (3), 175-188. dx.doi.org/10.15578/jkn.v17i3.9766
  33. Nurcahyo, F. D., H. M. Zen, H. P. N. Azizah, G. D. Nugroho, D. Ramdhun, C. K. Yap, M. Indrawan, A. D. Setyawan (2024): The community structure of Echinodermata (Echinoidea and Holothuroidea) on seagrass ecosystem in Gunungkidul, Yogyakarta, Indonesia. Biodiversitas Journal of Biological Diversity, 25 (11), 4561 – 4571. DOI: https://doi.org/10.13057/biodiv/d251155
  34. Odum, E. P. (1983): Basic Ecology. Sunders College Publishing, USA.
  35. Odum, E. P. (1993): Dasa-Dasar Ekologi. Gadjah Mada University Press, Yogyakarta.
  36. Putri, A.E.M., Sunaryo, Endrawati, H. (2019): Perbandingan jenis dan jumlah echinodermata di perairan Pantai Krakal Gunungkidul Yogyakarta dan Pantai Pailus Jepara, Jawa Tengah. Journal of Marine Research, 8 (2), 127-140. https://doi.org/10.14710/jmr.v8i2.25090
  37. Rahim, S.A.K.A., Nurhasan, R. (2016): Status of Sea Urchin Resources in the East Coast of Borneo. Journal of Marine Biology, 393902, 8p. http://dx.doi.org/10.1155/2016/6393902
  38. Sabilu, Y., Jafriati, Zainudin, A. (2022): Testing the Toxicity, Protein Content, and Anticholesterol of the Ethanol Extract of the Sea Urchin (Diadema setosum) Gonad as Marine Biodiversity-Based Medicinal Ingredients. Journal of Hunan University Natural Sciences, 49 (9), 1-6. https://doi.org/10.55463/issn.1674-2974.49.9.20
  39. Saraswati, M.T., Adharini, R.I., Hardianto, E. (2024): The diversity of Sargassum spp. from the south coast of Yogyakarta, Indonesia, based on morphological characters and DNA Barcoding ITS2 nrDNA. Biodiversitas, 25 (8), 2733-2739. DOI: 10.13057/biodiv/d250846
  40. Stefansson, G., Kristinsson, H., Ziemer, N., Hannon, C., James, P. (2017): Markets for sea urchins: a review of global supply and markets. Skyrsla Matis, 45, 10-17. DOI: 10.13140/RG.2.2.12657.99683
  41. Suarez, J.D.U., Wong, J.C.Y., Dumont, C.P., Qiu, J.W. (2021): High density and secondary production but variable recruitment of a sea urchin in subtidal barren areas of Hong Kong. Regional Studies in Marine Science, 48, 102027. https://doi.org/10.1016/j.rsma.2021.102027.
  42. Suryanti, S., P. N. P. N. Fatimah, dan S. Rudiyanti (2020): Morfologi, anatomi, dan indeks bulu babi di Pantai Sepanjang, Kabupaten Gunungkidul, Yogyakarta. Buletin Oseanografi Marina, 9 (2), 93-103. https://doi.org/10.14710/buloma.v9i2.31740
  43. Susanti, F., Adharini, R.I., Rahmi, K.A., Sari, D.W.K., Kandasamy, G. (2022): Identification of Gracilaria spp. in Gunungkidul Regency, Yogyakarta Indonesia based on DNA Barcoding target Cytochrome Oxidase Subunit 1. ILMU KELAUTAN: Indonesian Journal of Marine Sciences, 27 (3), 189-198. doi:10.14710/ik.ijms.27.3.189-198.
  44. Susanti, F., Adharini, R.I., Sari, D.W.K., Setyobudi, E. (2023): Genetic diversity of Gracilaria spp. in the intertidal zone on the South Coast of Yogyakarta, Indonesia based on DNA Barcoding with rbcL marker. Hayati Journal of Biosciences, 30 (5), 907-917. DOI:10.4308/hjb.30.5.907-917
  45. Toha, A.H.A., Sumitro, S.B., Hakim, L., Widodo, W. (2012): Kondisi habitat bulu babi Tripneustes gratilla (Linnaeus, 1758) di Teluk Cendrawasih. Journal of Biological Researches, 17 (2), 139–145. https://doi.org/10.23869/205
  46. Toha, A.H.A., Sumitro, S.B., Widodo, W., Hakim, L. (2015): Color diversity and distribution of sea urchin Tripneustes gratilla in Cenderawasih Bay ecoregion of Papua, Indonesia. Egyptian Journal of Aquatic Research, 41 (3), 273-278. https://doi.org/10.1016/j.ejar.2015.05.001
  47. Triatmojo, A., Ario, R., Widianingsih (2018): Kelimpahan echinodermata pada zona intertidal di Pantai Krakal dan Pantai Kukup, Gunungkidul Yogyakarta. Journal of Marine Research, 7 (4), 263-272. https://doi.org/10.14710/jmr.v7i4.25925
  48. Wangensteen, O.S., Palacin, C., Guardiola, M., Turon, X. (2018): DNA metabarcoding of littoral hard-bottom communities: high diversity and database gaps revealed by two molecular markers. PeerJ, 6:e4705. DOI: 10.7717/peerj.4705
  49. Ward, D.R., Holmes, B.H., Ohara, T.D. (2008): DNA barcoding discriminates echinoderm species. Molecular Ecology Resources, 8 (6), 1202-1211. DOI: https://doi.org/10.1111/j.1755-0998.2008.02332.x
  50. Westlake, E.L., Cindy, B., Fisher, R., Thomson, D.P., Haywood, M.D.E. (2021): Enviromental factors and predator abudance predict the distribution and occurrence of two sympatric urchin species at Ningaloo Reed, Western Australia. Marine and Freshwater Research, 72, 1711–1721. DOI: 10.1071/mf21091
  51. Yiu, S.K.F., Chung, S.S.W. (2024): Spatial distribution and habitat relationship of sea urchin assemblages (Echinodermata: Echinoidea) in Hongkong water. Continental Shelf Research, 273, 1-9. DOI: https://doi.org/10.1016/j.csr.2023.105170
DOI: https://doi.org/10.2478/cjf-2025-0012 | Journal eISSN: 1848-0586 | Journal ISSN: 1330-061X
Language: English
Page range: 109 - 120
Submitted on: Jan 15, 2025
Accepted on: Apr 9, 2025
Published on: Sep 4, 2025
Published by: University of Zagreb, Faculty of Agriculture
In partnership with: Paradigm Publishing Services
Publication frequency: 4 issues per year

© 2025 Putri Ayu Hia, Ratih Ida Adharini, Eko Setyobudi, Eko Hardianto, published by University of Zagreb, Faculty of Agriculture
This work is licensed under the Creative Commons Attribution-NonCommercial-NoDerivatives 3.0 License.