Short Communication: Intraspecific genetic diversity and population subdivision of rabbitfish (Siganidae: Siganus canaliculatus) in urbanized reefs of Jakarta Bay, Indonesia
##plugins.themes.bootstrap3.article.sidebar##
Issue
Section
Articles
##plugins.themes.bootstrap3.article.main##
Abstract
Abstract. Madduppa H, Margaretha MK, Bramandito A, Prartono T, Subhan B, Arafat D, Anggraini NP. 2019. Short Communication: Intraspecific genetic diversity and population subdivision of rabbitfish (Siganidae: Siganus canaliculatus) in urbanized reefs of Jakarta Bay, Indonesia. Biodiversitas 20: xxxx. Indonesian coral reefs and seagrass are heavily influenced by human activities through pollution and habitat loss, and sea-level rise or the increase of ocean temperature due to the global change. In the Jakarta Bay and Seribu Islands, marine communities have been impacted by an increase in eutrophication and sedimentation levels. As a result, these habitats became degraded and could affect their associated organisms such as rabbitfish. Genetic diversity and population structure can provide information about a long-term condition in an aquatic organism. The study was conducted to assess genetic diversity and population structure of rabbitfish (Siganus canaliculatus) across an environmental gradient in Jakarta Bay and Seribu Islands. A total of 31 individuals were collected using gillnet in study sites. A molecular marker mitochondrial Cytochrome oxidase 1 (CO1) was used to amplify DNA. The result of the phylogenetic tree formed two major clades, which generally separate northern and southern region of Seribu Islands populations. AMOVA analysis showed significant genetic differentiation between the population of Siganus canaliculatus in the north zone (National Park) and south zone Seribu Island (FST = 0.38, p<0.005). The highest haplotype diversity (Hd) of Siganus canaliculatus contained was observed in the north (Pulau Semak Daun) and south (Pulau Damar) in both as moderate (0.50). Nucleotide diversity ( ) of Siganus canaliculatus was categorized as low (0.076) to moderate (0.500). Environment and humans seem to affect the value of genetic diversity, and as the study suggests, a significant population subdivision makes this population vulnerable.
##plugins.themes.bootstrap3.article.details##
References
Agha R, Gross A, Rohrlack T, Wolinska J. 2018. Adaptation of a Chytrid Parasite to Its Cyanobacterial Host Is Hampered by Host Intraspecific Diversity. Front. Microbiol. 9:921. doi: 10.3389/fmicb.2018.00921
Akbar N, Zamani NP, Madduppa HH. 2014. Keragaman genetic ikan tuna sirip kuning (Thunus albacares) dari dua populasi di Laut Maluku, Indonesia. Jurnal Ilmu Ilmu Perairan , Pesisir, dan Perikanan. 3(1): 65-73.
Ambo-Rappe R. 2010. Struktur komunitas ikan pada padang lamun yang berbeda di Pulau Barranglompo. Jurnal Ilmu dan Teknologi Kelautan Tropis 2(2):62-73.
Athena, Inswiasri. 2009. Analisis resiko kesehatan masyarakat akibat onsumsi hasil laut yang mengandung merkuri (Hg) di Kabupaten Kepulauan Seribu, Jakarta. Ekologi Kesehatan. 8(1) : 849-859.
Baum G, Januar HI, Ferse SCA, Kunzmann A. 2015. Local and Regional Impacts of Pollution on Coral Reefs along the Thousand Islands North of the Megacity Jakarta, Indonesia. PLoS One 10(9): e0138271. doi: 10.1371/journal.pone.0138271
Brinkhoff T. The principal agglomerations of the world. (2011) Available: http://www.citypopulation.de. Accessed 14 June 2019.
Damar A, Hesse K, Colijn F, Vitner Y. 2019. Deep Sea Research Part II: Topical Studies in Oceanography. The eutrophication states of the Indonesian sea large marine ecosystem: Jakarta Bay, 2001–2013 https://doi.org/10.1016/j.dsr2.2019.05.012.
Fahlevy K, Khodijah S, Nasrullah IA, Fathihatunnisa R, Subhan B, Madduppa H. 2017.Site and depth influence on coral reef structure and composition in Seribu Islands, Jakarta. Aceh Journal of Animal Science 2(1): 28-38 DOI: 10.13170/ajas.2.1.8212
Fahlevy K, Prabowo B, Mubarok MWI, Fahrezi FY, Abdurrahman MI , M F Prasetia MF, R Z Wicaksono RZ, Aprizan M, Subhan B, Madduppa H. 2019. Comparing hard coral cover between Panggang and Kelapa Island Administrative Village, Seribu Islands National Park, Indonesia. IOP Conf. Series: Earth and Environmental Science 241 (2019) 012036 doi:10.1088/1755-1315/241/1/012036
Faiqoh E, Ayu IP, Subhan B, Syamsuni YF, Anggoro AW, Sembiring A. 2015. Variasi geografik kelimpahan zooplankton di perairan terganggu, Kepulauan Seribu, Indonesia. Journal of Marine and Aquatc Sciences. 1: 19-22.
Freeland JR, Kirk H, Petersen SD. 2005. Molecular ecology 1st ed. West Sussex (GB) : Wiley-Blackwell.
Freeland JR, Kirk H, Petersen SD. 2011. Molecular Ecology 2nd ed. West sussex (GB): Wiley-Blackwell.
Garza JC, Williamson EG. 2001 Detection of reduction in population size using data from microsatellite loci. Mol Ecol. 10(2):305-318.
Grandcourt E, Al-Abdessalam T,Francis F., Al-Shamsi A. 2006. Population Biology and Assesment of the whitespotted spinefoot, Siganus canaliculatus (Park, 1797), In the Southern Arabian Gulf. J.Aplied Ichtyol. 23 (1) : 53 – 59.
Gotanco R G R, Manglicmot M T, and Pante M J R. 2010. Multiplex PCR and RFLP Approaches for Identification Rabbitfish (Siganus) Species Using Mitochondrial Regions. Molecular Ecology Resources 10: 741-743.
Grande C, Templado J, Cervera JL, Zardoya R. 2004. Molecular Phylogeny of Euthyneura (Mollusca: Gastropoda). Mol Biol Evol. 21: 303-313
Indrawan M, Primack RB, Supriatna J. 2007. Biologi Konservasi. Jakarta: Yayasan Obor Indonesia.
Jefri E, Zamani NP, Subhan B, Madduppa H. 2015. Molecular phylogeny inferred from mitochondrial DNA of the group Epinephelus spp. in Indonesia collected from local fish market. Biodiversitas. 16(2):254-263.doi:10.13057/biodiv/d160221.
Kusuma AB, Bengen DG, Madduppa HH, Subhan B, Arafat D. 2016. Keanekaragaman genetik karang lunak Sarcophyton trocheliophorum pada populasi Laut Jawa, Nusa Tenggara dan Sulawesi. Jurnal Enggano. 1(1):89-96.
Lande, R.1988. Genetics and Demography in Biological Conservation. Science, 241, 1455-1460.
http://dx.doi.org/10.1126/science.3420403
Latuconsina H, Nessa MN, Ambo-Rappe R. 2012. Komposisi spesies dan struktur komunitas ikan padang lamun di perairan Tanjung Tiram–Teluk Ambon Dalam. Jurnal Ilmu dan Teknologi Kelautan Tropis. 4(1): 35-46.
Madduppa H, Subhan B, Suparyani E, Siregar AM, Arafat D, Tarigan SA, Alimuddin, Khairudi D, Rahmawati F, Bramandito A. 2013. Dynamics of fish diversity across an environmental gradient in the Seribu Islands reefs off Jakarta. Biodiversitas. 14(1): 17-24.
Madduppa H. 2014. Bioekologi dan Biosistematika Ikan Terumbu. Bogor: IPB PRESS.Hlm.:296
Mulyasari SDT, Kristanto AH, Kusmini II. 2010. Karakteristik genetik enam populasi nilem (Osteochilus hasselti) di Jawa Barat. Jurnal Riset Akuakultur, volume 5(2): 175-182.
Munira, Sulistiono, Zairion. 2010. Distribusi spasial ikan baronang (Siganus canaliculatus) di padang lamun Selat Lonthoir, Kepulauan Banda, Maluku. Jurnal Iktiologi Indonesia, 10(1):25-33.
Nei M. 1972. Genetic distance between populations. American Nature, 106: 283-292.
Nei M. 1987. Molecular evolutionary genetics. Columbia University. Press. New York. 512 hal.
Paruntu CP. 2015. Budidaya Ikan Kerapu (Ephinephelus tauvina Forsskal, 1775) dan Ikan Beronang (Siganus canaliculatus Park, 1797) dalam Karamba Jaring Apung dengan Sistim Polikultur. Jurnal Budidaya Perairan Januari 2015. 3(1):1-10.
Saleky D, Setyobudiandi I, Toha HA, Takdir M, Madduppa H. 2016. Length-weight relationship and population genetic of two marine gastropods species (Turbinidae: Turbo sparverius and Turbo bruneus) in the Bird Seascape Papua, Indonesia. Biodiversitas. 208-217.doi:10.13057/biodiv/d170130.
Sawitri R dan Iskandar S. 2012. Keragaman jenis burung di taman nasional kepulauan wakatobi dan taman nasional kepulauan seribu. Jurnal Penelitian Hutan dan Konservasi alam. 9(2):175-187
Smith MH, Chesser RK. 1981. Rationale for coneserving genetic variation of fish gen poll. Ecology Bulletin of Stockholm, 23: 119-130
Suryanto, D. 2003. Melihat Keanekaragaman Organisme Melalui Beberapa Teknik Genetika Molekuler. USU digital library.
Taman Nasional Laut Kepulauan Seribu. 1999. Rencana pengelolaan Taman Nasional Laut Kepulauan Seribu, Volume II, p.79. Jakarta: Proyek Pengembangan Taman Nasional Laut Kepulauan Seribu.
Toha AH, Widodo N, Subhan B, Himawan MR, Tania C, Noor BA, Stewart BS, Madduppa HH .2016. Close genetic relatedness of whale sharks, Rhincodon typus in the Indo-Pacific region. AACL Bioflux 9 (3) 458-465
Widiyawati, W. 2015. Pertumbuhan, Laju Eksploitasi, dan Pola Rekrutmen Ikan Baronang (Siganus canaliculatus Park. 1797) di Perairan Kepulauan Seribu, Jakarta [Skripsi]. Bogor (ID) : Institut Pertanian Bogor.
Wu Z, Yu D, Wan Z, Li X, Xu X. 2015 Great influence of geographic isolation on the genetic differentiation of Myriophyllum spicatum under a steep environmental gradient. Sci. Rep. 5, 15618; doi: 10.1038/srep15618 .
Akbar N, Zamani NP, Madduppa HH. 2014. Keragaman genetic ikan tuna sirip kuning (Thunus albacares) dari dua populasi di Laut Maluku, Indonesia. Jurnal Ilmu Ilmu Perairan , Pesisir, dan Perikanan. 3(1): 65-73.
Ambo-Rappe R. 2010. Struktur komunitas ikan pada padang lamun yang berbeda di Pulau Barranglompo. Jurnal Ilmu dan Teknologi Kelautan Tropis 2(2):62-73.
Athena, Inswiasri. 2009. Analisis resiko kesehatan masyarakat akibat onsumsi hasil laut yang mengandung merkuri (Hg) di Kabupaten Kepulauan Seribu, Jakarta. Ekologi Kesehatan. 8(1) : 849-859.
Baum G, Januar HI, Ferse SCA, Kunzmann A. 2015. Local and Regional Impacts of Pollution on Coral Reefs along the Thousand Islands North of the Megacity Jakarta, Indonesia. PLoS One 10(9): e0138271. doi: 10.1371/journal.pone.0138271
Brinkhoff T. The principal agglomerations of the world. (2011) Available: http://www.citypopulation.de. Accessed 14 June 2019.
Damar A, Hesse K, Colijn F, Vitner Y. 2019. Deep Sea Research Part II: Topical Studies in Oceanography. The eutrophication states of the Indonesian sea large marine ecosystem: Jakarta Bay, 2001–2013 https://doi.org/10.1016/j.dsr2.2019.05.012.
Fahlevy K, Khodijah S, Nasrullah IA, Fathihatunnisa R, Subhan B, Madduppa H. 2017.Site and depth influence on coral reef structure and composition in Seribu Islands, Jakarta. Aceh Journal of Animal Science 2(1): 28-38 DOI: 10.13170/ajas.2.1.8212
Fahlevy K, Prabowo B, Mubarok MWI, Fahrezi FY, Abdurrahman MI , M F Prasetia MF, R Z Wicaksono RZ, Aprizan M, Subhan B, Madduppa H. 2019. Comparing hard coral cover between Panggang and Kelapa Island Administrative Village, Seribu Islands National Park, Indonesia. IOP Conf. Series: Earth and Environmental Science 241 (2019) 012036 doi:10.1088/1755-1315/241/1/012036
Faiqoh E, Ayu IP, Subhan B, Syamsuni YF, Anggoro AW, Sembiring A. 2015. Variasi geografik kelimpahan zooplankton di perairan terganggu, Kepulauan Seribu, Indonesia. Journal of Marine and Aquatc Sciences. 1: 19-22.
Freeland JR, Kirk H, Petersen SD. 2005. Molecular ecology 1st ed. West Sussex (GB) : Wiley-Blackwell.
Freeland JR, Kirk H, Petersen SD. 2011. Molecular Ecology 2nd ed. West sussex (GB): Wiley-Blackwell.
Garza JC, Williamson EG. 2001 Detection of reduction in population size using data from microsatellite loci. Mol Ecol. 10(2):305-318.
Grandcourt E, Al-Abdessalam T,Francis F., Al-Shamsi A. 2006. Population Biology and Assesment of the whitespotted spinefoot, Siganus canaliculatus (Park, 1797), In the Southern Arabian Gulf. J.Aplied Ichtyol. 23 (1) : 53 – 59.
Gotanco R G R, Manglicmot M T, and Pante M J R. 2010. Multiplex PCR and RFLP Approaches for Identification Rabbitfish (Siganus) Species Using Mitochondrial Regions. Molecular Ecology Resources 10: 741-743.
Grande C, Templado J, Cervera JL, Zardoya R. 2004. Molecular Phylogeny of Euthyneura (Mollusca: Gastropoda). Mol Biol Evol. 21: 303-313
Indrawan M, Primack RB, Supriatna J. 2007. Biologi Konservasi. Jakarta: Yayasan Obor Indonesia.
Jefri E, Zamani NP, Subhan B, Madduppa H. 2015. Molecular phylogeny inferred from mitochondrial DNA of the group Epinephelus spp. in Indonesia collected from local fish market. Biodiversitas. 16(2):254-263.doi:10.13057/biodiv/d160221.
Kusuma AB, Bengen DG, Madduppa HH, Subhan B, Arafat D. 2016. Keanekaragaman genetik karang lunak Sarcophyton trocheliophorum pada populasi Laut Jawa, Nusa Tenggara dan Sulawesi. Jurnal Enggano. 1(1):89-96.
Lande, R.1988. Genetics and Demography in Biological Conservation. Science, 241, 1455-1460.
http://dx.doi.org/10.1126/science.3420403
Latuconsina H, Nessa MN, Ambo-Rappe R. 2012. Komposisi spesies dan struktur komunitas ikan padang lamun di perairan Tanjung Tiram–Teluk Ambon Dalam. Jurnal Ilmu dan Teknologi Kelautan Tropis. 4(1): 35-46.
Madduppa H, Subhan B, Suparyani E, Siregar AM, Arafat D, Tarigan SA, Alimuddin, Khairudi D, Rahmawati F, Bramandito A. 2013. Dynamics of fish diversity across an environmental gradient in the Seribu Islands reefs off Jakarta. Biodiversitas. 14(1): 17-24.
Madduppa H. 2014. Bioekologi dan Biosistematika Ikan Terumbu. Bogor: IPB PRESS.Hlm.:296
Mulyasari SDT, Kristanto AH, Kusmini II. 2010. Karakteristik genetik enam populasi nilem (Osteochilus hasselti) di Jawa Barat. Jurnal Riset Akuakultur, volume 5(2): 175-182.
Munira, Sulistiono, Zairion. 2010. Distribusi spasial ikan baronang (Siganus canaliculatus) di padang lamun Selat Lonthoir, Kepulauan Banda, Maluku. Jurnal Iktiologi Indonesia, 10(1):25-33.
Nei M. 1972. Genetic distance between populations. American Nature, 106: 283-292.
Nei M. 1987. Molecular evolutionary genetics. Columbia University. Press. New York. 512 hal.
Paruntu CP. 2015. Budidaya Ikan Kerapu (Ephinephelus tauvina Forsskal, 1775) dan Ikan Beronang (Siganus canaliculatus Park, 1797) dalam Karamba Jaring Apung dengan Sistim Polikultur. Jurnal Budidaya Perairan Januari 2015. 3(1):1-10.
Saleky D, Setyobudiandi I, Toha HA, Takdir M, Madduppa H. 2016. Length-weight relationship and population genetic of two marine gastropods species (Turbinidae: Turbo sparverius and Turbo bruneus) in the Bird Seascape Papua, Indonesia. Biodiversitas. 208-217.doi:10.13057/biodiv/d170130.
Sawitri R dan Iskandar S. 2012. Keragaman jenis burung di taman nasional kepulauan wakatobi dan taman nasional kepulauan seribu. Jurnal Penelitian Hutan dan Konservasi alam. 9(2):175-187
Smith MH, Chesser RK. 1981. Rationale for coneserving genetic variation of fish gen poll. Ecology Bulletin of Stockholm, 23: 119-130
Suryanto, D. 2003. Melihat Keanekaragaman Organisme Melalui Beberapa Teknik Genetika Molekuler. USU digital library.
Taman Nasional Laut Kepulauan Seribu. 1999. Rencana pengelolaan Taman Nasional Laut Kepulauan Seribu, Volume II, p.79. Jakarta: Proyek Pengembangan Taman Nasional Laut Kepulauan Seribu.
Toha AH, Widodo N, Subhan B, Himawan MR, Tania C, Noor BA, Stewart BS, Madduppa HH .2016. Close genetic relatedness of whale sharks, Rhincodon typus in the Indo-Pacific region. AACL Bioflux 9 (3) 458-465
Widiyawati, W. 2015. Pertumbuhan, Laju Eksploitasi, dan Pola Rekrutmen Ikan Baronang (Siganus canaliculatus Park. 1797) di Perairan Kepulauan Seribu, Jakarta [Skripsi]. Bogor (ID) : Institut Pertanian Bogor.
Wu Z, Yu D, Wan Z, Li X, Xu X. 2015 Great influence of geographic isolation on the genetic differentiation of Myriophyllum spicatum under a steep environmental gradient. Sci. Rep. 5, 15618; doi: 10.1038/srep15618 .
Most read articles by the same author(s)
- HAWIS H. MADDUPPA, BEGINER SUBHAN, ENY SUPARYANI, ACHIS M. SIREGAR, DONDY ARAFAT, SUKMARAHARJA A. TARIGAN, ALIMUDDIN ALIMUDDIN, DENNY KHAIRUDI, FADHILLAH RAHMAWATI, ADITYA BRAHMANDITO, Dynamics of fish diversity across an environmental gradient in the Seribu Islands reefs off Jakarta , Biodiversitas Journal of Biological Diversity: Vol. 14 No. 1 (2013)
- HAWIS MADDUPPA, AM AZBAS TAURUSMAN, BEGINER SUBHAN, NURLITA P ANGGRAINI, RISKI FADILLAH, KUSTIARIYAH TARMAN, Short Communication: DNA barcoding reveals vulnerable and not evaluated species of sea cucumbers (Holothuroidea and Stichopodidae) from Kepulauan Seribu reefs, Indonesia , Biodiversitas Journal of Biological Diversity: Vol. 18 No. 3 (2017)
- HAWIS MADDUPPA, ARINI S. P. PUTRI, RIDHO Z. WICAKSONO, BEGINER SUBHAN, NEBUCHADNEZZAR AKBAR, FIRDAUT ISMAIL, DONDY ARAFAT, DERTA PRABUNING, L.M. IQBAL MUKSIN, ENDANG S. SRIMARIANA, ABDURRACHMAN BAKSIR, DIETRIECH G. BENGEN, Morphometric and DNA Barcoding of endemic Halmaheran walking shark (Hemiscyllium halmahera, Allen, 2013) in North Maluku, Indonesia , Biodiversitas Journal of Biological Diversity: Vol. 21 No. 7 (2020)
- ABDUL HAMID A. TOHA, MUHAMMAD DAILAMI, SAIFUL ANWAR, JUSWONO B. SETIAWAN, YUSUP JENTEWO, IDA LAPADI, SANNY SUTANTO, RATIH ARYASARI, AMBARIYANTO, FERAWATI RUNTUBOI, HAWIS MADDUPPA, The genetic relationships and Indo-Pacific connectivity of whale sharks (Rhincodon typus) with particular reference to mitochondrial COI gene sequences from Cendrawasih Bay, Papua, Indonesia , Biodiversitas Journal of Biological Diversity: Vol. 21 No. 5 (2020)
- DAFIT ARIYANTO, DIETRIECH G. BENGEN, TRI PRARTONO, YUSLI WARDIATNO, Short Communication: The relationship between content of particular metabolites of fallen mangrove leaves and the rate at which the leaves decompose over time , Biodiversitas Journal of Biological Diversity: Vol. 19 No. 3 (2018)
- EDWIN JEFRI, NEVIATY P. ZAMANI, BEGINER SUBHAN, HAWIS H MADDUPPA, Molecular phylogeny inferred from mitochondrial DNA of the grouper Epinephelus spp. in Indonesia collected from local fish market , Biodiversitas Journal of Biological Diversity: Vol. 16 No. 2 (2015)
- ANANINGTYAS S. DARMARINI, YUSLI WARDIATNO, TRI PRARTONO, KADARWAN SOEWARDI, Short Communication: New record of a primitive brachiopod, Lingula sp. in Lubuk Damar, Indonesia , Biodiversitas Journal of Biological Diversity: Vol. 18 No. 4 (2017)
- AGUS KUSNADI, DEDY KURNIANTO, HAWIS MADDUPPA, NEVIATY P. ZAMANI, PUTRI SAPIRA IBRAHIM, UDHI E. HERNAWAN, RISNITA TRI UTAMI, TEDDY TRIANDIZA, Genetic diversity and population structure of the boring giant clam (Tridacna crocea) in Kei Islands, Maluku, Indonesia , Biodiversitas Journal of Biological Diversity: Vol. 23 No. 3 (2022)
- GESTEN HAZERI, DWI LISTYO RAHAYU, BEGINER SUBHAN, ANDRIANUS SEMBIRING, AJI WAHYU ANGGORO, AHMAD TAUFIK GHOZALI, HAWIS H MADDUPPA, Latitudinal species diversity and density of cryptic crustacean (Brachyura and Anomura) in micro-habitat Autonomous Reef Monitoring Structures across Kepulauan Seribu, Indonesia , Biodiversitas Journal of Biological Diversity: Vol. 20 No. 5 (2019)