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Genetic Diversity and Population Structure of Amphidromous Goby (Stiphodon semoni) in Western Part of Southern Java Waters

Jurnal Ilmiah Perikanan dan Kelautan · Vol. 16 No. 2 (2024) · hlm. 461–472

DOI
10.20473/jipk.v16i2.57014
ISSN
2528-0759, 2085-5842
Terbit
2024-08-30
Penerbit
Faculty of Fisheries and Marine Universitas Airlangga
Bahasa
eng
Lisensi
creativecommons.org/licenses/by-nc-sa/4.0

Abstrak

Graphical Abstract Research Highlight The genetic diversity of Stiphodon semoni is high. All populations have high haplotype diversity except for Cimaja. No genetic structure is observed within the populations of semoni. The population of semoni has undergone demographic expansion. Cibareno River has the potential to be a protected area. Abstract Fishing activities negatively impact fish populations, potentially causing a decline in fish stocks. Nevertheless, ensuring diversity and connectivity among populations can mitigate these adverse effects. To evaluate the connectivity of river mouths in the western part of Southern Java waters, we sequenced forty Stiphodon semoni individuals from five populations using mitochondrial cytochrome oxidase subunit 1 as molecular markers. The study revealed that S. semoni populations showed high diversity (0.821), with the population in Cimaja displaying the lowest diversity (0.464). Furthermore, the result of the analysis of molecular variance was a Fst value of 0.0630 with a p-value of 0.22. These results along with the result of the haplotype network indicated no significant genetic differences among these populations. This implies that the river mouths in the western part of Southern Java waters are interconnected. The distribution of mismatches showed a single peak, indicating that the populations have undergone demographic expansion. This information could be valuable for the conservation and management of S. semoni in the western part of the Southern Java waters.

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  • IPB University
  • Universitas Airlangga
  • National Research and Innovation Agency
  • Hasanuddin University
  • University of British Columbia
  • Tokyo University of Marine Science and Technology
  • Padjadjaran University
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Rekan penulisOrganisasiArtikel bersama
Yushinta FujayaHasanuddin University1
Dody Dharmawan TrijunoHasanuddin University1
Arief BoedionoIPB University1
Seiichi WatanabeTokyo University of Marine Science and Technology1
Jonson Lumban GaolIPB University1
Lydia TehAfiliasi tidak diketahui1
Fery KurniawanIPB University1
Muhammad Faris NazalIPB University1
William W. L. CheungUniversity of British Columbia1
Gabriel ReygondeauUniversity of British Columbia1
Ni Putu Asri Ratna SuhitaIPB University1
Fismatman RuliNational Research and Innovation Agency1
Sem LikumahuaNational Research and Innovation Agency1
Gerry Giliant SalamenaNational Research and Innovation Agency1
Etty RianiIPB University1
Sulistiono SulistionoIPB University1
Rita RostikaPadjadjaran University1
Sigid HariyadiIPB University1
Sonja KleinertzUniversity of Rostock1
Ghinarrahmi AfiyatillahIPB University1
Sulistiono SulistionoIPB University1
Dwi Yuni WulandariIPB University1
Ayu ErviniaIPB University1
Zairion ZairionIPB University1
Annur Ahadi AbdilahAfiliasi tidak diketahui1
Nina Nurmalia DewiUniversitas Airlangga1
Ahmad Shofy MubarakUniversitas Airlangga1
Juni TriastutiUniversitas Airlangga1
Elva Qurrota Fu'adahUniversitas Airlangga1
Prima AlmiraUniversitas Airlangga1
Firman Budi CahyadiUniversitas Airlangga1

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Sumber metadata: OAI-PMH (metadata jurnal) https://e-journal.unair.ac.id/index.php/JIPK/oai, pertama di-harvest 9 Nov 2026, terakhir terlihat 9 Nov 2026.
Metadata asli (oai_dc) 
<oai_dc:dc xmlns="http://www.openarchives.org/OAI/2.0/" xmlns:dc="http://purl.org/dc/elements/1.1/" xmlns:oai_dc="http://www.openarchives.org/OAI/2.0/oai_dc/" xmlns:xsi="http://www.w3.org/2001/XMLSchema-instance" xsi:schemaLocation="http://www.openarchives.org/OAI/2.0/oai_dc/  http://www.openarchives.org/OAI/2.0/oai_dc.xsd">
	<dc:title xml:lang="en-US">Genetic Diversity and Population Structure of Amphidromous Goby (Stiphodon semoni) in Western Part of Southern Java Waters</dc:title>
	<dc:creator>Romdon, Ahmad</dc:creator>
	<dc:creator>Simanjuntak, Charles P. H.</dc:creator>
	<dc:creator>Sulistiono</dc:creator>
	<dc:creator>Syahailatua, Augy</dc:creator>
	<dc:subject xml:lang="en-US">Amphidromous Gobiid</dc:subject>
	<dc:subject xml:lang="en-US">Larval Dispersal</dc:subject>
	<dc:subject xml:lang="en-US">Palabuhanratu Bay</dc:subject>
	<dc:subject xml:lang="en-US">mtDNA</dc:subject>
	<dc:subject xml:lang="en-US">Cytochrome Oxidase I</dc:subject>
	<dc:description xml:lang="en-US">Graphical Abstract

Research Highlight

The genetic diversity of Stiphodon semoni is high.
All populations have high haplotype diversity except for Cimaja.
No genetic structure is observed within the populations of  semoni.
The population of  semoni has undergone demographic expansion.
Cibareno River has the potential to be a protected area.

Abstract
Fishing activities negatively impact fish populations, potentially causing a decline in fish stocks. Nevertheless, ensuring diversity and connectivity among populations can mitigate these adverse effects. To evaluate the connectivity of river mouths in the western part of Southern Java waters, we sequenced forty Stiphodon semoni individuals from five populations using mitochondrial cytochrome oxidase subunit 1  as molecular markers. The study revealed that S. semoni populations showed high diversity (0.821), with the population in Cimaja displaying the lowest diversity (0.464). Furthermore, the result of the analysis of molecular variance was a Fst value of 0.0630 with a p-value of 0.22. These results along with the result of the haplotype network indicated no significant genetic differences among these populations. This implies that the river mouths in the western part of Southern Java waters are interconnected. The distribution of mismatches showed a single peak, indicating that the populations have undergone demographic expansion. This information could be valuable for the conservation and management of S. semoni in the western part of the Southern Java waters.</dc:description>
	<dc:publisher xml:lang="en-US">Faculty of Fisheries and Marine Universitas Airlangga</dc:publisher>
	<dc:date>2024-08-30</dc:date>
	<dc:type>info:eu-repo/semantics/article</dc:type>
	<dc:type>info:eu-repo/semantics/publishedVersion</dc:type>
	<dc:format>text/xml</dc:format>
	<dc:format>application/pdf</dc:format>
	<dc:identifier>https://e-journal.unair.ac.id/JIPK/article/view/57014</dc:identifier>
	<dc:identifier>10.20473/jipk.v16i2.57014</dc:identifier>
	<dc:source xml:lang="en-US">Jurnal Ilmiah Perikanan dan Kelautan; Vol. 16 No. 2 (2024): JURNAL ILMIAH PERIKANAN DAN KELAUTAN; 461-472</dc:source>
	<dc:source>2528-0759</dc:source>
	<dc:source>2085-5842</dc:source>
	<dc:language>eng</dc:language>
	<dc:relation>https://e-journal.unair.ac.id/JIPK/article/view/57014/41495</dc:relation>
	<dc:relation>https://e-journal.unair.ac.id/JIPK/article/view/57014/30184</dc:relation>
	<dc:rights xml:lang="en-US">Copyright (c) 2024 Jurnal Ilmiah Perikanan dan Kelautan</dc:rights>
	<dc:rights xml:lang="en-US">http://creativecommons.org/licenses/by-nc-sa/4.0</dc:rights>
</oai_dc:dc>