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All Journal Jurnal Biologi Udayana ILMU KELAUTAN: Indonesian Journal of Marine Sciences Biotropika Current Biochemistry Journal of Innovation and Applied Technology Journal of Environmental Engineering and Sustainable Technology The Journal of Pure and Applied Chemistry Research Jurnal Kelautan Tropis Jurnal Sumberdaya Akuatik Indopasifik JFMR (Journal of Fisheries and Marine Research) Jurnal Biologi Tropis Indonesian Journal of Chemistry Jurnal Perikanan Universitas Gadjah Mada Jurnal Iktiologi Indonesia (Indonesian Journal of Ichthyology) Musamus Fisheries and Marine Journal Tomini Journal of Aquatic Science Bioscientist : Jurnal Ilmiah Biologi Nekton ACROPORA: Jurnal Ilmu Kelautan dan Perikanan Papua Jurnal Pijar MIPA STATISTIKA Jurnal Perikanan Berita Biologi Journal of Tropical Diversity
Muhammad Dailami, Muhammad
Aquaculture Study Program, Faculty Of Fisheries And Marine Science, Brawijaya University, Veteran Street, Malang 65145, Indonesia
Agriculture, Biological Sciences & Forestry Biochemistry, Genetics & Molecular Biology Chemical Engineering, Chemistry & Bioengineering Chemistry Computer Science & IT Control & Systems Engineering Decision Sciences, Operations Research & Management Earth & Planetary Sciences Economics, Econometrics & Finance Education Energy Engineering Environmental Science Immunology & microbiology Materials Science & Nanotechnology Mathematics Mechanical Engineering Medicine & Pharmacology Physics Social Sciences

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Journal : Journal of Tropical Diversity

 1 
Identifikasi Genetik Ikan Nilem dengan Pendekatan DNA Barcoding Dailami, Muhammad; Yuniarti, Ating; Widodo, Maheno Sri; Pratama, Rakhmad Ndaru; Ariyani, Destia Fitri; Siahaan, Marthin Daniel Theo Gratia; Maulana, Antajala Rian; Ramadhan, Surya Dewa; Putri, Radwa Fathin H; Nurcahyani, Shinta Eka; Milansari, Sindi; Mayor, Corazon Ell Merilia Papuani
Journal of Tropical Diversity Vol 1 No 1 (2025): Februari
Publisher : Penerbit Brainy Bee

Show Abstract | Download Original | Original Source | Check in Google Scholar | DOI: 10.64283/jotdiverse.2025.1(1):3

Abstract

Nilem fish (Osteochilus vittatus) is a species of freshwater fish from the Cyprinidae family which has ecological and economic importance in Indonesia, with its natural habitat in rivers, swamps and stagnant waters. Accurate species identification is very important in biological research and fisheries resource management, but morphological identification methods have several limitations. DNA barcoding is a revolutionary molecular technique that uses short DNA sequences to identify and differentiate species with high accuracy. The use of DNA barcoding in identifying freshwater fish in Indonesia has shown significant development, including in a comprehensive study documenting 1,172 native freshwater fish species. The research "Genetic Identification of Nilem Fish using the DNA Barcoding Approach" aims to characterize the genetics of nilem fish, compare the genetic profiles of various populations, and evaluate the effectiveness of DNA barcoding in distinguishing nilem fish from other Osteochilus species, with the hope of contributing to fish conservation and sustainable management efforts nilem in Indonesia. The DNA sequencing results obtained a sequence with a length of 619 base pairs with the composition of Nucleotides A (27.2%), G (17.6%), C (26.4%), T (28.8%). The BLAST results with the NCBI database showed a similarity of 99.84% with the O. vittatus sequence and 99.83% with O. hasseltii. Both species are synonyms with the official name O. vittatus. Phylogenetic analysis is also in line with the BLAST results which show that the sample sequence is in the same clade as the O. vittatus and O. hasseltii sequences. Identification with molecular markers of the COI gene was successfully used in determining the species of the Nilem fish (O. vittatus).
Analisis Identitas Genetik Ikan Gabus Sentani (Oxyeleotris heterodon) berdasarkan Marka Gen Sitokrom Oksidase 1 Dailami, Muhammad; Maulana, Antajala Rian; Siahaan, Marthin Daniel Theo Gratia; Kusuma, Wahyu Endra; Agamawan, Lalu Panji Imam; Toha, Abdul Hamid A.; Yuniarti, Ating
Journal of Tropical Diversity Vol 1 No 1 (2025): Februari
Publisher : Penerbit Brainy Bee

Show Abstract | Download Original | Original Source | Check in Google Scholar | DOI: 10.64283/jotdiverse.2025.1(1):4

Abstract

The Sentani snakehead fish (Oxyeleotris heterodon) is an endemic fish species that inhabits Lake Sentani and several other lakes in Papua Province, Indonesia. This species has important ecological and economic value, but is vulnerable to environmental change and overexploitation. Genetic identification, especially using the Cytochrome Oxidase 1 (COI) gene, is very important for conservation efforts and understanding the genetic diversity of Sentani Snakehead Fish. DNA barcoding techniques with the COI gene have become the standard method in molecular identification of species, allowing rapid and accurate identification. Unfortunately, the Sentani Snakehead Fish faces various threats such as habitat degradation, pollution, overfishing and the introduction of invasive foreign species. Therefore, genetic research is becoming increasingly important to support conservation efforts, providing in-depth understanding of the population status and adaptive potential of species. The results of DNA amplification and sequencing of COI gene fragments showed a DNA sequence with a length of 619 base pairs with the composition A (23.9%), G (18.1%), C (29.1%), T (28.9%). The results of identification by homology analysis in the NCBI and BOLD databases showed the highest similarity at 97.58% and 97.84% with the O. lineolate sequence. This is because there is no O. heterodon sequence from the COI gene fragment found in Genbank or the BOLD system. Phylogenetic tree analysis with several sequences that have close similarities shows a difference in clade between the O. heterodon sequence from this study with the O. lineolate sequence and other species.
Keragaman Genetik Antar Individu Bulu Babi (Tripneustes gratilla) di Pantai Rendani Kabupaten Manokwari Firda, Wahyuma; Toha, Abdul Hamid A.; Mudjirahayu, Mudjirahayu; Dailami, Muhammad
Journal of Tropical Diversity Vol 1 No 1 (2025): Februari
Publisher : Penerbit Brainy Bee

Show Abstract | Download Original | Original Source | Check in Google Scholar | DOI: 10.64283/jotdiverse.2025.1(1):7

Abstract

Understanding the genetic diversity of sea urchins is essential for studying species diversity and the genetic relationships among species and individuals. The primary objective of the research was to determine the genetic diversity of sea urchins from Rendani Waters, Manokwari Regency. Specifically, the study aimed to identify the species of sea urchins, assess their nucleotide diversity and composition, measure genetic distances, and explore the kinship relationships between individual sea urchins. The research used a descriptive method and was conducted from November to December 2022. The species identification, based on genetic analysis, revealed that all samples belonged to T. gratilla, with a 99.20-100.00% similarity to the reference species. Genetic diversity among individual samples was found to be relatively low. The nucleotide composition showed an average GC content of 39.34-40.34%, which was lower than the AT content (53.87-60.66%). The genetic distance between the samples ranged from 0.00 to 0.07. A phylogenetic tree, constructed from the data, grouped all samples into two clusters with bootstrap values of 62/54.
Co-Authors Abdul Hamid A. Toha Abdul Hamid A. Toha Abdul Rahem Faqih Afnan, Naufal Izzudin Agoes Soeprijanto Agus Mohammad Hikam Aji Wahyu Anggoro Amalia, Elok Ambariyanto Ambariyanto Andrianus Sembiring Aradea Bujana Kusuma Ariyani, Destia Fitri Asus Maizar Suryanto H Ating Yuniarti Ating Yuniarti Aulia Rahmawati, Aulia Bayu Pranata, Bayu Buana Insan Kamil Christopher P. Meyer Condro Puspo Nugroho Dandi Saleky Dandi Saleky Dandi Saleky Dandi Saleky Dandi Saleky Dandi Saleky Darma Santi Dean Rama Prayoga Delvira Riska Ananta Denanta, I Made Kresna Dewa Gede Raka Wiadnya Dewa Gede Raka Wiadnya Diah Permata Wijayanti Dodi Safari Dyah Kinasih Wuragil EDY H.P. MELMAMBESSY Eka Maya Kurniasih Elsa Syafi’ul Umma Emmanuel Manangkalangi Febriyana Novita Damayanti Febriyani Eka Supriatin Febriyani Eka Supriyatin Firda, Wahyuma Fitri Nur Azizah Harahap, Muhammad Alfiandi Rachmad Hardoko Hardoko Hardoko Hardoko Hariati, Anik Martinah Hariyadi, Hariyadi Heder Djamaludin Hendrikus R Siga Hermawaty Abubakar I MADE ARTIKA Indria Graha Hayuningtyas Isma Isma Jeni, Jeni Kholil, Kiki Nur Azzam Kusuma, Wahyu Endra Lalu Panji Imam Agamawan Maftuch Maftuch Mahariawan, I Made Dedi Maheno Sri Widodo, Maheno Sri Manan, Jemmy Manumpil, Abraham Welliam Marius Agustinus Welliken Maulana, Antajala Rian Mayor, Corazon E.M.P. Mayor, Corazon Ell Merilia Papuani Milansari, Sindi Mirza Dikari Kusrini Mohammad Sholeh Uluwwi Mudjirahayu Mudjirahayu Muhammad Fakhri Muhammad Musa Murtihapsari . Nasrullah Bai Arifin Ni Kadek Dita Cahyani Ni Putu Dian Pertiwi Novaldo Yuri Muhammad Nugroho, Nurul Nurcahyani, Shinta Eka Nurul Jadid Mubarokati Paricahya, Akhsan Fikrillah Permatasari, Felyta Dian Pratama, Rakhmad Ndaru Putri Nur Azizah Putri, Ajeng Ayu Restuaning Putri, Radwa Fathin H Rahardjo, Seto Sugianto Prabowo Ramadhan, Surya Dewa Reny Sianturi Renyaan, Alberth W. Roni Bawole Rosa D. Pangaribuan RR. Ella Evrita Hestiandari Saleky, Dandi Salsabila, Sivana Yesica Ayu Satria, Ibnu Darma Siahaan, Marthin Daniel Theo Gratia Simon P.O Leatemia Sri Andayani Suciati, Lusia Dyah Sufaichusan, Ifa Supriatin, Febriyani Eka Surya Dewa Ramadhan Thomas Frans Pattiasina Tresia Tururaja Tristany Brighton Jorghi Vivi Nurhadianty Vivi Nurhadianty, Vivi Widyawati, Yuni Yenny Risjani Yuni Widyawati Yuni Widyawati Yusup A Jentewo Zeth Parinding