DNA barcode of seven species coral from Sepulu, Madura Island, Indonesia

Insafitri, Insafitri; NURSALIM, NINING; Kholilah, Nenik; Kurniasih, Eka; CAHYANI, NI KADEK DITA; Nugraha, Wahyu Andy; Ambariyanto, Ambariyanto

doi:10.13057/biodiv/d240138

Cited by 6 publications

(5 citation statements)

References 23 publications

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“…The molecular diversity of blue swimming crabs samples can be identified by genetic distance where the same species usually has a genetic distance of less than 3% (Bucklin et al 2011;Insafitri et al 2023). This is in accordance with the results of research, where P. pelagicus and C. feriata have a 16% genetic distance, and so do other species with a value of 8.5%-89.7% (Table 2).…”

Section: Discussionsupporting

confidence: 87%

Utilizing DNA barcoding approach to study the diversity of the blue swimming crab from Tuban District, East Java, Indonesia

JOESIDAWATI,

NURSALIM,

KHOLILAH

et al. 2023

Biodiversitas

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Abstract. Joesidawati MI, Nursalim N, Kholilah N, Kurniasih EM, Cahyani NKD, Ambariyanto A. 2023. Utilizing DNA barcoding approach to study the diversity of the blue swimming crab from Tuban District, East Java, Indonesia. Biodiversitas 24: 4731-4737. Blue swimming crabs are one of the economically significant fisheries resources in Indonesia. However, Indonesia's blue swimming crab fisheries still depend on wild catches that lead to a non-target species harvest, especially the cryptic swimming crabs. This study aims to investigate the genetic diversity of blue swimming crab specimens and other cryptic species using a molecular approach (DNA Barcoding). The samples were caught from the waters of Tuban District, East Java, Indonesia, using traditional foldable traps or "bubu lipat". This study utilized the Polymerase Chain Reaction (PCR) method targeting the Cytochrome c Oxidase Subunit I (COI) gene. The sequences were then compared to the NCBI database to get the closest species based on the sequences. 21 out of 23 samples were identified as Portunus pelagicus, and two samples were identified as Charybdis feriata with percentage of similarity ranging from 99.68% to 100%. The phylogenetic trees were constructed using Neighbor Joining and Maximum Likelihood method with sequences from Scylla serrataas an outgroup. The genetic distance between P. pelagicus and C. feriata was 16%, whereas the genetic distance between P. pelagicus and C. feriata to the outgroup was 20%. The molecular method is crucial for species identification and population stock assessment. This information helps in determining stock boundaries, estimating population sizes, and understanding the genetic health of populations. Genetic data will help the government to have a better management of the fisheries activities in Indonesia by providing the diversity and population data.

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Section: Discussionsupporting

confidence: 87%

Utilizing DNA barcoding approach to study the diversity of the blue swimming crab from Tuban District, East Java, Indonesia

JOESIDAWATI,

NURSALIM,

KHOLILAH

et al. 2023

Biodiversitas

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“…In Sepulu District, many beach tourist destinations can be developed into snorkelling marine tourism, including Tabuhan Beach, Lembung Paseser Beach, Tengket Beach, and Maneron Beach. Coral cover in these four beaches is moderately good [3,4] and has several coral forms and species [5].…”

Section: Introductionmentioning

confidence: 98%

Suitability Index of Snorkeling Tourism In Sepulu District, Bangkalan, Indonesia

Nugraha,

Insafitri

2023

IOP Conf. Ser.: Earth Environ. Sci.

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Bangkalan is one of the districts in Madura with a coastal area that can be developed as a marine tourism location for snorkelling, and their northern coast facing the Java Sea has only been used for coastal tourism. This research aimed to assess the suitability index of snorkelling tourism in Sepulu waters, Bangkalan. The research was carried out during September–October 2021. Coral cover, fish diversity, water conditions, and an analysis of tourism suitability and the carrying capacity of snorkelling tourism were assessed. Hard coral cover in Sepulu waters ranges from 22-38%, while the per cent of coral cover (including soft corals) ranges from 34-55.5%. The number of coral growth forms found in Sepulu waters ranged from 6-8 forms. Reef fish found in Sepulu district water were between 7-12 species. The tourism suitability index of Sepulu Waters, Bangkalan, which ranges from 61.40 – 75.44%, is included in the category of quite suitable. The area’s carrying capacity for snorkelling tourism activities is 152-500 people daily. Sepulu waters, especially Tengket and Labuhan waters, have a high potential to be used as snorkelling tourism objects.

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“…This has led to molecular identification becoming an alternative, particularly in Indonesia. Molecular identification is easier to learn and can be performed by anyone for research on cryptic organisms like fish (Nursalim et al, 2022), Decapoda (Cheng et al, 2020;Ambariyanto et al, 2023), Coral (Insafitri et al, 2023), Rajungan (Marita et al, 2023) and Cephalopoda (Kholilah et al, 2021a).…”

Section: Introductionmentioning

confidence: 99%

Unveiling the DNA Barcoding of Threadfin Breams (Nemipteridae) at Oeba Fish Landing Site and Oesapa Fish Market in Kupang, East Nusa Tenggara

Wora,

Wijayanti,

Widowati

et al. 2024

Indo. J. Mar. Sci.

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Threadfin breams (Nemipteridae) are demersal fish species that constitute a significant catch for East Nusa Tenggara fishermen at the Oeba Fish Landing Site and Oesapa Fish Market, where they are landed year-round. Over the years, there has been a noticeable increase in the capture of threadfin breams, raising concerns about the potential impact on their genetic diversity. The ongoing trend could affect the region’s overall population structure of threadfin breams. This study addresses the need to identify threadfin breams in the landing above sites of threadfin breams through molecular analysis of mtDNA COI. The research involved the examination of 24 samples obtained from the Oeba Fish Landing Site and Oesapa Fish Market. The analysis revealed the presence of five distinct threadfin bream species: Nemipterus hexodon, N. japonicus, N. zysron, N. aurora, and Pristipomoides typus. The genetic distance between individual threadfin breams ranged from 0-0.8%, indicating a relatively close genetic relationship within the population. Also, phylogenetic tree reconstruction further delineated five distinct clades based on the species obtained from the samples. Given these findings, the study emphasizes the importance of sustainable threadfin bream capture to preserve genetic diversity. The results underscore the need for ongoing monitoring and management strategies to ensure the threadfin bream population’s long-term health and stability. Additionally, the study suggests that a more in-depth analysis of genetic diversity and the environmental factors influencing this species is warranted for a comprehensive understanding and effective conservation measures.

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DNA barcode of seven species coral from Sepulu, Madura Island, Indonesia

Cited by 6 publications

References 23 publications

Utilizing DNA barcoding approach to study the diversity of the blue swimming crab from Tuban District, East Java, Indonesia

Utilizing DNA barcoding approach to study the diversity of the blue swimming crab from Tuban District, East Java, Indonesia

Suitability Index of Snorkeling Tourism In Sepulu District, Bangkalan, Indonesia

Unveiling the DNA Barcoding of Threadfin Breams (Nemipteridae) at Oeba Fish Landing Site and Oesapa Fish Market in Kupang, East Nusa Tenggara

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