Identification of Beche-de-mers from Indonesia by molecular approach

Patantis, Gintung; Dewi, Ariyanti Suhita; Fawzya, Yusro Nuri; Nursid, Muhammad

doi:10.13057/biodiv/d200233

Cited by 14 publications

(18 citation statements)

References 15 publications

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“…The present study gave different results that the golden sea cucumber obtained from Lombok island, West Nusa Tenggara was closer to S. horrens and S. monotuberculatus. The previous study showed that a phylogenetic tree constructed by the same method has successfully separated S. horrens, S. hermanni, and S. monotuberculatus (Patantis et al, 2019), which proved that the phylogenetic tree of COI sequences could also differentiate Stichopus at the species level.…”

Section: Identification Of Sea Cucumbermentioning

confidence: 80%

“…For the same reason, misidentification often occurs to differentiate between S. horrens, S. monotuberculatus, S. quadrifasciatus and S. naso (Purcell, Samyn, & Conand, 2012). Identification using the mitochondrial cytochrome c oxidase subunit I (COI) gene could distinguish several species in a specific genus of dried sea cucumber (Patantis, Dewi, Fawzya, & Nursid, 2019). Based on the previous studies above, molecular identification should be done to confirm the species of golden sea cucumber.…”

Section: Introductionmentioning

confidence: 99%

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Golden Sea Cucumber: Identification and the Antioxidant Activity of Its Collagen Hydrolysates

Fawzya¹,

Putra²,

Witarto³

et al. 2020

Squalen Bull. Marine Fisheries Postharvest Biotech.

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Golden sea cucumber or locally known as “teripang emas” is one of Indonesia’s most popular sea cucumber and widely processed as functional food or supplement due to its bioactivities. The sea cucumber is often misidentified due to its morphological similarities with other Stichopus spp. This study aimed to identify the golden sea cucumber obtained from West Nusa Tenggara, Indonesia, by a molecular method and study the antioxidant activities of its collagen hydrolysates. The hydrolysates were produced by hydrolyzing acid collagen extract using neutrase for 30, 60, 120, 180, and 240 mins. The products were then analyzed for their degree of hydrolysis, peptide content, molecular weight distribution and radical scavenging activity by the 2,2-Diphenyl-1-picrylhydrazyl (DPPH) method. Results showed that hydrolysis for 180 mins was optimal in producing the highest peptide content, 12.79 ± 0.44 mg/mL, with a degree of hydrolysis (DH) of 55.2 ± 1.50%. However, the highest antioxidant activity (IC50 of 5.25 ± 0.15 mg/mL) was demonstrated after 60 mins hydrolysis with molecular weight (MW) ranged from less than 14.4 kDa to approximately 25 kDa. The hydrolysate might be categorized as a weak to moderate antioxidant. Based on the molecular identification, the golden sea cucumber had 99% similarities with Stichopus horrens and S. monotuberculatus.

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Section: Identification Of Sea Cucumbermentioning

confidence: 80%

Section: Introductionmentioning

confidence: 99%

Golden Sea Cucumber: Identification and the Antioxidant Activity of Its Collagen Hydrolysates

Fawzya¹,

Putra²,

Witarto³

et al. 2020

Squalen Bull. Marine Fisheries Postharvest Biotech.

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“…The appearance resembles with Terung from Kenjeran Waters, Surabaya, which showed similarity to Phyrella sp. [25].…”

Section: Resultsmentioning

confidence: 99%

Sea cucumber species found in Soft-bottom of Wulan Estuary-Demak, Central Java

Hartati

Redjeki

Riniatsih

et al. 2021

IOP Conf. Ser.: Earth Environ. Sci.

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Indonesia has been known to have a high diversity of sea cucumber, but data and information are mostly on high-economic-value species. Sea cucumber living in soft-bottom substrates is less studied and unexploited. Wulan estuary located in the Demak Regency of Central Java was experiencing high sedimentation, which was consisted of fine material, and acted as a habitat for many macrozoobenthos, amongst others sea cucumbers. The objective of the present research was to identify the species of sea cucumber in the soft bottom of the Wulan estuary. The collection of sea cucumber specimens was done using a dredge. A total of 132 specimens were collected, examined, and identified through their morphological characters. The holothuroids found in the soft-bottom of the Wulan estuary represent five genera (Acaudina, Colochirus, Holothuria, Paracaudina, Phyllophorus,) in four families (Caudinidae, Cucumariidae, Holothuriidae, and Phyllophoridae) belonging to three orders (Molpadida, Dendrochirotida, and Aspidochirotida). The species were Acaudina sp., A. molpadioides, Colochirus quadrangularis, Holothuria cf. impatiens, Paracaudina sp., Paracaudina chilensis, P. australis, and Phyllophorus spiculata. A. molpadioides is presented as the most frequently found species. Although sea cucumber found in the Wulan estuary has not been exploited, it still needs to be managed to sustain its population.

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“…Hewan invertebrata umumnya memiliki kesamaan morfologi yang tinggi antar spesies (cryptic), sehingga identifikasi molekuler dapat digunakan untuk memvalidasi spesies kriptik. Menurut Patantis et al (2019), secara molekuler, jenis-jenis teripang yang ada di perdagangkan di Indonesia adalah Acaudina sp., Actinopyga echinites, A. lecanora, A. miliaris, Bohadschia argus, B. marmorata, B. ocellata, B. vitiensis, Holothuria sp., H. atra, H. coluber, H. edulis, H. excellens, H. fuscocinerea, H. Rekonstruksi pohon filogenetik spesies-spesies yang ada dibandingkan dengan data GenBank ditampilkan pada Gambar 3.…”

Section: Pohon Filogenetikunclassified

Identifikasi Spesies Menggunakan Dna Barcoding Dalam Menunjang Budidaya Dan Konservasi Teripang Di Perairan Lampung

Simbolon

Putra

Wirawati

2021

Jurnal Riset Akuakultur

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Teripang merupakan komoditas perikanan yang saat ini dibudidayakan dan dieksploitasi di perairan Lampung. Namun terdapat kesulitan dalam mengidentifikasi teripang karena kemiripan morfologis di antara spesies yang ada. Identifikasi yang baik berguna agar proses pembudidayaan dan konservasi dapat tepat sasaran. Penggunaan DNA barcoding dapat digunakan untuk mengidentifikasi jenis-jenis teripang yang ada, jarak genetik, dan keragaman genetik intra/inter spesies. Penelitian ini bertujuan untuk mengidentifikasi teripang di perairan Lampung dengan menggunakan sekuen DNA gen COI. Teripang diambil dengan menggunakan metode jelajah pada saat surut dan dengan scuba diving. Pengamatan DNA menggunakan primer universal ceF, pengeditan dan diurutkan dengan program Geneious ver 9 dan program BLAST. Konstruksi pohon filogenetik dilakukan dengan metode neighbor joining (NJ) pada model Kimura-2. Penelitian ini menunjukkan spesies teripang yang teridentifikasi adalah Holothuria leucospilota, H. atra, Stichopus vastus, dan S. horrens dengan jarak kesamaan 99%-100%. S. vastus dan S. horrens memiliki jarak genetik terendah dengan pengurangan yang tinggi. Rekonstruksi filogenetik memperlihatkan pengelompokkan spesies-spesies ke dalam genus Holothuria dan Stichopus. Stichopus sp. memiliki kesamaan morfologi yang tinggi sehingga kesalahan identifikasi sering terjadi. DNA barcoding dapat mengidentifikasi teripang secara cepat dan akurat sehingga pengelolaan teripang baik secara budidaya maupun pengambilan langsung di alam dapat berkelanjutan. Identifikasi spesies yang tepat menjadi kunci utama dalam upaya pembudidayaan dan konservasi teripang yang tepat sasaran dan berkelanjutan.Sea cucumbers is a highly valued fishery commodity that is currently cultivated and exploited in Lampung waters. However, differentiating a sea cucumber species from another is sometimes difficult due the morphological similarities between the species. Developing an accurate identification method is then critical to ensure successfull farming activities and conservation efforts of sea cucumbers. DNA barcoding could be used to accurately identify sea cucumber species, genetic distance, and genetic diversity between species. This study aimed to identify sea cucumbers existed in Lampung waters using DNA barcoding of the COI gene with ceF and ceR universal primers. Sea cucumbers are taken using the cruising method at low tide and by scuba diving. The DNA sequence was then edited and aligmented using the Geneious ver.9 program and analyzed using the BLAST program. Phylogenetic tree construction was carried out using the neighbor joining (NJ) method on the Kimura-2 model. This study showed that the identified species of sea cucumbers were Holothuria leucospilota, H. atra, Stichopus vastus, and S. horrens with a similarity distance of 99%-100%. S. vastus and S. horrens have the lowest genetic range. Phylogenetic reconstruction shows the classification of species into the genus Holothuria and Stichopus. Stichopus sp. have high morphological similarities within the same genus which often lead to species misidentification. DNA barcoding can identify sea cucumbers quickly and accurately. This method allows the identification of the right sea cucumber species which is the main key in the effort to cultivate and conserve targeted and sustainable sea cucumbers.

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Identification of Beche-de-mers from Indonesia by molecular approach

Cited by 14 publications

References 15 publications

Golden Sea Cucumber: Identification and the Antioxidant Activity of Its Collagen Hydrolysates

Golden Sea Cucumber: Identification and the Antioxidant Activity of Its Collagen Hydrolysates

Sea cucumber species found in Soft-bottom of Wulan Estuary-Demak, Central Java

Identifikasi Spesies Menggunakan Dna Barcoding Dalam Menunjang Budidaya Dan Konservasi Teripang Di Perairan Lampung

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