DNA barcoding pada invertebrata laut

Hikam, Agus Mohammad; Mubarakati, Nurul Jadid; Dailami, Muhammad; Toha, Abdul Hamid A.

doi:10.24843/jbiounud.2021.v25.i01.p06

Cited by 2 publications

(1 citation statement)

References 28 publications

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“…Therefore, bootstrap analysis is employed to assess the homogeneity of clusters in a phylogenetic tree, and it is also used for cluster validation of branch arrangement (Studer 2021). In addition, determining the number of repetitions in sequence alignment using the bootstrap method improves the accuracy of identifying possible species relationships in a phylogenetic tree (Hikam et al 2021). NJ method is a popular tool for constructing phylogenetic trees, relying on genetic distance between species as a basis (Kanojia et al 2019;Hong et al 2021).…”

Section: Phylogenetic Treementioning

confidence: 99%

Morphological and molecular characteristics of Donax incarnatus (Bivalvia: Donacidae) from Badur Beach, Madura Island, Indonesia based on the COX1 gene

WIJAYA,

AMBARWATI,

RAHAYU

2023

Biodiversitas

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Abstract. Wijaya CB, Ambarwati R, Rahayu DA. 2023. Morphological and molecular characteristics of Donax incarnatus (Bivalvia: Donacidae) from Badur Beach, Madura Island, Indonesia based on the COX1 gene. Biodiversitas 24: 2805-2813. Donacidae, a family of marine bivalve mollusks, has a high diversity of morphological traits, including shape and color pattern variations. However, these variations often led to errors in morphological identification, necessitating the use of molecular identification methods for accurate species identification and support. This study aims to analyze the morphological and molecular characteristics of Donax incarnatus Gmelin, 1791 collected from Badur Beach of Madura Island, Sumenep District, East Java Province, Indonesia, using the COX1 gene as a molecular marker. Morphological characterization was conducted through qualitative and quantitative observations, while sequencing results were analyzed using bioinformatics software. The results showed that the exterior color of D. incarnatus has three morphological variations, namely purple-black (OQ692130.1), yellowish orange (OQ692131.1), and white (OQ692132.1). Molecular characterization indicated that the similarity value of D. incarnatus with these variations ranged from 96.06% to 99.61%. At the same time, the alignment results of all samples with reference species and outgroups obtained five variations of nucleotide bases. The average genetic distance between D. incarnatus and the in group was 0.01. The phylogenetic tree results obtained using Neighbor-Joining (NJ) and Maximum Likelihood (ML)methods were categorized into two subclusters: D. incarnatus species from Thailand and the study sample from Badur Beach, Madura Island, Indonesia, were placed in the same cluster.

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Section: Phylogenetic Treementioning

confidence: 99%

Morphological and molecular characteristics of Donax incarnatus (Bivalvia: Donacidae) from Badur Beach, Madura Island, Indonesia based on the COX1 gene

WIJAYA,

AMBARWATI,

RAHAYU

2023

Biodiversitas

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DNA Barcoding of Horseshoe Crab From Madura Island

Insafitri,

Nugraha

2024

BIO Web Conf.

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Horseshoe crab or mimi, commonly known as horseshoe crab is an ancient animal that can live until now so it is called a living fossil. Horseschoe crab can be found in Madura, but there is no comprehensive data yet. Accurate data on horseshoe crab species is needed to determine the potential of this ancient animal, especially from the waters of Madura Island. A careful process of collecting, classifying, and identifying species as well as describing new species is still urgently needed to manage the potential of Madura’s coastal resources in a sustainable manner. Species identification is the most time-consuming, difficult, and often creates obstacles to data collection and analysis. Identification of horseshoe crab species can be carried out based on horseshoe crab morphology but it is quite complicated to do so a reliable and efficient method is needed. One of the currently developing horseshoe crab identification methods is by using molecular analysis of DNA barcoding. This research is the first attempt to identify species using DNA barcoding molecular analysis to investigate the potential of Madura Island as a source of horseshoe crab genetic diversity and is expected to be useful for the management of horseshoe crab resources. The purpose of this study is to find out the DNA of barcoding horseshoe crab species on Madura Island. Genetic marker Cytochrome Oxidase I of the mitochondrial genome DNA (mtDNA) was used to analyze genetic diversity. Reconstruction of phylogenetic tree and genetic diversity were made by using software MEGA X. Research results showed that sample closely related to Carcinoscorpius rotundicauda 99 %.

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DNA barcoding pada invertebrata laut

Cited by 2 publications

References 28 publications

Morphological and molecular characteristics of Donax incarnatus (Bivalvia: Donacidae) from Badur Beach, Madura Island, Indonesia based on the COX1 gene

Morphological and molecular characteristics of Donax incarnatus (Bivalvia: Donacidae) from Badur Beach, Madura Island, Indonesia based on the COX1 gene

DNA Barcoding of Horseshoe Crab From Madura Island

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