Environmental DNA (eDNA) metabarcoding: Diversity study around the Pondok Dadap fish landing station, Malang, Indonesia

Abstract. Andriyono S, Jobaidul Alam Md, Kim HW. 2019. Environmental DNA (eDNA) metabarcoding: Diversity study around the Pondok Dadap fish landing station, Malang, Indonesia. Biodiversitas 20: 3772-3781. Molecular identification of species is now fast growing and currently widely applied method in...

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Autores principales:	Sapto Andriyono, MD. JOBAIDUL ALAM, HYUN-WOO KIM
Formato:	article
Lenguaje:	EN
Publicado:	MBI & UNS Solo 2019
Materias:	environmental dna, identification, metabarcoding, molecular Biology (General) QH301-705.5
Acceso en línea:	https://doaj.org/article/42921d54d6c14f3591b4db7b2b9c18c8
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spelling	oai:doaj.org-article:42921d54d6c14f3591b4db7b2b9c18c82021-11-21T21:59:05ZEnvironmental DNA (eDNA) metabarcoding: Diversity study around the Pondok Dadap fish landing station, Malang, Indonesia1412-033X2085-472210.13057/biodiv/d201241https://doaj.org/article/42921d54d6c14f3591b4db7b2b9c18c82019-11-01T00:00:00Zhttps://smujo.id/biodiv/article/view/4225https://doaj.org/toc/1412-033Xhttps://doaj.org/toc/2085-4722Abstract. Andriyono S, Jobaidul Alam Md, Kim HW. 2019. Environmental DNA (eDNA) metabarcoding: Diversity study around the Pondok Dadap fish landing station, Malang, Indonesia. Biodiversitas 20: 3772-3781. Molecular identification of species is now fast growing and currently widely applied method in the diversity estimation of aquatic biota; even though morphological identification is still carried out. The molecular approach is beneficial complementing on regular surveys, e.g. use of nets, traps, fishing rods, and even with poisons. In this study, the eDNA metabarcoding was applied to water samples around the Pondok Dadap fish landing station, Indonesia to determine the diversity of fish around the waters and also to identify marine fish landed in this area. Molecular identification was carried out on fish samples obtained from the fish market improved GenBank database on COI and ITS. While, seawater samples were carried out by using the next-generation sequencing (NGS) platform to obtain the eDNA metabarcoding data for the first time. Molecular identification obtained 34 species (68 sequences of COI and ITS regions) belonging to 28 genera, 18 families, 4 orders, while the eDNA metabarcoding approach identified 53 marine fish species by using the MiFish pipeline representing 38 genera, 27 families, and 7 orders. From the present study, we can able to estimated fish diversity by eDNA metabarcoding, and this finding will be helpful for baseline data preparation for future effective management of resources in this area.Sapto AndriyonoMD. JOBAIDUL ALAMHYUN-WOO KIMMBI & UNS Soloarticleenvironmental dna, identification, metabarcoding, molecularBiology (General)QH301-705.5ENBiodiversitas, Vol 20, Iss 12 (2019)
institution	DOAJ
collection	DOAJ
language	EN
topic	environmental dna, identification, metabarcoding, molecular Biology (General) QH301-705.5
spellingShingle	environmental dna, identification, metabarcoding, molecular Biology (General) QH301-705.5 Sapto Andriyono MD. JOBAIDUL ALAM HYUN-WOO KIM Environmental DNA (eDNA) metabarcoding: Diversity study around the Pondok Dadap fish landing station, Malang, Indonesia
description	Abstract. Andriyono S, Jobaidul Alam Md, Kim HW. 2019. Environmental DNA (eDNA) metabarcoding: Diversity study around the Pondok Dadap fish landing station, Malang, Indonesia. Biodiversitas 20: 3772-3781. Molecular identification of species is now fast growing and currently widely applied method in the diversity estimation of aquatic biota; even though morphological identification is still carried out. The molecular approach is beneficial complementing on regular surveys, e.g. use of nets, traps, fishing rods, and even with poisons. In this study, the eDNA metabarcoding was applied to water samples around the Pondok Dadap fish landing station, Indonesia to determine the diversity of fish around the waters and also to identify marine fish landed in this area. Molecular identification was carried out on fish samples obtained from the fish market improved GenBank database on COI and ITS. While, seawater samples were carried out by using the next-generation sequencing (NGS) platform to obtain the eDNA metabarcoding data for the first time. Molecular identification obtained 34 species (68 sequences of COI and ITS regions) belonging to 28 genera, 18 families, 4 orders, while the eDNA metabarcoding approach identified 53 marine fish species by using the MiFish pipeline representing 38 genera, 27 families, and 7 orders. From the present study, we can able to estimated fish diversity by eDNA metabarcoding, and this finding will be helpful for baseline data preparation for future effective management of resources in this area.
format	article
author	Sapto Andriyono MD. JOBAIDUL ALAM HYUN-WOO KIM
author_facet	Sapto Andriyono MD. JOBAIDUL ALAM HYUN-WOO KIM
author_sort	Sapto Andriyono
title	Environmental DNA (eDNA) metabarcoding: Diversity study around the Pondok Dadap fish landing station, Malang, Indonesia
title_short	Environmental DNA (eDNA) metabarcoding: Diversity study around the Pondok Dadap fish landing station, Malang, Indonesia
title_full	Environmental DNA (eDNA) metabarcoding: Diversity study around the Pondok Dadap fish landing station, Malang, Indonesia
title_fullStr	Environmental DNA (eDNA) metabarcoding: Diversity study around the Pondok Dadap fish landing station, Malang, Indonesia
title_full_unstemmed	Environmental DNA (eDNA) metabarcoding: Diversity study around the Pondok Dadap fish landing station, Malang, Indonesia
title_sort	environmental dna (edna) metabarcoding: diversity study around the pondok dadap fish landing station, malang, indonesia
publisher	MBI & UNS Solo
publishDate	2019
url	https://doaj.org/article/42921d54d6c14f3591b4db7b2b9c18c8
work_keys_str_mv	AT saptoandriyono environmentaldnaednametabarcodingdiversitystudyaroundthepondokdadapfishlandingstationmalangindonesia AT mdjobaidulalam environmentaldnaednametabarcodingdiversitystudyaroundthepondokdadapfishlandingstationmalangindonesia AT hyunwookim environmentaldnaednametabarcodingdiversitystudyaroundthepondokdadapfishlandingstationmalangindonesia
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Environmental DNA (eDNA) metabarcoding: Diversity study around the Pondok Dadap fish landing station, Malang, Indonesia

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