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Marine Fish Detection by Environmental DNA (eDNA) Metabarcoding Approach in the Pelabuhan Ratu Bay, Indonesia

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@article{IJASEIT9528,
   author = {Sapto Andriyono and Md. Jobaidul Alam and Hyun-Woo Kim},
   title = {Marine Fish Detection by Environmental DNA (eDNA) Metabarcoding Approach in the Pelabuhan Ratu Bay, Indonesia},
   journal = {International Journal on Advanced Science, Engineering and Information Technology},
   volume = {11},
   number = {2},
   year = {2021},
   pages = {729--737},
   keywords = {Environmental; DNA; identification; metabarcoding; molecular.},
   abstract = {Diversity studies in marine ecosystems have experienced many developments with molecular applications through the environmental DNA (eDNA) metabarcoding approach. This method has widely used in identifying rare species, invasive species, and biodiversity information in both freshwater and marine water environments. In this study, the eDNA metabarcoding approach was the first applied to estimate fish diversity surrounding the Pelabuhan Ratu Bay waters. Five liters of seawater samples have been collected from five spots of the surrounding port area. The metabarcoding technique was applied out by using combination DNA barcoding and the next-generation sequencing (NGS) method by MiSeq platform. The MiFish Pipeline for data analyzing to get species estimation and reads numbers for quantifying the fish abundance in this location. DNA successfully identified 20 species, which commercially in the traditional fish market in Pelabuhan Ratu. Then, the eDNA metabarcoding revealed that 44 marine fish species representing 36 genera, 24 families, and ten orders exist in Pelabuhan Ratu Bay's surrounding water. Several marine fish not included in economically but have ecological value in marine fish diversity. Furthermore, fish fall into the category of vulnerable fish (Thunnus obesus), poisonous fish (Acanthurus lineatus, Acanthurus xanthopterus, Siganus vermiculatus, and Siganus fuscescens), and migratory fish. Regular surveys to determine the fluctuations and effects of human activities are necessary to monitor marine diversity, both the effect of over-exploitation and potential pollution from the coastal areas around the Pelabuhan Ratu Bay.},
   issn = {2088-5334},
   publisher = {INSIGHT - Indonesian Society for Knowledge and Human Development},
   url = {http://ijaseit.insightsociety.org/index.php?option=com_content&view=article&id=9&Itemid=1&article_id=9528},
   doi = {10.18517/ijaseit.11.2.9528}
}

EndNote

%A Andriyono, Sapto
%A Alam, Md. Jobaidul
%A Kim, Hyun-Woo
%D 2021
%T Marine Fish Detection by Environmental DNA (eDNA) Metabarcoding Approach in the Pelabuhan Ratu Bay, Indonesia
%B 2021
%9 Environmental; DNA; identification; metabarcoding; molecular.
%! Marine Fish Detection by Environmental DNA (eDNA) Metabarcoding Approach in the Pelabuhan Ratu Bay, Indonesia
%K Environmental; DNA; identification; metabarcoding; molecular.
%X Diversity studies in marine ecosystems have experienced many developments with molecular applications through the environmental DNA (eDNA) metabarcoding approach. This method has widely used in identifying rare species, invasive species, and biodiversity information in both freshwater and marine water environments. In this study, the eDNA metabarcoding approach was the first applied to estimate fish diversity surrounding the Pelabuhan Ratu Bay waters. Five liters of seawater samples have been collected from five spots of the surrounding port area. The metabarcoding technique was applied out by using combination DNA barcoding and the next-generation sequencing (NGS) method by MiSeq platform. The MiFish Pipeline for data analyzing to get species estimation and reads numbers for quantifying the fish abundance in this location. DNA successfully identified 20 species, which commercially in the traditional fish market in Pelabuhan Ratu. Then, the eDNA metabarcoding revealed that 44 marine fish species representing 36 genera, 24 families, and ten orders exist in Pelabuhan Ratu Bay's surrounding water. Several marine fish not included in economically but have ecological value in marine fish diversity. Furthermore, fish fall into the category of vulnerable fish (Thunnus obesus), poisonous fish (Acanthurus lineatus, Acanthurus xanthopterus, Siganus vermiculatus, and Siganus fuscescens), and migratory fish. Regular surveys to determine the fluctuations and effects of human activities are necessary to monitor marine diversity, both the effect of over-exploitation and potential pollution from the coastal areas around the Pelabuhan Ratu Bay.
%U http://ijaseit.insightsociety.org/index.php?option=com_content&view=article&id=9&Itemid=1&article_id=9528
%R doi:10.18517/ijaseit.11.2.9528
%J International Journal on Advanced Science, Engineering and Information Technology
%V 11
%N 2
%@ 2088-5334

IEEE

Sapto Andriyono,Md. Jobaidul Alam and Hyun-Woo Kim,"Marine Fish Detection by Environmental DNA (eDNA) Metabarcoding Approach in the Pelabuhan Ratu Bay, Indonesia," International Journal on Advanced Science, Engineering and Information Technology, vol. 11, no. 2, pp. 729-737, 2021. [Online]. Available: http://dx.doi.org/10.18517/ijaseit.11.2.9528.

RefMan/ProCite (RIS)

TY  - JOUR
AU  - Andriyono, Sapto
AU  - Alam, Md. Jobaidul
AU  - Kim, Hyun-Woo
PY  - 2021
TI  - Marine Fish Detection by Environmental DNA (eDNA) Metabarcoding Approach in the Pelabuhan Ratu Bay, Indonesia
JF  - International Journal on Advanced Science, Engineering and Information Technology; Vol. 11 (2021) No. 2
Y2  - 2021
SP  - 729
EP  - 737
SN  - 2088-5334
PB  - INSIGHT - Indonesian Society for Knowledge and Human Development
KW  - Environmental; DNA; identification; metabarcoding; molecular.
N2  - Diversity studies in marine ecosystems have experienced many developments with molecular applications through the environmental DNA (eDNA) metabarcoding approach. This method has widely used in identifying rare species, invasive species, and biodiversity information in both freshwater and marine water environments. In this study, the eDNA metabarcoding approach was the first applied to estimate fish diversity surrounding the Pelabuhan Ratu Bay waters. Five liters of seawater samples have been collected from five spots of the surrounding port area. The metabarcoding technique was applied out by using combination DNA barcoding and the next-generation sequencing (NGS) method by MiSeq platform. The MiFish Pipeline for data analyzing to get species estimation and reads numbers for quantifying the fish abundance in this location. DNA successfully identified 20 species, which commercially in the traditional fish market in Pelabuhan Ratu. Then, the eDNA metabarcoding revealed that 44 marine fish species representing 36 genera, 24 families, and ten orders exist in Pelabuhan Ratu Bay's surrounding water. Several marine fish not included in economically but have ecological value in marine fish diversity. Furthermore, fish fall into the category of vulnerable fish (Thunnus obesus), poisonous fish (Acanthurus lineatus, Acanthurus xanthopterus, Siganus vermiculatus, and Siganus fuscescens), and migratory fish. Regular surveys to determine the fluctuations and effects of human activities are necessary to monitor marine diversity, both the effect of over-exploitation and potential pollution from the coastal areas around the Pelabuhan Ratu Bay.
UR  - http://ijaseit.insightsociety.org/index.php?option=com_content&view=article&id=9&Itemid=1&article_id=9528
DO  - 10.18517/ijaseit.11.2.9528

RefWorks

RT Journal Article
ID 9528
A1 Andriyono, Sapto
A1 Alam, Md. Jobaidul
A1 Kim, Hyun-Woo
T1 Marine Fish Detection by Environmental DNA (eDNA) Metabarcoding Approach in the Pelabuhan Ratu Bay, Indonesia
JF International Journal on Advanced Science, Engineering and Information Technology
VO 11
IS 2
YR 2021
SP 729
OP 737
SN 2088-5334
PB INSIGHT - Indonesian Society for Knowledge and Human Development
K1 Environmental; DNA; identification; metabarcoding; molecular.
AB Diversity studies in marine ecosystems have experienced many developments with molecular applications through the environmental DNA (eDNA) metabarcoding approach. This method has widely used in identifying rare species, invasive species, and biodiversity information in both freshwater and marine water environments. In this study, the eDNA metabarcoding approach was the first applied to estimate fish diversity surrounding the Pelabuhan Ratu Bay waters. Five liters of seawater samples have been collected from five spots of the surrounding port area. The metabarcoding technique was applied out by using combination DNA barcoding and the next-generation sequencing (NGS) method by MiSeq platform. The MiFish Pipeline for data analyzing to get species estimation and reads numbers for quantifying the fish abundance in this location. DNA successfully identified 20 species, which commercially in the traditional fish market in Pelabuhan Ratu. Then, the eDNA metabarcoding revealed that 44 marine fish species representing 36 genera, 24 families, and ten orders exist in Pelabuhan Ratu Bay's surrounding water. Several marine fish not included in economically but have ecological value in marine fish diversity. Furthermore, fish fall into the category of vulnerable fish (Thunnus obesus), poisonous fish (Acanthurus lineatus, Acanthurus xanthopterus, Siganus vermiculatus, and Siganus fuscescens), and migratory fish. Regular surveys to determine the fluctuations and effects of human activities are necessary to monitor marine diversity, both the effect of over-exploitation and potential pollution from the coastal areas around the Pelabuhan Ratu Bay.
LK http://ijaseit.insightsociety.org/index.php?option=com_content&view=article&id=9&Itemid=1&article_id=9528
DO  - 10.18517/ijaseit.11.2.9528