Environmental DNA biomonitoring revealed species diversity of Cnidarian and Poriferan across Jakarta Bay and Seribu Islands National Park (original) (raw)
Related papers
International Journal on Advanced Science, Engineering and Information Technology, 2021
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...
IOP Conference Series: Materials Science and Engineering, 2019
Here, we report the results of our preliminary study on deep sea eDNA at fishing ground to approach the fisheries resources abundance at Sulawesi sea by using deep-sea water sampling collected from 10 sites ranging from 110m-200m in depth at front side of the International Coelacanth Research Center and Museum Base at Lolak Waters and Manado Bay North of Sulawesi using Nansen Bottle Sampler (1500 cc). The collected waters were filtered using Power Water Sterivex DNA Isolation Kits and preserved with the DNAiso Reagent then transported to Center for Strategy Research Project, University of the Ryukyus, Okinawa Japan where eDNA analyses were conducted. Our results revealed that the concentrations of eDNA has a good quality were measured with a NanoDrop Lite spectrophotometer, indicating eDNA was successfully extracted. Therefore, by using universal primers for eDNA, MiFish-U-F/R for the 1st-PCR (mt-12S amplification) and 2nd-PCR (tag-indexing) for library preparation to accommodate se...
Freshwater vertebrates monitoring in Maninjau Lake, West Sumatra, Indonesia using environmental DNA
2021
Abstract. Roesma DI, Tjong DH, Janra MN, Aidil DR. 2021. Freshwater vertebrates monitoring in Maninjau Lake, West Sumatra, Indonesia using environmental DNA. Biodiversitas 22: 2794-2802. Environmental DNA (eDNA) is one of the DNA sources without directly disturbing the organisms. The eDNA potentially an effective method with next-generation sequencing (NGS) that can read all DNA in parallel at one sequential run. Maninjau Lake in West Sumatra has experienced a decline the species richness, thus monitor biodiversity with the non-invasive method is needed. This study aimed to apply eDNA for monitoring freshwater vertebrates in Maninjau Lake. The eDNA was collected from water samples using the filter membrane to DNA isolation and sequencing with the NGS technique from Illumina. The eDNA method detected 150 vertebrate individuals and consists of 92 Actinopterygii fishes, three chondrichthyes fishes, 11 amphibians, seven reptiles, ten aves, and 27 mammals. Among all individuals were dete...
Sustainability
Freshwater invasive alien species (IAS) are non-native organisms that were intentionally or unintentionally released into local water bodies and later harmed the invaded habitat by disrupting the ecological processes. Over the last few years, environmental deoxyribonucleic acid (eDNA) analyses have been used in many studies to detect IAS, with positive results. However, with the help of geographic information systems (GIS), efforts to detect the presence of IAS can be made faster and more efficiently. In this paper, we review the background of IAS in Southeast Asia and management efforts undertaken involving the input of known habitat-specific geographical parameters into GIS mapping. Via this strategy, it is possible to identify and distinguish areas that fit IAS habitat features from those that do not. eDNA analysis can later be applied to confirm the presence of IAS in detected areas, enabling further studies and actions. The presence of IAS in certain areas can be used as an ind...