Description
The elasmobranch targeted eDNA project aim to enumerate elasmobranch diversity using eDNA Metabarcoding across eastern Indonesia. A primary goal of the project is to produce a comprehensive database on shark species occurrences in areas around Savu seas, Nusa Tenggara to support current government efforts to save sharks Population. To date we have collected more than 10 water samples from MPA areas around Savu Seas using tools designed to collect water samples (sterivex, and Niskin water sampler). The project is a collaboration between Biodiversitas Indonesia and Misool Foundation. As of now, the DNA reads collected from the samples have no Elasmobranch detected, nonetheless we still publish the taxa that were detected from the samples while working on possible eDNA marker that most suitable to detect elasmobranch species.
Enregistrements de données
Les données de cette ressource occurrence ont été publiées sous forme d'une Archive Darwin Core (Darwin Core Archive ou DwC-A), le format standard pour partager des données de biodiversité en tant qu'ensemble d'un ou plusieurs tableurs de données. Le tableur de données du cœur de standard (core) contient 2 063 enregistrements.
1 tableurs de données d'extension existent également. Un enregistrement d'extension fournit des informations supplémentaires sur un enregistrement du cœur de standard (core). Le nombre d'enregistrements dans chaque tableur de données d'extension est illustré ci-dessous.
Cet IPT archive les données et sert donc de dépôt de données. Les données et métadonnées de la ressource sont disponibles pour téléchargement dans la section téléchargements. Le tableau des versions liste les autres versions de chaque ressource rendues disponibles de façon publique et permet de tracer les modifications apportées à la ressource au fil du temps.
Versions
Le tableau ci-dessous n'affiche que les versions publiées de la ressource accessibles publiquement.
Comment citer
Les chercheurs doivent citer cette ressource comme suit:
Anggoro A (2023). Savu Sea-Indonesia eDNA Dataset. Version 1.97. BIONESIA. Occurrence dataset. https://cloud.gbif.org/asia/resource?r=edna_id_2022&v=1.97
Droits
Les chercheurs doivent respecter la déclaration de droits suivante:
L’éditeur et détenteur des droits de cette ressource est BIONESIA. Ce travail est sous licence Creative Commons Attribution Non Commercial (CC-BY-NC) 4.0.
Enregistrement GBIF
Cette ressource a été enregistrée sur le portail GBIF, et possède l'UUID GBIF suivante : bbb81807-fc4c-4e4e-bc1c-2caee84a4a06. BIONESIA publie cette ressource, et est enregistré dans le GBIF comme éditeur de données avec l'approbation du Participant Node Managers Committee.
Mots-clé
Occurrence; Observation
Contacts
- Fournisseur De Contenu
- Program Development Consultant
- Jl. Buluh Indah No.122, Pemecutan Kaja, Kec. Denpasar Utara
http://orcid.org/https://orcid.org/0000-0002-5482-4123
- Fournisseur De Contenu
- Program Development Consultant
- Jl. Buluh Indah No.122, Pemecutan Kaja, Kec. Denpasar Utara
- Propriétaire ●
- Personne De Contact
- Director
- Jl. Buluh Indah No.122, Pemecutan Kaja, Kec. Denpasar Utara, Kota Denpasar, Bali 80118
- Fournisseur De Contenu
- Jl. Buluh Indah No.122, Pemecutan Kaja, Kec. Denpasar Utara, Kota Denpasar, Bali 80118
Couverture géographique
The Savu Sea is a small sea within Indonesia named for the island of Savu (Sawu) on its southern boundary. It is bounded by Savu and Rai Jua to the south, the islands of Rote and Timor (split between East Timor and Indonesia) to the east, Flores and the Alor archipelago to the north/northwest, and the island of Sumba to the west/northwest. Between these islands, it flows into the Indian Ocean to the south and west, the Flores Sea to the north, and the Banda Sea to the northeast.
| Enveloppe géographique | Sud Ouest [-10,509, 120,234], Nord Est [-8,418, 123,816] |
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Couverture taxonomique
DNA sequences from water samples will be identified to species whenever possible. When sequences were unable to be assigned to a taxonomic name, a dedicated OTU (Operational Taxonomic Name)/occurenceID will be given to the sequences
| Kingdom | Bacteria |
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Données sur le projet
The proposal aims to enrich existing 2000 coral reef fish database species found in Eastern Indonesia, by particularly focusing on elasmobranch, one of the species that are heavily targeted in global fisheries industries. Major activities will include comprehensively list the group using the most updated eDNA metabarcoding technique and train conservationists to use molecular data for conservation purposes. An important target for the project is to develop a practical field guidebook to collect and analyze eDNA data for research and conservation purposes. The combined activities will contribute massively for education, research and marine conservation activities in the region.
| Titre | Sawu-Sea Indonesia eDNA Metabarcoding Project |
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| Identifiant | BIFA6_021 |
| Financement | Biodiversity Information Fund for Asia (BIFA) Miscellaneous awards given to BIONESIA and Misool Foundation to conserve Sharks in Indonesia |
| Description du domaine d'étude / de recherche | Taman Nasional Perairan Laut Sawu or Savu Sea National Marine Park is located in East Nusa Tenggara Indonesia covering an area of more than three million hectares. The hallmark of the marine park is its unique feature as a migratory area for whale species and is a home for a variety of marine megafauna. It houses 11 whale species, 7 dolphin species, 5 manta, and Turtle species and includes two sunfish and dugongs. |
| Description du design | The sampling collection event summarized the collection event across 4 locations in Savu Sea waters. We collected surface seawater samples in 5 sites from each location. eDNA sample from sea water sample were collected across 4 designated locations across Sawu Sea, with 5 sites in each location. 2 liter of sea water sample were collected with sterile nalgene bottle from sea surface in every site. Water sample than filtered through a 0.22-133 micron Sterivex™ filter. eDNA samples and blanks will be extracted using the DNeasy Blood & Tissue Kit (QIAGEN, Hilden, 143 Germany). Extracted DNA was then sent to sequencing facility for NGS metabarcoding method using Illumina platform. |
Les personnes impliquées dans le projet:
Méthodes d'échantillonnage
The sampling collection event summarized the collection event across 4 locations in Savu Sea waters. We collected surface seawater samples at 5 sites from each location. eDNA samples from seawater sample were collected across 4 designated locations across the Sawu Sea, with 5 sites in each location. 2 liters of seawater samples were collected with sterile Nalgene bottle from the sea surface in every site. Water sample than filtered through a 0.22-133 micron Sterivex™ filter. eDNA samples and blanks will be extracted using the DNeasy Blood & Tissue Kit (QIAGEN, Hilden, 143 Germany). Extracted DNA was then sent to a sequencing facility for the NGS metabarcoding method using the Illumina platform.
| Etendue de l'étude | Taman Nasional Perairan Laut Sawu or Savu Sea National Marine Park is located in East Nusa Tenggara Indonesia covering an area of more than three million hectares. The hallmark of the marine park is its unique feature as a migratory area for whale species and is a home for a variety of marine megafauna. It houses 11 whale species, 7 dolphin species, 5 manta, and Turtle species and includes two sunfish and dugongs. For this study, we specifically choose areas from Solor, Rote, Adonara, Manggarai, and West Manggarai to collect the water samples. The areas have never been studied before and hence the biodiversity information from the area will important for biodiversity management and conservation |
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Description des étapes de la méthode:
- 1. For each of the sampling sites, one water samples were collected an homogenized 2. DNA was extracted from each of the samples with a modified protocol based on PowerMax soil kit (MoBio, now Qiagen) 3. For each DNA extract 1 µl, the COI region was amplified in triplicates with the primers mlCOIintF and jgCOIR, using Amplitaq Gold. 4. All PCR products were built into Illumina sequencing libraries with the TruSeq PCR free kit. 5. Sequencing of the 10 samples was done with the Illumina MiSeq platform using the V2 kit 250 bp paired end sequencing. 6. Paired reads were demultiplexed and analyzed with Metaworks https://github.com/terrimporter/MetaWorks using cutadapt, vsearch and dada2, and vsearch. 7. Sequences were annotated by comparison with the Ribosomal Database classifier v2.13 (RDP classifier)
Métadonnées additionnelles
| Identifiants alternatifs | bbb81807-fc4c-4e4e-bc1c-2caee84a4a06 |
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| https://cloud.gbif.org/asia/resource?r=edna_id_2022 |