Environmental DNA Metabarcoding in Freshwater Environments of Tierra del Fuego

Name: Environmental DNA Metabarcoding in Freshwater Environments of Tierra del Fuego
License: https://creativecommons.org/licenses/by-nc-sa/2.5/ar/
Keywords: eDNA METABARCODING

Datos de investigación

Environmental DNA Metabarcoding in Freshwater Environments of Tierra del Fuego

Autores: Nardi, Cristina Fernanda Icon

; Veyñ, Marianela Icon

; Chalde, Tomás Icon

Publicador: Consejo Nacional de Investigaciones Científicas y Técnicas

Fecha de depósito: 15/01/2025

Fecha de creación: 05/10/2022-29/12/2023

Clasificación temática:

Conservación de la Biodiversidad

Resumen

This resource provides information on a fish biodiversity assessment conducted using eDNA metabarcoding in freshwater environments of Tierra del Fuego, Argentina. Data includes sequences obtained from Illumina sequencing and a local reference database with sequence information on the 12S rRNA mitochondrial gene (including de novo sequences from local fish fauna).

Métodos

A local freshwater fish reference database was developed by amplifying a fragment of approximately 700 bp of the 12S mitochondrial gene. DNA samples available from the CADIC tissue collection were amplified using a combination of the primers MiFish-U-F (5’GTCGGTAAAACTCGTGCCAGC3’) (Miya et al., 2015) and Teleo_R (5’CTTCCGGTACACTTACCATG3’) (Valentini et al., 2016). Sampling sites for biodiversity assessment through eDNA metabarcoding were selected across four basins in Tierra del Fuego: Grande Basin, Azopardo Basin, Lapataia Basin, and Almanza Basin. Three replicates of water samples were collected from each basin. Following eDNA extraction, high-throughput sequencing was performed using the Illumina MiSeq platform (300 bp paired-end run) with two sets of universal primers (MiFish-U and Teleo).

Otro

12S_refDB.txt This file is the local reference database used for the eDNA metabarcoding downstream analysis. It includes 12S mitochondrial gene sequences of fish species present in freshwater environments of Tierra del Fuego, including de novo sequences from local individuals. MiFish-U reads.zip Teleo reads.zip Both folders contain sequences obtained from the Illumina sequencing. One folder corresponds to sequences generated using MiFish-U primers, while the other contains sequences from the Teleo primers. Each basin is represented by six files: three biological replicates per basin, with each replicate sequenced twice due to the paired-end sequencing approach. Negative controls were also sequenced. Abbreviations used for sampling sites and universal primers: R1: replicate 1 R2: replicate 2 R3 replicate 3 GB: Grande Basin AzB: Azopardo Basin LB: Lapataia Basin AlB: Almanza Basin MiF: MiFish-U Cneg: Negative Control of Amplification

Palabras clave: eDNA METABARCODING, NATIVE FISH SPECIES, ALIEN FISH SPECIES

Alcance geográfico

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Identificador del recurso

URI: http://hdl.handle.net/11336/252528

Colecciones

Datos de Investigación(CADIC)
Datos de Investigación de CENTRO AUSTRAL DE INVESTIGACIONES CIENTIFICAS

Citación

Nardi, Cristina Fernanda; Veyñ, Marianela; Chalde, Tomás; (2025): Environmental DNA Metabarcoding in Freshwater Environments of Tierra del Fuego. Consejo Nacional de Investigaciones Científicas y Técnicas. (dataset). http://hdl.handle.net/11336/252528

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Excepto donde se diga explícitamente, este item se publica bajo la siguiente descripción: Creative Commons Attribution-NonCommercial-ShareAlike 2.5 Unported (CC BY-NC-SA 2.5)