Abstract:

The deep sea ecosystem is believed to contain the highest biomass of fish in the oceans. However, the taxonomic diversity in this ecosystem is incompletely described and likely to be vastly underestimated. DNA sequence data (barcodes) have become a key tool to discover hidden biodiversity. We generated mitochondrial DNA barcode datasets based on the Cytochrome c oxidase I (COI) gene from deep sea fishes. These data were analyzed using phylogenetic and statistical methods to reveal cryptic species and make taxonomic linkages between adult fishes and their early life stages. These datasets were generated from fishes collected in the Northern Gulf of Mexico on cruises DP01 and DP02 from May 2015 to August 2015.

Suggested Citation:

Bernard, Andrea and Max Weber, Kimberly Finnegan, Mahmood Shivji, Ron Eytan. 2017. DNA sequences of the mitochondrial Cytochrome c oxidase I (COI) genes from deep sea fishes. Cruises DP01 and DP02 from May 2015 - August 2015. Distributed by: Gulf of Mexico Research Initiative Information and Data Cooperative (GRIIDC), Harte Research Institute, Texas A&M University–Corpus Christi. doi:10.7266/N7Z036HF

Purpose:

To assess the genetic biodiversity of deep sea fishes.

Data Parameters and Units:

Spreadsheet Name: "R4.x257.228.0002_version1.xlsx" Description: DNA sequences of the mitochondrial Cytochrome c oxidase I (COI) gene from cruise-collected deep sea fishes. Column Headers of Spreadsheet: ID#: Genetic sample identification Number; Cruise: Sample collection cruise number; Collection Date: Date of sample collection; Order: Name of taxonomic order of sample; Family: Name of taxonomic family of sample; Genus Species: Name of taxonomic genus of sample; Genbank Accession #: National Center for Biotechnology Information (NCBI) record number or identifier for the sample’s DNA barcode sequence of the mitochondrial protein coding gene Cytochrome c oxidase subunit I; Source: Institution responsible for generating and verifying DNA barcode; Start Lat: Starting latitude of sample collection trawl; Start Lon: Starting longitude of sample collection trawl; End Lat: End latitude of sample collection trawl; End Lon: End longitude of sample collection trawl; Trawl #: Sample collection cruise trawl number; Sample ID: Original at sea sample collection identifier. Spreadsheet Name: "R4.x257.228.0002_version2_updated_04272020.xlsx" Description: DNA sequences of the mitochondrial Cytochrome c oxidase I (COI) gene from cruise-collected deep sea fishes - with updated taxonomic identifications. Column Headers of Spreadsheet: ID#: Genetic sample identification Number; Cruise: Sample collection cruise number; Collection Date: Date of sample collection; Order: Name of taxonomic order of sample; Family: Name of taxonomic family of sample; Genus Species: Name of taxonomic genus of sample; Genbank Accession #: National Center for Biotechnology Information (NCBI) record number or identifier for the sample’s DNA barcode sequence of the mitochondrial protein coding gene Cytochrome c oxidase subunit I; Source: Institution responsible for generating and verifying DNA barcode; Start Lat: Starting latitude of sample collection trawl; Start Lon: Starting longitude of sample collection trawl; End Lat: End latitude of sample collection trawl; End Lon: End longitude of sample collection trawl; Trawl #: Sample collection cruise trawl number; Sample ID: Original at sea sample collection identifier; Original Identification in GRIIDC: Original taxonomic identification of sample in GRIIDC - if not blank, sample taxonomic ID has been updated in GRIIDC and GenBank.

Methods:

DNA sequencing of the mitochondrial protein coding gene Cytochrome c oxidase subunit I.

Provenance and Historical References:

This dataset was initially published on 2017-05-30 and was revised again on 2020-04-27 to update some taxonomic identifications. The dataset now includes both the originally submitted (R4.x257.228.0002_version1) file as well as the revised version (R4.x257.228.0002_version2_updated_04272020).

Individual Files: