Detection of Seagrass Pathogens Using Environmental DNA (eDNA), North Pacific, 2016-present

This data set is comprised of one table with sampling information and NCBI BioProject accession numbers for sequence information of this amplicon-based study targeting Labyrinthula, Phytophthora, and Halophytophthora of known pathogenic and non-pathogenic [to eelgrass (Zostera marina)] strains from eDNA samples. eDNA samples included water, sediment, and eelgrass from Notsuke Wan (Cove) Japan, Safety Sound, Izembek Lagoon, Port Moller, Chignik Lagoon, and Frederick Sound, Alaska and cloacal swabs from waterfowl hunted near Cold Bay Alaska. Replicate samples and multiple sampling dates of the same location were included. Highly conserved primers which could differentiate species of interest were developed for four portions of mtDNA genes (5.8S, 18S, ITS, and COI). The reference list and conserved primer sets to identify species present were developed using publicly available data https://www.ncbi.nlm.nih.gov/genbank/

Data e Risorse

Campo Valore
accessLevel public
bureauCode {010:12}
catalog_@context https://project-open-data.cio.gov/v1.1/schema/catalog.jsonld
catalog_conformsTo https://project-open-data.cio.gov/v1.1/schema
catalog_describedBy https://project-open-data.cio.gov/v1.1/schema/catalog.json
identifier USGS:ASC265
metadata_type geospatial
modified 20210427
old-spatial 145.2334, 43.5834, -132.9831, 64.4917
publisher U.S. Geological Survey
publisher_hierarchy Department of the Interior > U.S. Geological Survey
resource-type Dataset
source_datajson_identifier true
source_hash 808c3a878d3e5cc3f5ba7290b59586b39bd37018
source_schema_version 1.1
spatial {"type": "Polygon", "coordinates": [[[145.2334, 43.5834], [145.2334, 64.4917], [ -132.9831, 64.4917], [ -132.9831, 43.5834], [145.2334, 43.5834]]]}
theme {geospatial}
Gruppi
  • AmeriGEOSS
  • National Provider
  • North America
Tag
  • 18s
  • 5-8s
  • alaska
  • amerigeo
  • amerigeoss
  • anas-acuta
  • anas-crecca
  • anas-platyrhynchos
  • animals-vertebrates
  • anser-canagicus
  • aquatic-ecosystems
  • aythya-marila
  • biological-informatics
  • biota
  • birds
  • branta-bernicla-nigricans
  • branta-hutchinsii
  • chignik-lagoon
  • ckan
  • coi
  • cold-bay
  • databases-nucleic-acid
  • decline-plant-disease
  • disease-detection
  • disease-spread
  • disease-vectors
  • dna-mitochondrial
  • dna-primers
  • ducks-geese-swans
  • ecological-processes
  • ecosystem
  • ecosystem-diversity
  • edna
  • environment
  • environmental-dna
  • feasibility-studies
  • field-sampling
  • frederick-sound
  • geo
  • geoss
  • grant-point
  • halophytophthora
  • hokkaido
  • its
  • izembek-lagoon
  • izembek-national-wildlife-refuge
  • japan
  • labyrinthula-sp
  • labyrinthula-zosterae
  • mareca-americana
  • mareca-penelope
  • marine-biology
  • marine-environment-monitoring
  • mitochondrial-dna
  • national
  • north-america
  • notsuke-wan-cove
  • ocean-circulation
  • oceans-and-seas
  • phytophthora-gemini
  • plants
  • port-moller
  • safety-sound
  • species-population-interactions
  • united-states
  • usgs-asc265
  • zostera-marina
isopen False
license_id notspecified
license_title License not specified
maintainer U.S. Geological Survey, Alaska Science Center
maintainer_email ascweb@usgs.gov
metadata_created 2025-11-22T21:17:03.519242
metadata_modified 2025-11-22T21:17:03.519247
notes This data set is comprised of one table with sampling information and NCBI BioProject accession numbers for sequence information of this amplicon-based study targeting Labyrinthula, Phytophthora, and Halophytophthora of known pathogenic and non-pathogenic [to eelgrass (Zostera marina)] strains from eDNA samples. eDNA samples included water, sediment, and eelgrass from Notsuke Wan (Cove) Japan, Safety Sound, Izembek Lagoon, Port Moller, Chignik Lagoon, and Frederick Sound, Alaska and cloacal swabs from waterfowl hunted near Cold Bay Alaska. Replicate samples and multiple sampling dates of the same location were included. Highly conserved primers which could differentiate species of interest were developed for four portions of mtDNA genes (5.8S, 18S, ITS, and COI). The reference list and conserved primer sets to identify species present were developed using publicly available data https://www.ncbi.nlm.nih.gov/genbank/
num_resources 2
num_tags 67
title Detection of Seagrass Pathogens Using Environmental DNA (eDNA), North Pacific, 2016-present