Assessing vertebrate biodiversity in a kelp forest ecosystem using environmental DNA

JA Port, JL O'Donnell, OC Romero‐Maraccini… - Molecular …, 2016 - Wiley Online Library
Preserving biodiversity is a global challenge requiring data on species’ distribution and
abundance over large geographic and temporal scales. However, traditional methods to survey …

Using environmental DNA to census marine fishes in a large mesocosm

RP Kelly, JA Port, KM Yamahara, LB Crowder - PloS one, 2014 - journals.plos.org
The ocean is a soup of its resident species' genetic material, cast off in the forms of metabolic
waste, shed skin cells, or damaged tissue. Sampling this environmental DNA (eDNA) is a …

Harnessing DNA to improve environmental management

RP Kelly, JA Port, KM Yamahara, RG Martone… - Science, 2014 - science.org
Responsive environmental policy demands a constant stream of information about the living
world, but biological monitoring is difficult and expensive. For many species and ecosystems…

Indexed PCR primers induce template-specific bias in large-scale DNA sequencing studies

JL O'Donnell, RP Kelly, NC Lowell, JA Port - PloS one, 2016 - journals.plos.org
Massively parallel sequencing is rapidly emerging as an efficient way to quantify biodiversity
at all levels, from genetic variation and expression to ecological community assemblage. …

Metagenomic frameworks for monitoring antibiotic resistance in aquatic environments

JA Port, AC Cullen, JC Wallace, MN Smith… - Environmental …, 2014 - ehp.niehs.nih.gov
Background: High-throughput genomic technologies offer new approaches for
environmental health monitoring, including metagenomic surveillance of antibiotic resistance …

Metagenomic profiling of microbial composition and antibiotic resistance determinants in Puget Sound

JA Port, JC Wallace, WC Griffith, EM Faustman - PloS one, 2012 - journals.plos.org
Human-health relevant impacts on marine ecosystems are increasing on both spatial and
temporal scales. Traditional indicators for environmental health monitoring and microbial risk …

FARME DB: a functional antibiotic resistance element database

JC Wallace, JA Port, MN Smith, EM Faustman - Database, 2017 - academic.oup.com
Antibiotic resistance (AR) is a major global public health threat but few resources exist that
catalog AR genes outside of a clinical context. Current AR sequence databases are …

Identification of G protein-coupled receptor signaling pathway proteins in marine diatoms using comparative genomics

JA Port, MS Parker, RB Kodner, JC Wallace… - BMC genomics, 2013 - Springer
Background The G protein-coupled receptor (GPCR) signaling pathway plays an essential
role in signal transmission and response to external stimuli in mammalian cells. Protein …

Variability in metagenomic samples from the Puget Sound: Relationship to temporal and anthropogenic impacts

JC Wallace, JE Youngblood, JA Port, AC Cullen… - PLoS …, 2018 - journals.plos.org
Whole-metagenome sequencing (WMS) has emerged as a powerful tool to assess potential
public health risks in marine environments by measuring changes in microbial community …

Evaluation of filtration and DNA extraction methods for environmental DNA biodiversity assessments across multiple trophic levels

A Djurhuus, J Port, CJ Closek, KM Yamahara… - Frontiers in Marine …, 2017 - frontiersin.org
Metabarcoding of marine environmental DNA (eDNA), originating from tissue, cells, or
extracellular DNA, offers the opportunity to survey the biological composition of communities …