Scaling up: A guide to high‐throughput genomic approaches for biodiversity analysis
TM Porter, M Hajibabaei - Molecular ecology, 2018 - Wiley Online Library
The purpose of this review is to present the most common and emerging DNA‐based
methods used to generate data for biodiversity and biomonitoring studies. As environmental …
methods used to generate data for biodiversity and biomonitoring studies. As environmental …
Prospects and challenges of implementing DNA metabarcoding for high-throughput insect surveillance
Trap-based surveillance strategies are widely used for monitoring of invasive insect species,
aiming to detect newly arrived exotic taxa as well as track the population levels of …
aiming to detect newly arrived exotic taxa as well as track the population levels of …
[HTML][HTML] RESCRIPt: Reproducible sequence taxonomy reference database management
Nucleotide sequence and taxonomy reference databases are critical resources for
widespread applications including marker-gene and metagenome sequencing for …
widespread applications including marker-gene and metagenome sequencing for …
[HTML][HTML] Assessment of BOLD and GenBank–Their accuracy and reliability for the identification of biological materials
KA Meiklejohn, N Damaso, JM Robertson - PloS one, 2019 - journals.plos.org
Taxonomic identification of biological materials can be achieved through DNA barcoding,
where an unknown “barcode” sequence is compared to a reference database. In many …
where an unknown “barcode” sequence is compared to a reference database. In many …
[HTML][HTML] Validation of COI metabarcoding primers for terrestrial arthropods
Metabarcoding can rapidly determine the species composition of bulk samples and thus
aids biodiversity and ecosystem assessment. However, it is essential to use primer sets that …
aids biodiversity and ecosystem assessment. However, it is essential to use primer sets that …
A pile of pipelines: An overview of the bioinformatics software for metabarcoding data analyses
A Hakimzadeh, A Abdala Asbun… - Molecular Ecology …, 2024 - Wiley Online Library
Environmental DNA (eDNA) metabarcoding has gained growing attention as a strategy for
monitoring biodiversity in ecology. However, taxa identifications produced through …
monitoring biodiversity in ecology. However, taxa identifications produced through …
[HTML][HTML] Soundscapes and deep learning enable tracking biodiversity recovery in tropical forests
Tropical forest recovery is fundamental to addressing the intertwined climate and
biodiversity loss crises. While regenerating trees sequester carbon relatively quickly, the …
biodiversity loss crises. While regenerating trees sequester carbon relatively quickly, the …
[HTML][HTML] Over 2.5 million COI sequences in GenBank and growing
TM Porter, M Hajibabaei - PloS one, 2018 - journals.plos.org
The increasing popularity of cytochrome c oxidase subunit 1 (COI) DNA metabarcoding
warrants a careful look at the underlying reference databases used to make high-throughput …
warrants a careful look at the underlying reference databases used to make high-throughput …
PLANiTS: a curated sequence reference dataset for plant ITS DNA metabarcoding
DNA metabarcoding combines DNA barcoding with high-throughput sequencing to identify
different taxa within environmental communities. The ITS has already been proposed and …
different taxa within environmental communities. The ITS has already been proposed and …
[HTML][HTML] COI metabarcoding primer choice affects richness and recovery of indicator taxa in freshwater systems
Mixed community or environmental DNA marker gene sequencing has become a commonly
used technique for biodiversity analyses in freshwater systems. Many cytochrome c oxidase …
used technique for biodiversity analyses in freshwater systems. Many cytochrome c oxidase …