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 …

COInr and mkCOInr: Building and customizing a nonredundant barcoding reference database from BOLD and NCBI using a semi‐automated pipeline

E Meglécz - Molecular Ecology Resources, 2023 - Wiley Online Library
Reference databases with wide taxonomic coverage are greatly needed in many fields of
biology, most particularly for the taxonomic assignment of metabarcoding sequences …

The ELIXIR Biodiversity Community: Understanding short-and long-term changes in biodiversity

RM Waterhouse, AF Adam-Blondon, B Balech… - …, 2024 - pmc.ncbi.nlm.nih.gov
Biodiversity loss is now recognised as one of the major challenges for humankind to
address over the next few decades. Unless major actions are taken, the sixth mass …

Integrative approach to monitoring metazoan diversity and distribution in two Mediterranean coastal sites through morphology and organismal eDNA

I Di Capua, F Luise, G Zampicinini, V Roncalli… - Scientific Reports, 2024 - nature.com
Marine and coastal ecosystems respond to climate change in various ways, such as the type
of ecosystem, the species composition, interactions, and distribution, and the effect of local …

Ecosystem transplant from a healthy reef boosts coral health at a degraded reef

N Levy, JA Marques, N Simon-Blecher… - Nature …, 2024 - nature.com
Organismal communities associated with coral reefs, particularly invertebrates and
microbes, play crucial roles in ecosystem maintenance and coral health. Here, we …

Hippocampus guttulatus diet based on DNA metabarcoding

L Tamara, B Fosso, B Bachir, C Giuseppe… - Frontiers in Marine …, 2023 - frontiersin.org
Seahorses are small sedentary fish considered flagship species of the conservation efforts.
They are particularly vulnerable to human pressures because inhabiting threatened coastal …

Availability and occurrence of coelenterazine in a Swedish fjord to maintain Amphiura filiformis bioluminescence

C Coubris, K Mirzaei, L Duchatelet, J Mallefet - Scientific Reports, 2024 - nature.com
The bioluminescent European brittle star Amphiura filiformis produces blue light at the arm-
spine level thanks to a biochemical reaction involving coelenterazine as substrate and a …

Filling knowledge gaps in insect conservation by leveraging genetic data from public archives

S Baini, A De Biase - Database, 2024 - academic.oup.com
Insect decline has become a growing concern in recent years, with studies showing
alarming declines in populations of several taxa. Our knowledge about genetic spatial …

COInr and mkCOInr: Building and customizing a non-redundant barcoding reference database from BOLD and NCBI using a lightweight pipeline

E Meglécz - bioRxiv, 2022 - biorxiv.org
The taxonomic assignment of metabarcoding data strongly depends on the taxonomic
coverage of the reference database. Therefore, it is fundamental to access and pool data …

Assessment of Hippocampus guttulatus diet using DNA metabarcoding of faeces

T Lazic, B Fosso, G Corriero, B Balech… - … on metrology for the …, 2022 - ieeexplore.ieee.org
Seahorses are small sedentary fish considered flagship species of the conservation efforts.
They are particularly vulnerable to human pressures because inhabiting threatened coastal …