A5077607699- Aquaculture Nutrition and Growth
- Physiological and biochemical adaptations
- Marine Bivalve and Aquaculture Studies
- Environmental DNA in Biodiversity Studies
- Microbial Community Ecology and Physiology
- Fish Ecology and Management Studies
- Genetic diversity and population structure
- Aquaculture disease management and microbiota
- Aquatic Invertebrate Ecology and Behavior
- Genetic and phenotypic traits in livestock
- Protist diversity and phylogeny
- Parasite Biology and Host Interactions
- Animal Genetics and Reproduction
- Epigenetics and DNA Methylation
- Fish Biology and Ecology Studies
- Water Quality Monitoring Technologies
- Identification and Quantification in Food
- Fire Detection and Safety Systems
- Molecular Biology Techniques and Applications
- Effects of Environmental Stressors on Livestock
- Genetic and Clinical Aspects of Sex Determination and Chromosomal Abnormalities
- Species Distribution and Climate Change
- Reproductive biology and impacts on aquatic species
- Calcium Carbonate Crystallization and Inhibition
- Environmental Science and Water Management
Bangor University
2007-2025
Génétique Animale et Biologie Intégrative
2015-2024
AgroParisTech
2019-2023
Université Paris-Saclay
2017-2023
Institut National de Recherche pour l'Agriculture, l'Alimentation et l'Environnement
2014-2023
Département Génétique Animale
2016
Génétique, Diversité, Écophysiologie des Céréales
2014
Ifremer
2007-2010
Abstract The use of environmental DNA (eDNA) in biodiversity assessments offers a step-change sensitivity, throughput and simultaneous measures ecosystem diversity function. There remains, however, need to examine eDNA persistence the wild through temporal biota. Here, we metabarcoding two markers different lengths, derived from an annual time series aqueous lake shifts ecologically important group macroinvertebrates (Diptera: Chironomidae). analyses allow levels detection validation taxon...
Abstract Soil biota accounts for ~25% of global biodiversity and is vital to nutrient cycling primary production. There growing momentum study total belowground across large ecological scales understand how habitat soil properties shape communities. Microbial animal components communities follow divergent responses land use intensification; however, it unclear whether this extends heterogeneous ecosystems. Here, a national-scale metabarcoding analysis 436 locations 7 different temperate...
Abstract Assessing how natural environmental drivers affect biodiversity underpins our understanding of the relationships between complex biotic and ecological factors in ecosystems. Of all ecosystems, anthropogenically important estuaries represent a ‘melting pot’ stressors, typified by extreme salinity variations associated biological complexity. Although existing models attempt to predict macroorganismal diversity over estuarine gradients, attempts model microbial are limited for...
Eukaryotic diversity in environmental samples is often assessed via PCR-based amplification of nSSU genes. However, estimates derived from pyrosequencing data sets are inflated, mainly because the formation chimeric sequences during PCR amplification. Chimeras hybrid products composed distinct parental that can lead to misinterpretation estimates. We have analyzed effect sample richness, evenness and phylogenetic on chimeras using a set 454 Roche replicated, large control pools closely...
Abstract Standardised analysis pipelines are an important part of FAIR bioinformatics research. Over the last decade, there has been a notable shift from point-and-click pipeline solutions such as Galaxy towards command-line Nextflow and Snakemake. We report on recent developments in nf-core frameworks that have led to widespread adoption across many scientific communities. describe how adopting standards enables faster development, improved interoperability, collaboration with >8,000...
Understanding how biodiversity changes in time and space is vital to assess the effects of environmental change on benthic ecosystems. Due limitations morphological methods, there has been a rapid expansion application high-throughput sequencing methods study eukaryotic communities. However, effect sample size small-scale spatial variation assessment diversity still not well understood. Here, we investigate different volumes genetic metazoan non-metazoan community composition. Accordingly,...
ABSTRACT In metabarcoding studies, Linnaean taxonomy assignments of Operational Taxonomic Units (OTUs) or Amplicon Sequence Variants (ASVs) underpin many downstream bioinformatics analyses and ecological interpretations environmental DNA (eDNA) datasets. However, public molecular databases (i.e., SILVA, EUKARYOME, BOLD) for most microbial metazoan phyla (nematodes, tardigrades, kinorhynchs, etc.) are sparsely populated, negatively impacting our ability to assign ecologically meaningful these...
Selective breeding is a promising solution to reduce the vulnerability of fish farms heat waves, which are predicted increase in intensity and frequency. However, limited information about genetic architecture acute hyperthermia resistance available. Two batches sibs from rainbow trout commercial line were produced: first (N = 1382) was phenotyped for at nine months age second 1506) main production traits (growth, body length, muscle fat content carcass yield) 20 age. Fish genotyped on 57 K...
Summary In order to document further the phenomena of variance in reproductive success natural populations European flat oyster Ostrea edulis , two complementary studies based on and experimental were conducted. The first part this work was focused paternity analyses using a set four microsatellite markers for larvae collected from 13 brooding females sampled Quiberon Bay (Brittany, France). number individuals contributing as male parent each progeny assay highly variable, ranging 2 more...
Phenotypic plasticity is a key component of the ability organisms to respond changing environmental conditions. In this study, we aimed study establishment DNA methylation marks in response an stress rainbow trout and assess whether these depend on genetic background. The chosen here was temperature, known induction factor epigenetic fish. To disentangle role mechanisms such as generating phenotypic variations, nine isogenic lines with no variability within line were used. For each line,...
Bonamiosis is a parasitic disease (causative agent: Bonamia ostreae) affecting the European flat oyster Ostrea edulis, responsible for drastic decline in its aquaculture production. Selective breeding programs resistance to bonamiosis have been undertaken counter this disease. In present study, 6-month cohabitation challenge experiment was performed order transmit from wild oysters injected with parasite two tested families of (20 and 8-month old at beginning experiment, different genetic...
In teleost fish as in mammals, humoral adaptive immunity is based on B lymphocytes expressing highly diverse immunoglobulins (IG). During cell differentiation, IG loci are subjected to genomic rearrangements of V, D, and J genes, producing a unique antigen receptor expressed the surface each lymphocyte. course an immune response infections or immunizations, clones specific epitopes from immunogen expanded activated, leading production antibodies. Among fish, salmonids comprise key species...
Single nucleotide polymorphism (SNP) arrays, also named « SNP chips », enable very large numbers of individuals to be genotyped at a targeted set thousands genome-wide identified markers. We used preexisting variant datasets from USDA, French commercial line and 30X-coverage whole genome sequencing INRAE isogenic lines develop an Affymetrix 665 K array (HD chip) for rainbow trout. In total, we 32,372,492 SNPs that were polymorphic in the USDA or databases. A subset selected inclusion on...
This study presents the first genetic linkage map for European flat oyster Ostrea edulis. Two hundred and forty-six AFLP 20 microsatellite markers were genotyped in a three-generation pedigree comprising two grandparents, parents 92 progeny. Chi-square goodness-of-fit tests revealed high segregation distortion, which was significant 32.8% of markers. Sixteen microsatellites 235 AFLPs (170 type 1:1 65 3:1 AFLPs) used to build sex-specific maps using crimap software. The parental (P(1))...
Summary We report the construction of first genetic linkage map in blue mussel, Mytilus edulis . AFLP markers were used 86 full‐sib progeny from a controlled pair mating, applying double pseudo‐test cross strategy. Thirty‐six primer pairs generated 2354 peaks, which 791 (33.6%) polymorphic mapping family. Among those, 341 segregated through female parent, 296 male parent (type 1:1) and 154 both parents 3:1). Chi‐square goodness‐of‐fit tests revealed that 71% 73% type 1:1 3:1 respectively...
Mussels of the genus Mytilus are ecologically and commercially important worldwide, they form hybrid complexes where their distributions overlap. Allozyme nuclear markers have been used to investigate genetics over many years, but successful development reliable highly valuable microsatellite has lagged behind other shellfish species. We developed characterized ten novel loci that amplify reliably for blue mussel edulis. The number alleles among 30 individuals from a wild population (Menai...
MEPS Marine Ecology Progress Series Contact the journal Facebook Twitter RSS Mailing List Subscribe to our mailing list via Mailchimp HomeLatest VolumeAbout JournalEditorsTheme Sections 462:205-218 (2012) - DOI: https://doi.org/10.3354/meps09748 Identification of marine fish egg predators using molecular probes Clive J. Fox1,*, Martin I. Taylor2, Jeroen van der Kooij3, Natasha Taylor3, Stephen P. Milligan3, Aitor Albaina4, Sonia Pascoal2, Delphine Lallias2, Marjorie Maillard2, Ewan Hunter3...