In a study published in Genetic Selection Evolution, researchers from the BIGE team (Génétique Animale et Biologie Intégrative - GABI, INRAE/AgroParisTech/UPSaclay, Jouy-en-Josas) have proposed a new model identifying the transmission of environmental effects based on the analysis of phenotypes and pedigrees.
The construction of a single reference genomic sequence for each species has made a major contribution to the analysis of the genome, its diversity and its functioning. But it gives an incomplete representation of the diversity of genomes within a species. By making it possible to produce longer sequence fragments, new sequencing technologies will enable us to go even further in our knowledge of the genomes of each species. INRAE researchers are taking part in the "Bovine Pangenome Consortium", a large-scale international collaboration whose aim is to produce a pangenome, i.e. a large set of high-quality, interconnected genomes, making it possible to describe the full genomic diversity of the species. The consortium's full objectives are described in an article published in the journal Genome Biology.
Published ahead of schedule on July 6, an article co-authored by researchers from UMR GABI, Eliance, UMR GenPhySE, Genotoul and Idele on the detection and characterization of interchromosomal rearrangements in cattle has had the honor of illustrating the cover of the issue of the scientific journal Genome Research in which it was published. The journal's editors decided to accept Jeanlin Jourdain's proposal!
On July 13, the LABEO Frank Duncombe Laboratory and INRAE in Caen signed a framework partnership agreement for research on equine genetics and health, and more generally on animal health and the environment. The Integrative Biology and Equine Genetics team (UMR GABI, INRAE Jouy) will develop its research projects within this framework, notably on equine influenza, genomic selection and "coup de sang" (myopathy) in racehorses. This collaboration will take on an international dimension from May 12 to 15, 2024, when the two laboratories will organize the 14th International Havemeyer Horse Genome Workshop, bringing together some 100 scientists at the Château de Caen.
The aim of this recently published work was to document the contribution of epigenetics to animal health and longevity.
In a study published in Genetics Selection Evolution, scientists from the UMR de Génétique Animale et Biologie Intégrative - GABI (INRAE/AgroParisTech/UPSaclay, Jouy-en-Josas) have described the genetic architecture of resistance to acute hyperthermia, i.e. the ability of fish to survive high temperatures. They have shown that 29% of performance variation in this trait is genetic in origin in a French commercial population, attesting to significant potential for genetic improvement. Genetic correlations of this trait with the main production traits - growth, % intramuscular fat and carcass yield - are close to zero. Selection for resistance to acute hyperthermia should therefore have no impact on these traits, and vice versa.
In cattle, like in all animals, genetic material is contained in pairs of chromosomes, each set of which is randomly distributed when gametes (spermatoza or ovocytes) are formed. During that process, genetic material from one chromosome sometimes gets shifted to another chromosome that is not part of the same pair, and this is known as interchromosomal rearrangement. Fertilisation with a gamete containing a one or more rearranged chromosomes will cause the embryo to have fewer or more genes than normal, which is, in most cases, fatal. For the first time, INRAE geneticists, in collaboration with colleagues from ELIANCE (French national livestock breeders federation), have conducted a population study (on 5571 insemination bulls) to quantify the frequency of such defects, their origins and the consequences they have on livestock. Their results, published in Genome Research, reveal that 1 bull in 450 may be a carrier of an interchromosomal rearrangement, whose consequences on the affected animals' health and fertility may cost the sector more than one million euros for each insemination sire that is a carrier. This study is based on the millions of genotyping data routinely generated for genomic evaluation of insemination bulls and their progeny (offspring). The approach used is the first step towards widespread screening for such chromosomal anomalies.
In cattle, as in other mammals, the genome is made up of several pairs of homologous chromosomes or autosomes (present in 29 pairs in cows) and a pair of sex chromosomes, X and Y. Females have two copies of the X chromosome, while males have one copy of each of the X and Y chromosomes. Females have 2 copies of the X chromosome, while males have one copy of each X and Y chromosome. Although it contains a large number of genes, the X chromosome is often overlooked in genomic studies, as it is present in only one copy in males. A team of INRAE and Eliance researchers from the Animal Genetics and Integrative Biology unit (GABI) has assessed the role of the X chromosome and the genes it harbors on key traits for the sustainability of cattle breeding. Their work, published in the journal BMC Genomics, reveals the importance of the X chromosome in the genetic determination of traits, and identifies the genes probably responsible for its effects.
The DGAT1 gene plays a major role in fat metabolism and triacylglyceride synthesis.
Teams from Ifremer and INRAE have just discovered two genes involved in resistance to nodavirosis, a disease that affects the brain of sea bass and causes major losses in Mediterranean fish farms. Following this discovery, published in the journal Genetics Selection Evolution, scientists and professionals from French sea bass hatcheries, which supply over 20% of the sea bass farmed in the Mediterranean (Italy, Greece, Turkey...), have launched a new project to select sea bass that are more resistant to this disease. This is a major challenge if we are to move towards more sustainable aquaculture.
In a study published in Microbes & Infection, researchers from the Infection et Immunité des Poissons team (Virologie et Immunologie Moléculaires - VIM unit, INRAE/UVSQ/UPSaclay, Jouy-en-Josas), in collaboration with INRAE's GABI and IERP units, have established a set of phenotypes linked to pathogenesis through the characterization of a collection of isogenic trout lines with contrasting resistance. Guided by the 3Rs principle, individual monitoring by non-lethal blood sampling has been applied for the first time in trout to monitor bacterial infection and host response; this approach makes it possible both to reduce the number of fish used and to increase the power of the experimental set-up.
This thesis will contribute to the production of knowledge that will make it possible to support the change of practices, in particular in terms of integrated management of health and well-being in free-range poultry farms.
Genetic diversity is the genetic variability between individuals in the same population or between populations. In the case of livestock, breeds are often equated with populations, and the diversity they contain is essential for their evolution and adaptation. However, breeding is about selecting the best individuals and therefore does not maintain the full diversity of animals. However, it is possible to freeze semen from bulls to preserve it and potentially use it later.
Funded by the European project H2020 GERONIMO, the thesis project proposes to study the genetic and spatial epigenetic structure of at least 16 local European chicken breeds and their determinants.
The many local breeds of French chickens constitute an important reservoir of neutral and adaptive diversity. They are generally free-range and territory-associated, and thus potentially adapted to a wide range of environmental conditions, which can be useful for coping with global warming and making the agroecological transition.
This project will contribute to establishing clear guidelines for the simulation of realistic hologenomic data, the construction of microbiota-based similarity matrices, and the optimal combination of genomic, microbiota, and multi-omics data in a wide variety of scenarios.
Her PhD project englobes a research project at the interface of different fields of study, since it is applied to a current biological question raised at INRAE concerning bull fertility. Her presentation was focused on copula methods for network inference of multi-omics regulation.
The FarmGenomic project is aimed at exploring "How the high-throughput genomic era can be used to answer our questions on the evolution of chickens?".
Her PhD dissertation entitled "The mammary gland: Role of SOCS2 in its development and impact of inflammation during successive lactations" was carried out under the supervision of Fabienne Le Provost within the GABI unit.
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