postdoctoral position in neuroscience - Fernandez Lab @ CCHMC
Cincinnati Children's Hospital
See the full job description on jobRxiv: https://jobrxiv.org/job/cincinnati-childrens-hospital-27778-postdoctoral-position-in-neuroscience-fernandez-lab-cchmc/
#animalgenetics #neuroscience #visionscience #ScienceJobs #hiring #research
https://jobrxiv.org/job/cincinnati-childrens-hospital-27778-postdoctoral-position-in-neuroscience-fernandez-lab-cchmc/?fsp_sid=5583
postdoctoral position in neuroscience - Fernandez Lab @ CCHMC
Cincinnati Children's Hospital
See the full job description on jobRxiv: https://jobrxiv.org/job/cincinnati-childrens-hospital-27778-postdoctoral-position-in-neuroscience-fernandez-lab-cchmc/
#animalgenetics #neuroscience #visionscience #ScienceJobs #hiring #research
https://jobrxiv.org/job/cincinnati-childrens-hospital-27778-postdoctoral-position-in-neuroscience-fernandez-lab-cchmc/?fsp_sid=3966
postdoctoral position in neuroscience - Fernandez Lab @ CCHMC
Cincinnati Children's Hospital
See the full job description on jobRxiv: https://jobrxiv.org/job/cincinnati-childrens-hospital-27778-postdoctoral-position-in-neuroscience-fernandez-lab-cchmc/
#animalgenetics #neuroscience #visionscience #ScienceJobs #hiring #research
https://jobrxiv.org/job/cincinnati-childrens-hospital-27778-postdoctoral-position-in-neuroscience-fernandez-lab-cchmc/?fsp_sid=3175
#sicilia #sicily #happyisland #isolafelice #italy
#AsinoGrigioSiciliano #Pantalica #Recupero #Conservazione #Valorizzazione #RisorseGenetiche #Equini #Asinini #HeritageConservation #AnimalGenetics #CulturalHeritage #PreserveTradition #Biodiversity #AnimalWelfare #GeneticConservation #SicilianDonkey #EndangeredSpecies #AnimalRights
Asino Grigio Siciliano: oggi giornata divulgativa a Pantalica - Iblei News https://www.ibleinews.it/asino-grigio-siciliano-oggi-giornata-divulgativa-a-pantalica/
Come to Uppsala to work on dairy cattle quantitative genetics and genomics! #AnimalGenetics #AnimalBreeding #LivestockGenomics
Postdoc position, 24 months with possibility of extension, for a researcher with a PhD awarded no more than 3 years before the application date.
https://www.slu.se/en/about-slu/work-at-slu/jobs-vacancies/?rmpage=job&rmjob=10291&rmlang=UK
New paper on chromosomal variation within the PK15 cell line.
https://bmcgenomics.biomedcentral.com/articles/10.1186/s12864-023-09931-z
Background Cultured porcine cell lines are powerful tools for functional genomics and in vitro phenotypic testing of candidate causal variants. However, to be utilised for genomic or variant interrogation assays, the genome sequence and structure of cultured cell lines must be realised. In this work, we called variants and used read coverage in combination with within-sample allele frequency to detect potential aneuploidy in two immortalised porcine kidney epithelial (PK15) cell lines and in a pig embryonic fibroblast line. Results We compared two PK15 cultured cells samples: a new American Type Culture Collection (ATCC) sample and one that has been utilised and passaged within the laboratory for an extended period (> 10 years). Read coverage and within-sample allele frequencies showed that several chromosomes are fully or partially aneuploid in both PK15 lines, including potential trisomy of chromosome 4 and tetrasomy of chromosome 17. The older PK15 line showed evidence of additional structural variation and potentially clonal variation. By comparison, the pig embryonic fibroblast line was free from the gross aneuploidies seen in the PK15s. Conclusions Our results show that the PK15 cell lines examined have aneuploidies and complex structural variants in their genomes. We propose that screening for aneuploidy should be considered for cell lines, and discuss implications for livestock genomics.
Genetic markers associated with bone composition in Rhode Island Red laying hens
https://gsejournal.biomedcentral.com/articles/10.1186/s12711-023-00818-x
Background Bone damage has welfare and economic impacts on modern commercial poultry and is known as one of the major challenges in the poultry industry. Bone damage is particularly common in laying hens and is probably due to the physiological link between bone and the egg laying process. Previous studies identified and validated quantitative trait loci (QTL) for bone strength in White Leghorn laying hens based on several measurements, including bone composition measurements on the cortex and medulla of the tibia bone. In a previous pedigree-based analysis, bone composition measurements showed heritabilities ranging from 0.18 to 0.41 and moderate to strong genetic correlations with tibia strength and density. Bone composition was measured using infrared spectroscopy and thermogravimetry. The aim of this study was to combine these bone composition measurements with genotyping data via a genome-wide association study (GWAS) to investigate genetic markers that contribute to genetic variance in bone composition in Rhode Island Red laying hens. In addition, we investigated the genetic correlations between bone composition and bone strength. Results We found novel genetic markers that are significantly associated with cortical lipid, cortical mineral scattering, medullary organic matter, and medullary mineralization. Composition of the bone organic matter showed more significant associations than bone mineral composition. We also found interesting overlaps between the GWAS results for tibia composition traits, particularly for cortical lipid and tibia strength. Bone composition measurements by infrared spectroscopy showed more significant associations than thermogravimetry measurements. Based on the results of infrared spectroscopy, cortical lipid showed the highest genetic correlations with tibia density, which was negative (− 0.20 ± 0.04), followed by cortical CO3/PO4 (0.18 ± 0.04). Based on the results of thermogravimetry, medullary organic matter% and mineral% showed the highest genetic correlations with tibia density (− 0.25 ± 0.04 and 0.25 ± 0.04, respectively). Conclusions This study detected novel genetic associations for bone composition traits, particularly those involving organic matter, that could be used as a basis for further molecular genetic investigations. Tibia cortical lipids displayed the strongest genetic associations of all the composition measurements, including a significantly high genetic correlation with tibia density and strength. Our results also highlighted that cortical lipid may be a key measurement for further avian bone studies.
A genome-wide association study for loin depth and muscle pH in pigs from intensely selected purebred lines #AnimalGenetics #Genomics #AnimalScience
https://gsejournal.biomedcentral.com/articles/10.1186/s12711-023-00815-0
Background Genome-wide association studies (GWAS) aim at identifying genomic regions involved in phenotype expression, but identifying causative variants is difficult. Pig Combined Annotation Dependent Depletion (pCADD) scores provide a measure of the predicted consequences of genetic variants. Incorporating pCADD into the GWAS pipeline may help their identification. Our objective was to identify genomic regions associated with loin depth and muscle pH, and identify regions of interest for fine-mapping and further experimental work. Genotypes for ~ 40,000 single nucleotide morphisms (SNPs) were used to perform GWAS for these two traits, using de-regressed breeding values (dEBV) for 329,964 pigs from four commercial lines. Imputed sequence data was used to identify SNPs in strong ( $$\ge$$ ≥ 0.80) linkage disequilibrium with lead GWAS SNPs with the highest pCADD scores. Results Fifteen distinct regions were associated with loin depth and one with loin pH at genome-wide significance. Regions on chromosomes 1, 2, 5, 7, and 16, explained between 0.06 and 3.55% of the additive genetic variance and were strongly associated with loin depth. Only a small part of the additive genetic variance in muscle pH was attributed to SNPs. The results of our pCADD analysis suggests that high-scoring pCADD variants are enriched for missense mutations. Two close but distinct regions on SSC1 were associated with loin depth, and pCADD identified the previously identified missense variant within the MC4R gene for one of the lines. For loin pH, pCADD identified a synonymous variant in the RNF25 gene (SSC15) as the most likely candidate for the muscle pH association. The missense mutation in the PRKAG3 gene known to affect glycogen content was not prioritised by pCADD for loin pH. Conclusions For loin depth, we identified several strong candidate regions for further statistical fine-mapping that are supported in the literature, and two novel regions. For loin muscle pH, we identified one previously identified associated region. We found mixed evidence for the utility of pCADD as an extension of heuristic fine-mapping. The next step is to perform more sophisticated fine-mapping and expression quantitative trait loci (eQTL) analysis, and then interrogate candidate variants in vitro by perturbation-CRISPR assays.
RT @EuroFaang: 🗞️Press release!
👋Meet the #EuroFAANG project!
🧬Accelerating genome-to-phenome research for farmed animals in Europe is the goal we are working towards🐄🐖🐟
🔗Read it now: https://www.effab.info/news/eurofaang-research-infrastructure-project-is-on-track/
🇪🇺#AnimalGenetics #HorizonEU @FBNDummerstorf https://t.co/rVPCx68CFA
🐦🔗: https://n.respublicae.eu/CORDIS_EU/status/1667068207394353152
This first part of the EuroFAANG RI project aims to create the concept for a common infrastructure, data structure and service access policy in interaction with other research infrastructures, and establish the research frameworks and associated services to emphasise G2P research in European farmed animals.
Postdoc positions at our department at SLU. Come work with me (among others), do cool genomic prediction and population genomics research, mix data and models, in an animal genetics and breeding context. Apply at the link.
https://www.slu.se/en/about-slu/work-at-slu/jobs-vacancies/?rmpage=job&rmjob=8241&rmlang=UK
Posting this again. I appreciate help with spreading the news.
jobRxiv
frassati frassati
Martin Johnsson
EU Research Results