A5007514210- Genetic and phenotypic traits in livestock
- Genetic Mapping and Diversity in Plants and Animals
- Animal Nutrition and Physiology
- Livestock and Poultry Management
- Genetic diversity and population structure
- Plant Molecular Biology Research
- Genetics and Plant Breeding
- Animal Virus Infections Studies
- Molecular Biology Techniques and Applications
- Effects of Environmental Stressors on Livestock
- Microbial infections and disease research
- Viral Infectious Diseases and Gene Expression in Insects
- T-cell and B-cell Immunology
- Plant Gene Expression Analysis
- melanin and skin pigmentation
- interferon and immune responses
- Infant Nutrition and Health
- Plant nutrient uptake and metabolism
- Identification and Quantification in Food
- RNA modifications and cancer
- Plant Reproductive Biology
- vaccines and immunoinformatics approaches
- Agriculture and Biological Studies
- Monoclonal and Polyclonal Antibodies Research
- Pancreatic function and diabetes
Huazhong Agricultural University
2011-2025
Ministry of Education of the People's Republic of China
2024
China Agricultural University
2013-2020
Swedish University of Agricultural Sciences
2013-2017
Ning Li and colleagues report the whole-genome sequence of duck, Anas platyrhynchos, a natural host avian influenza viruses. They examine response to infection by comparing lung transcriptomes ducks that were infected with A The duck (Anas platyrhynchos) is one principal hosts We present genome perform deep transcriptome analyses investigate immune-related genes. Our data indicate possesses contractive immune gene repertoire, as in chicken zebra finch, this repertoire has been shaped through...
As Arabidopsis thaliana has colonized a wide range of habitats across the world it is an attractive model for studying genetic mechanisms underlying environmental adaptation. Here, we used public data from two collections A. accessions to associate variability at individual loci with differences in climates sampling sites. We use novel method screen genome plastic alleles that tolerate broader climate than major allele. This approach reduces confounding population structure and increases...
Abstract Background In Tibet, the two most important breeds are Tibetan chicken and Lhasa white chicken, duo exhibit specific adaptations to high altitude thereby supplying proteins for humans living in plateau. These partly included conservation plans because they represent genetic resources. However, diversity of these chickens is rarely investigated. Based on whole-genome sequencing data 113 from 4 populations including Shigatse (SH), Nyemo (NM), Dagze (DZ) Nyingchi (LZ), as well (LW)...
Abstract Background In China, consumers often prefer indigenous broiler chickens over commercial breeds, as they have characteristic meat qualities requested within traditional culinary customs. However, the growth-rate of these breeds is slower than that broilers, which means not yet reached their full economic value. Therefore, combining valuable quality native with efficiency broilers interest. this study, we generated an F 2 intercross between slow growing breed, Huiyang Beard chicken,...
Artificial selection provides a powerful approach to study the genetics of adaptation. Using selective-sweep mapping, it is possible identify genomic regions where allele-frequencies have diverged during selection. To avoid false positive signatures selection, necessary show that sweep affects selected trait before can be considered adaptive. Here, we confirm candidate, genome-wide distributed selective sweeps originating from standing genetic variation in long-term experiment on high and...
Muffs and beard (Mb) is a phenotype in chickens where groups of elongated feathers gather from both sides the face (muffs) below beak (beard). It an autosomal, incomplete dominant encoded by locus. Here we use genome-wide association (GWA) analysis, linkage Identity-by-Descent (IBD) mapping, array-CGH, genome re-sequencing expression analysis to show that Mb allele causing derived complex structural variation (SV) on GGA27 leads altered gene HOXB8. This was shown be completely associated...
Abstract Chickens are a crucial source of protein for humans and popular model animal bird research. Despite the emergence imputation as reliable genotyping strategy large populations, lack high-quality chicken reference panel has hindered progress in genome To address this, here we introduce first phase 100K Global Chicken Reference Panel (100K GCRP). Currently, two panels available: comprehensive mix (CMP) domestication diversity research commercial breed (CBP) breeding broilers...
The ability of a population to adapt changes in their living conditions, whether nature or captivity, often depends on polymorphisms multiple genes across the genome. In-depth studies such polygenic adaptations are difficult natural populations, but can be approached using resources provided by artificial selection experiments. Here, we dissect genetic mechanisms involved long-term responses Virginia chicken lines, populations that after 40 generations divergent for 56-day body weight...
In depth studies of quantitative trait loci (QTL) can provide insights to the genetic architectures complex traits. A major effect QTL at distal end chicken chromosome 1 has been associated with growth traits in multiple populations. This locus was fine-mapped a fifteen-generation advanced intercross population including 1119 birds and explored further detail using 222 sequenced genomes from 10 high/low body weight stocks. We detected this that, total, contributed 14.4% variance for growth....
Tibetan chicken is one of the most common and widely distributed highland breeds, often used as a model organism for understanding genetic adaptation to extreme environments in Tibet. Despite its apparent geographical diversity large variations plumage patterns, differences within breed were not accounted studies have been systematically investigated. In order reveal genetically differentiate current existing TBC sub-populations that might major implications genomic research TBCs, we...
Long-term selection experiments provide a powerful approach to gain empirical insights into adaptation, allowing researchers uncover the targets of and infer their contributions mode tempo adaptation. Here we implement pooled genome re-sequencing investigate consequences 39 generations bidirectional in White Leghorn chickens on humoral immune trait: antibody response sheep red blood cells.We observed wide involvement this regime. Many genomic regions were highly differentiated resulting from...
Chicken plumage color is an important economical trait in poultry breeding, as triple-yellow indigenous broilers are preferred over western commercial the Chinese market. However, studies on pigmentation of coloration relatively rare at present. Here, we performed a genome-wide mapping study F2 intercross, whose 2 founders were one hybrid line "High Quality chicken Line A" that originated from Anak red and "Huiyang Beard" classical "triple-yellow" breed. Moreover, used automatic colorimeter...
As Arabidopsis thaliana has colonized a wide range of habitats across the world it is an attractive model for studying genetic mechanisms underlying environmental adaptation. Here, we used public data from two collections A. accessions to associate variability at individual loci with differences in climates sampling sites. We use novel method screen genome plastic alleles that tolerate broader climate than major allele. This approach reduces confounding population structure and increases...
Body weight is one of the most important economic traits for animal production and breeding, it has been studied extensively its phenotype-genotype associations. While mapping studies have mostly aimed at finding as many loci possible that contributed to variation in body weight, role other factors genetic architecture, including their frequencies population interactions, largely overlooked. To comprehensively characterized architecture we performed a Genome-wide association study (GWAS)...
Poultry products are an important source of Salmonella enterica. An effective way to reduce food poisoning due would be breed chickens more resistant infection. Unfortunately host responses complex with many factors involved. To learn about in young 2 wk old, a cDNA Microarray containing 13,319 probes was performed compare gene expression profiles between two chicken groups under control and infected conditions. Newly hatched were orally S. enterica serovar Enteritidis. Since the intestine...
Cloned calves produced by somatic cell nuclear transfer frequently suffer alveolar collapse as newborns. To study the underlying pathophysiological mechanisms responsible for this phenomenon, expression profiles of numerous genes involved in lung development need to be investigated. Quantitative real-time PCR is commonly adopted gene analysis. However, selection an appropriate reference normalization critical obtaining reliable and accurate results. Seven housekeeping genes—β-glucuronidase...
Abstract MAPfastR is a software package developed to analyze quantitative trait loci data from inbred and outbred line-crosses. The includes number of modules for fast accurate analyses. It has been in the R language comprehensive analyses large datasets. freely available at: http://www.computationalgenetics.se/?page_id=7
In recent years, a mass of duplicated and deleted DNA sequences have been found in human animal genomes following the prevalence employing high-throughput sequencing SNP array. However, few copy number variation (CNV) studies performed on egg performance traits chicken. this study, 17 loci reported previous were selected for CNV detection Xinhua E-strain by using CNVplex kit, results showed that locus14 exhibited CNV. Further association analysis indicated copies could be significantly...
Understanding the genetic mechanism of highland adaptation is great importance for breeding improvement Tibetan chickens (TBC). Some studies TBC have identified some candidate genes and pathways from multiple subgroups, but related mechanisms remain largely unknown. Different backgrounds independent basis make it difficult to identity selective region with all samples. In this study, we conducted pre-analysis in a large-scale population select subgroup purest highest level highland-specific...
Automatically identifying abnormal behaviors of caged laying hens in a thermal environment improves manual management efficiency. It also provides reference indicators for breeding heat-tolerant hens. In this study, we propose deep learning-based method automatic recognition and evaluation typical heat stress We developed lightweight object detection algorithm, YOLO-HGP, based on the YOLOv8n as baseline model. YOLO-HGP achieves Precision (P), Recall (R), mean average precision (mAP) 98.14%,...
Abstract Artificial selection has, for decades, provided a powerful approach to study the genetics of adaptation. Using selective-sweep mapping, it is possible identify genomic regions in populations where allele-frequencies have diverged during selection. To avoid misleading signatures selection, necessary show that sweep has an effect on selected trait before can be considered adaptive. Here, we confirm candidate selective-sweeps genome-wide scale one longest, on-going bi-directional...
Abstract Long-term selection experiments provide a powerful approach to gain empirical insights into adaptation. They allow researchers uncover the targets of and how these contribute mode tempo Here we report results from pooled genome re-sequencing study investigate consequences 39 generations bidirectional in White Leghorn chickens on humoral immune trait: antibody response sheep red blood cells. We observed wide involvement this regime, with over 200 candidate sweep regions characterised...