Copy number variations (CNVs) are widespread in the human or animal genome and a significant source of genetic variation, which has been demonstrated to play an important role phenotypic diversity. Advances technology have allowed for identification large CNVs cattle. Comprehensive explore novel bovine would provide valuable information functional analyses structural variation facilitating follow-up association studies between complex traits variants.In this study, we performed genome-wide...

The prevalence of non-alcoholic fatty liver disease (NAFLD) is increasing annually, and emerging evidence suggests that the gut microbiota plays a causative role in development NAFLD. However, NAFLD remains unclear warrants further investigation. Thus, C57BL/6J mice were fed high-fat diet (HFD), we found HFD significantly induced obesity increased accumulation intrahepatic lipids, along with alterations serum biochemical parameters. Moreover, it was observed also impaired barrier integrity....

Mycotoxin-induced liver injury is often accompanied by oxidative stress (OS) and inflammation. This research aimed to explore the potential mechanism of sodium butyrate (NaBu) in modulating hepatic anti-oxidation anti-inflammation pathways deoxynivalenol (DON)-exposed piglets. The results show that DON induced injury, increased mononuclear cell infiltration, decreased serum total protein albumin concentrations. Transcriptomic analysis revealed reactive oxygen species (ROS) TNF-α were highly...

Genome wide association study (GWAS) has been proven to be a powerful tool for detecting genomic variants associated with complex traits. However, the specific genes and causal underlying these traits remain unclear. Here, we used target-enrichment strategy coupled next generation sequencing technique target regions which were found milk production in dairy cattle our previous GWAS. Among large amount of novel detected by targeted resequencing, selected 200 SNPs further population consisting...

A huge amount of evidence indicates that sirtuin 7 (SIRT7), a key mediator many cellular activities, plays crucial role in the pathogenesis various diseases. However, little is known about SIRT7 atherosclerosis. This study investigated potential regulating proliferation and migration human vascular smooth muscle cells (HAVSMCs) its possible molecular mechanism. In this study, were induced by oxidized low-density lipoprotein (ox-LDL) to establish atherosclerosis (AS) cell model....

Abstract Background Reproductive performance of livestock is an economically important aspect global food production. The Chinese Meishan pig a prolific breed, with average three to five more piglets per litter than European breeds; however, the genetic basis for this difference not well understood. Results In study, we investigated copy number variations (CNVs) 32 pigs and 29 Duroc by next-generation sequencing. A genome-wide analysis 61 revealed 12,668 variable regions (CNVRs) that were...

Summary The milk fat globule ( MFG ) is one of the most representative mammary gland tissues and can be utilized to study gene expression lactating cows during lactation. In this study, RNA ‐seq technology was employed detect differential genes in s at day 10 70 after calving between two groups with extremely high (H group) low (L 305‐day yield, yield protein yield. total, 1232, 81, 429 178 significantly differentially expressed (false discovery rate q < 0.05) were detected H10 L10, H70...

Copy number variations (CNVs) are important forms of genetic variation complementary to SNPs, and can be considered as promising markers for some phenotypic economically traits or diseases susceptibility in domestic animals. In the present study, we performed a genome-wide CNV identification 14 individuals selected from diverse populations, including six types Chinese indigenous breeds, one Asian wild boar population, well three modern commercial foreign breeds. We identified 63 CNVRs total,...

Copy number variations (CNVs) confer significant effects on genetic innovation and phenotypic variation. Previous CNV studies in swine seldom focused in-depth characterization of global CNVs. Using whole-genome assembly comparison (WGAC) shotgun sequence detection (WSSD) approaches by next generation sequencing (NGS), we probed formation signatures both segmental duplications (SDs) individualized CNVs an integrated fashion, building the finest resolution SD maps pigs so far. We obtained copy...

Abstract Complex traits with multiple phenotypic values changing over time are called longitudinal traits. In traditional genome-wide association studies (GWAS) for traits, a combined/averaged estimated breeding value (EBV) or deregressed proof (DRP) instead of measurements per se each individual was frequently treated as response variable in statistical model. This can result power losses even inflate false positive rates (FPRs) the detection due to failure exploring time-dependent...

Porcine epidemic diarrhea is an acute, highly contagious enteric viral disease severely affecting the pig industry, for which current vaccines are inefficient due to high variability of PEDV. Because PEDV infection can lead severe injury intestinal epithelial barrier, first line defense, a better understanding related mechanisms may facilitate development new strategies prevention and treatment PED.

Expressed sequence tag (EST)-derived microsatellite simple repeat (SSR) markers were developed in Vicia faba L. by screening the NCBI database. Markers validated and explored for size polymorphism among fava bean accessions.Twenty-one EST-SSR primer pairs identified, loci characterized polymorphic 32 genotypes from diverse geographical locations. The number of alleles (N(a)) per locus ranged 2 to 9, expected heterozygosity (H(E)) 0.0476 0.8304, respectively.These will be useful study genetic...

Abstract DNA methylation changes play essential roles in regulating the activities of genes involved immune responses. Understanding variable linked to responses may contribute identifying biologically promising epigenetic markers for pathogenesis diseases. Here, we generated genome-wide and transcriptomic profiles six pairs polyinosinic-polycytidylic acid-treated pig peripheral blood mononuclear cell (PBMC) samples corresponding controls using methylated immunoprecipitation sequencing RNA...

Copy number variations (CNVs) are important forms of genomic variation, and have attracted extensive attentions in humans as well domestic animals. In the study, using a custom-designed 2.1 M array comparative hybridization (aCGH), genome-wide CNVs were identified among 12 individuals from diverse pig breeds, including one Asian wild population, six Chinese indigenous breeds two modern commercial (Yorkshire Landrace), with individual other breed, Duroc, reference. A total 1,344 CNV regions...

Deoxynivalenol (DON) is a type of mycotoxin that disruptive to intestinal and immune systems. To better understand the molecular effects DON exposure, we performed genome-wide comparisons DNA methylation gene expression from porcine epithelial cell IPEC-J2 upon exposure using reduced representation bisulfite sequencing RNA-seq technologies. We characterized pattern changes found 3030 differentially methylated regions. Moreover, 3226 genes showing differential were enriched in pathways...

Long non‑coding RNAs (lncRNAs) have been discovered to participate in the progression of various types disease and may be a promising biomarker for atherosclerosis (AS). The present study aimed investigate regulatory mechanisms lncRNA, small nucleolar RNA host gene 7‑003 (SNHG7‑003), on proliferation, migration invasion vascular smooth muscle cells (VSMCs). VSMCs were first stimulated with oxidized low‑density lipoprotein (ox‑LDL) simulate AS high fat environment. expression levels...

Melatonin is an important endogenous hormone that shows antioxidant functions and pleiotropic effects, playing a crucial role in animal reproduction. Ovary granulosa cells (GCs) surround the oocyte, which play regulating oocytes development. Deoxynivalenol (DON) common fusarium mycotoxin contaminant of feedstuff food, posing serious threat to human reproductive systems. Herein, murine ovary GCs were studied as reproduction cell model, aimed assess protective effect melatonin on DON-induced...

Abstract Background Acute diarrhea, dehydration and death in piglets are all symptoms of transmissible gastroenteritis virus (TGEV), which results significant financial losses the pig industry. It is important to understand pathogenesis identify new antiviral targets by revealing metabolic interactions between TGEV host cells. Results We performed metabolomic transcriptomic analyses swine testicular cells infected with TGEV. A total 1339 differential metabolites 206 differentially expressed...

Abstract In this study, we performed a genome-wide SV detection among the genomes of thirteen pigs from diverse Chinese and European originated breeds by next genetation sequencing constrcuted single-nucleotide resolution map involving 56,930 putative SVs. We firstly identified hotspot spanning 35 Mb region on X chromosome specifically in individuals. Further scrutinizing large-scale data extra 111 individuals, obtained confirmatory evidence our initial finding. Moreover, thirty five...

Porcine epidemic diarrhea virus (PEDV) infection results in severe and the death of suckling pigs. Although new knowledge about pathogenesis PEDV has been improved, alterations metabolic processes functional regulators involved with host cells remain largely unknow. To identify cellular metabolites proteins related to pathogenesis, we synergistically investigated metabolome proteome profiles PEDV-infected porcine intestinal epithelial by liquid chromatography tandem mass spectrometry...