Alireza EhsaniTarbiat Modares University | TMU · Department of Animal Science
Alireza Ehsani
PhD
About
42
Publications
5,418
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155
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Citations since 2017
Introduction
Alireza Ehsani currently works at the Department of Animal Science, Tarbiat Modares University. Alireza does research in Bioinformatics, Genetics and Biostatistics. Their current project is 'genome wide association study on immunity traits, RFI in chicken, statistical modeling to improve prediction of breeding values '.
Additional affiliations
September 2013 - present
May 2012 - September 2012
May 2012 - September 2012
Publications
Publications (42)
Improving the immune system is one of the important goals of breeding in the poultry industry. For a
successful breeding, identifying the genomic regions and biological pathways that contribute to
explaining variability in these traits is of great importance. In this study genome wide-association study
(GWAS) and pathway-based analyses of immune re...
Ovulation rate and litter size are the main reproductive traits with high economic value in the sheep breeding industry. In this study, three Shal ewes (multiparous) and three Sangsari ewes (uniparous) at the age of 5 were used. The live weight was between 45 and 50 kg at extremely body condition score of 3. These breeds are marked seasonal reprodu...
Background:
The ovary has an important role in reproductive function. Animal reproduction is dominated by numerous coding genes and noncoding elements. Although long noncoding RNAs (LncRNAs) are important in biological activity, little is known about their role in the ovary and fertility.
Methods:
Three adult ewes Shal and three adult ewes Sangs...
Heat stress is a serious problem in the poultry industry. An effective tool for improving heat tolerance can be genomic selection based on single nucleotide polymorphisms. This study was performed to identify genomic regions controlling survivability to heat stress in a population of F2 chickens that accidentally experienced acute heat stress, usin...
Inconsistent results about the effects of free-range and conventional systems on economic carcase characteristics and the chemical composition of chicken meat have been reported. Free-range chicken meat has been presumably known as more nutritious and healthier than conventionally meat products so it has become highly present in the marketplace. In...
Plumage color can be considered as a social signal in chickens and a breeding identification tool among breeders. The relationship between plumage color and trait groups of immunity, growth and fertility is still a controversial issue. This research aimed to determine the genome-wide additive and epistatic variants affecting plumage color variation...
Bayes Cp methodology due to the simultaneous use of all SNPs in a random regression model is an alternative to overcome the overestimation of SNPs effects and excess of false positives.
Hence, the present study was performed to identify causal single nucleotide polymorphisms (SNPs) associated with body weight (BW) and their pattern of significance...
Plumage color is a conspicuous social signal in chickens. There are complex relationships among plumage color with body weight, fertility, immunity traits, and resistance. In this research, epistatic association studies were carried out to identify epistatic genomic variants associated with plumage color in chicken using chicken 60k high-density si...
Alternative chicken production systems have become popular in recent years due to animal welfare criteria and consumer's perceptions. General beliefs express that the meat quality of chicken reared under free-range systems is better than that of chickens under conventional production conditions. The aim of this study was to compare the meat quality...
Background and Aim: Abstract: Inferring genetic architecture of quantitative traits is the most dynamic era in genetics studies. Since Fisher's infinitesimal model cannot support the underlying genetic architecture of all traits in all situations and in the other hand, genome-wide association results based on the finite loci model couldn't sufficie...
In order to find SNPs and genes affecting shank traits, we performed a GWAS in a chicken F2 population of eight half‐sib families from five hatches derived from reciprocal crosses between an Arian fast‐growing line and an Urmia indigenous slow‐growing chicken. A total of 308 birds were genotyped using a 60K chicken SNP chip. Shank traits including...
Genomic markers play an important role in tracing the flow of genetic causality of observable signals in animals and plants. In farm animals, the participation of male animals in the gene pool of subsequent generations are much higher than female animals and testes are the most important organs of the male reproductive system. This study was conduc...
In recent years, metabolomics has been used to clarify the biology underlying biological samples. In the field of animal breeding, investigating the magnitude of genetic control on the metabolomic profiles of animals and their relationships with quantitative traits adds valuable information to animal improvement schemes. In this study, we analyzed...
The importance of ascites in the poultry industry warrants a comprehensive systematic review and in-silico modelling to explain responses seen in previous studies in this field. By identifying the genes which are effective and relevant to different indicator traits of ascites in poultry, genes were separated base on chromosomes to determine the mos...
Related Genes to Ascite Metabolic Disorder in Broiler (In-silico Modelling)
The UCP gene is involved in lipid metabolism that belongs to a family of mitochondrial anionic transducers. In the birds, a particular type of UCP gene has recently been identified. The aim of this study was to investigate the evolutionary and phylogenetic relationship between avian UCP with12different mammalian species. In order to investigate the...
Immunity-related traits are heritable in chicken, therefore, it is possible to improve the inherent immunity by breeding programs. In this study using the Illumina chicken 60K single nucleotide polymorphisms (SNPs) chip, we performed a set of genome-wide association studies to determine candidate genes and loci responsible for primary and secondary...
Meta-analysis is actually an analysis of analyzes that combines previous
information for giving them a weighted coefficient to be compared and reevaluates the results, providing an opportunity to make an explicit judgment that
inevitably influences the conclusions of any summary of research to increase the
power of the test and to achieve a unified...
Persistence of the semen quality and sperm function is one of the important factors in flock fertility preservation. The aim of this study was to assess the trends of semen and sperm parameters in selected cocks with superior and inferior sperm motility from Iranian native and Arian commercial line. Roosters were grouped into high (HML) and low mot...
• In order to identify loci associated with metabolic traits, a genome-wide association study (GWAS) was carried out in a chicken F2 population derived from a reciprocal cross between Iranian Uromia indigenous chickens and Arian broiler line using Illumina 60K Chicken SNP Beadchip.
• Six traits including plasma level of triglycerides (TG), choleste...
Feed efficiency traits (FETs) are important economic indicators in poultry production. Because feed intake (FI) is a time-dependent variable, longitudinal models can provide insights into the genetic basis of FET variation over time. It is expected that the application of longitudinal models as part of genome-wide association (GWA) and genomic sele...
Feed represent about 70% of the total costs in poultry production. These costs can be reduced by improving feed efficiency through genetic selection. Selection for improving feed efficiency may have correlated effects on other economically important traits such as carcass composition and meat quality. Therefore, the aim of the present study was to...
Whole blood stimulation assay (WBA) has been widely used to study production of the pro-inflammatory cytokine, tumor necrosis factor-alpha (TNF-α) and is considered a relatively good predictor for the in vivo release of TNF-α during endotoximia in dairy cattle. However, it requires a standardized and optimized dose of lipopolysaccharides (LPS) to s...
Cell-mediated immunity (CMI) causes the intracellular destruction of the antigen or elimination of the host cell to make animals resistant against exogenous antigens and cancers. In this study, a genome-wide association study (GWAS) was carried out to identify genomic regions associated with CMI in chicken using chicken 60k high-density single nucl...
A commonly used procedure in genome-wide association (GWA), genome-wide expression (GWE) and expression quantitative trait locus (eQTL) analyses is based on a bottom-up experimental approach that attempts to individually associate molecular variants with complex traits. Top-down modeling of the entire set of genomic data and partitioning of the ove...
Molecular data on several species of trichodorids occurring in Iran are provided. Live specimens of two species, Trichodorus arasbaranensis and T. gilanensis, were collected from their type localities. One population of T. orientalis was collected from Arasbaran forests in Eastern Azarbayjan province. The species Paratrichodorus porosus, occurring...
The aim of this study was to evaluate productive, metabolic and ovarian responses of different timing to start lipogenic diet in dairy cows. Thirty-six multiparous cows were assigned randomly to 1 of 3 treatments in a completely randomized design. All cows were fed a similar glucogenic diet, 21 days before expected calving date. After parturition,...
Background
To understand the genetic architecture of complex traits and bridge the genotype-phenotype gap, it is useful to study intermediate -omics data, e.g. the transcriptome. The present study introduces a method for simultaneous quantification of the contributions from single nucleotide polymorphisms (SNPs) and transcript abundances in explain...
Figure S3. Distribution of phenotypes of traits Body Weight including 440 animals, Feed Intake and Feed Efficiency including 337 animals each.
Figure S1. Decomposition of the proportion of variance explained by SNPs at the level of chromosomes and individual SNPs in two models: the independent model SNP and the conditional model SNP+GEX for Feed Intake. (a) explained variances from SNPs in SNP model (black) and SNP+GEX model (white) in each chromosome. (b) explained variance by individual...
Figure S2. Decomposition of the proportion of variance explained by SNPs at the level of chromosomes and individual SNPs in two models: the independent model SNP and the conditional model SNP+GEX for Feed Efficiency. (a) explained variances from SNPs in SNP model (black) and SNP+GEX model (white) in each chromosome. (b) explained variance by indivi...
Figure S4. Comparison of predicted breeding values versus phenotypes in the models using pedigree information only (PED), SNPs information only (SNP) and gene expression information only (GEX) for three traits Body Weight, Feed Intake and Feed Efficiency according to correlation shown in Table
3.
Projects
Projects (4)
1- Assessment of the growth curve
2- Water intake requirement Modelling
3- Investigation of the effect of plumage color on the growth rate
The main purpose of genetics is to recognize the association of genetic and phenotypic variation. Fisher's model states that there is an infinite genetic factors affecting the phenotype. By identifying that the genes are not infinite, researchers have sought to examine the finite loci affecting quantitative traits using genome-wide association studies, and this goal was achieved, but the significant genes in GWAS were only able to explain a small proportion of heritability, so this method was faced with the missing heritability mystry. Recently, researchers have suggested that the Omnigenic model can explain the missing heritability by common variants. In this study, using different phenotypic data and genomic data, trying to test the Omnigenic model to explain the missing genetic variance.
