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Related Concept Videos

Background and Environment Affect Phenotype02:27

Background and Environment Affect Phenotype

Although the genetic makeup of an organism plays a major role in determining the phenotype, there are also several environmental factors, such as temperature, oxygen availability, presence of mutagens, that can alter an organism’s phenotype.
An example of how genetic background affects phenotype can be seen in horses. The Extension gene in horses is responsible for their coat color. A wild-type gene (EE) produces black pigment in the coat, while a mutant gene (ee) produces red pigment. A...
Epistasis01:39

Epistasis

In addition to multiple alleles at the same locus influencing traits, numerous genes or alleles at different locations may interact and influence phenotypes in a phenomenon called epistasis. For example, rabbit fur can be black or brown depending on whether the animal is homozygous dominant or heterozygous at a TYRP1 locus. However, if the rabbit is also homozygous recessive at a locus on the tyrosinase gene (TYR), it will have an unshaded coat that appears white, regardless of its TYRP1...
Polygenic Traits01:18

Polygenic Traits

When more than one gene is responsible for a given phenotype, the trait is considered polygenic. Human height is a polygenic trait. Studies have uncovered hundreds of loci that influence height, and there are believed to be many more. Due to the high number of genes involved, as well as environmental and nutritional factors, height varies significantly within a given population. The distribution of height forms a bell-shaped curve, with relatively few individuals in the population at the...
Polygenic Traits01:18

Polygenic Traits

When more than one gene is responsible for a given phenotype, the trait is considered polygenic. Human height is a polygenic trait. Studies have uncovered hundreds of loci that influence height, and there are believed to be many more. Due to the high number of genes involved, as well as environmental and nutritional factors, height varies significantly within a given population. The distribution of height forms a bell-shaped curve, with relatively few individuals in the population at the...
Multiple Allele Traits01:49

Multiple Allele Traits

The Concept of Multiple Allelism
X-linked Traits01:19

X-linked Traits

In most mammalian species, females have two X sex chromosomes and males have an X and Y. As a result, mutations on the X chromosome in females may be masked by the presence of a normal allele on the second X. In contrast, a mutation on the X chromosome in males more often causes observable biological defects, as there is no normal X to compensate. Trait variations arising from mutations on the X chromosome are called “X-linked”.

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Updated: May 27, 2026

Adipocyte-Specific ATAC-Seq with Adipose Tissues Using Fluorescence-Activated Nucleus Sorting
11:11

Adipocyte-Specific ATAC-Seq with Adipose Tissues Using Fluorescence-Activated Nucleus Sorting

Published on: March 17, 2023

Complex trait subtypes identification using transcriptome profiling reveals an interaction between two QTL affecting

Yuna Blum1, Guillaume Le Mignon, David Causeur

  • 1INRA, UMR598, Génétique Animale, IFR140 GFAS, 35000 Rennes, France.

BMC Genomics
|November 23, 2011
PubMed
Summary
This summary is machine-generated.

We developed a new method to identify interacting quantitative trait loci (QTL) for complex traits like abdominal fatness in chickens. This approach reveals previously hidden QTL by stratifying populations based on gene expression.

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Isolation of Preadipocytes from Broiler Chick Embryos
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Isolation of Preadipocytes from Broiler Chick Embryos

Published on: August 4, 2022

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Last Updated: May 27, 2026

Adipocyte-Specific ATAC-Seq with Adipose Tissues Using Fluorescence-Activated Nucleus Sorting
11:11

Adipocyte-Specific ATAC-Seq with Adipose Tissues Using Fluorescence-Activated Nucleus Sorting

Published on: March 17, 2023

Isolation of Preadipocytes from Broiler Chick Embryos
06:32

Isolation of Preadipocytes from Broiler Chick Embryos

Published on: August 4, 2022

Area of Science:

  • Genomics
  • Quantitative Trait Loci (QTL) analysis
  • Systems biology

Background:

  • Integrative genomics combines genotyping and transcriptome profiling to dissect complex traits.
  • Current methods include colocalizing eQTL with QTL or defining trait subtypes for QTL mapping.
  • Factor Analysis for Multiple Testing (FAMT) is introduced for more accurate subtype definition and QTL interaction discovery.

Purpose of the Study:

  • To introduce and apply Factor Analysis for Multiple Testing (FAMT) for improved subtype definition and QTL interaction detection.
  • To analyze hepatic transcriptome profiles in 45 half-sib chickens to study abdominal fatness (AF).
  • To investigate interactions between QTL affecting AF on chromosome 5.

Main Methods:

  • Utilized Factor Analysis for Multiple Testing (FAMT) on hepatic transcriptome data from 45 chickens.
  • Performed QTL mapping on identified AF trait subtypes.
  • Analyzed gene expression and genotype data to detect QTL and their interactions.

Main Results:

  • Identified 688 genes significantly correlated with the abdominal fatness (AF) trait.
  • Distinguished 5 AF trait subtypes, not observable with classical methods.
  • Discovered a novel QTL on chromosome 5 (100 cM) that interacts with a known distal QTL (168 cM), suggesting a hidden interaction effect.

Conclusions:

  • Stratifying genetic populations by molecular phenotypes enhances QTL analysis.
  • This approach can lead to the identification of novel and interacting QTL.
  • FAMT provides a powerful tool for uncovering complex genetic architectures.