Related Experiment Video
Updated: Jun 7, 2025
09:40
Identification of Coding and Non-coding RNA Classes Expressed in Swine Whole Blood
Published on: November 28, 2018
7.3K
Pangenome Reveals Gene Content Variations and Structural Variants Contributing to Pig Characteristics
Heng Du1, Yue Zhuo1, Shiyu Lu1
1State Key Laboratory of Animal Biotech Breeding, College of Animal Science and Technology, China Agricultural University, Beijing 100193, China.
Genomics, Proteomics & Bioinformatics
|November 13, 2024
Summary
Researchers created a pig pangenome and variation map from 599 genomes, identifying over 546,000 structural variants (SVs). This resource aids understanding of pig genetics and traits, complementing single nucleotide polymorphism studies.
Area of Science:
- Genomics
- Animal Genetics
- Comparative Genomics
Background:
- Pigs are vital protein sources.
- Structural variants (SVs) are key genetic variations, but pig reference genomes limit SV analysis.
- Accurate SV mapping is crucial for understanding pig traits and evolution.
Purpose of the Study:
- To construct a comprehensive pig pangenome and genome variation map.
- To identify and characterize structural variants (SVs) across Eurasian pig populations.
- To explore the evolutionary conservation of genes and the impact of SVs on pig traits.
Main Methods:
- Sequencing of 599 deeply sequenced pig genomes across Eurasia.
- Pangenome construction and genome variation mapping.
- Identification and analysis of structural variants (SVs) and their genomic relationships.
Main Results:
- A pig pangenome and genome variation map of 599 genomes were generated.
- 546,137 structural variants (SVs) were identified, revealing significant divergence across Eurasian pigs.
- An insertion in the TBX19 gene promoter was linked to Asian pig traits, potentially affecting gene expression.
Conclusions:
- The pig pangenome and SV map provide valuable resources for functional genomic research.
- Pangenome-detected SVs complement traditional genetic studies, enhancing heritability estimates and GWAS.
- Identified SVs offer insights into pig domestication, trait development, and evolutionary divergence.
Related Concept Videos
02:26Comparing Copy Number Variations and SNPs
17.3K
Sequencing of the human genome has opened up several best-kept secrets of the genome. Scientists have identified thousands of genome variations that exist within a population. These variations can be a single nucleotide or a larger chromosomal variation.
Copy number variations or CNVs are the structural variations that cover more than 1kb of DNA sequence. The single nucleotide polymorphism (SNP), on the other hand, is a single nucleotide change or a point mutation that is found in more than 1%...
Copy number variations or CNVs are the structural variations that cover more than 1kb of DNA sequence. The single nucleotide polymorphism (SNP), on the other hand, is a single nucleotide change or a point mutation that is found in more than 1%...
17.3K
01:05Single Nucleotide Polymorphisms-SNPs
14.1K
A single nucleotide polymorphism or SNP is a single nucleotide variation at a specific genomic position in a large population. It is the most prevalent type of sequence variation found in the human genome. Point mutations that occur in more than 1% of the population qualify as SNPs. These are present once every 1000 nucleotides on an average in the human genome. Replacement of a purine with another purine (A/G) or a pyrimidine with another pyrimidine (C/T) is known as a transition. In contrast,...
14.1K
02:02Genomics
36.0K
Genomics is the science of genomes: it is the study of all the genetic material of an organism. In humans, the genome consists of information carried in 23 pairs of chromosomes in the nucleus, as well as mitochondrial DNA. In genomics, both coding and non-coding DNA is sequenced and analyzed. Genomics allows a better understanding of all living things, their evolution, and their diversity. It has a myriad of uses: for example, to build phylogenetic trees, to improve productivity and...
36.0K
02:51Multi-species Conserved Sequences
3.9K
Next-generation sequencing technologies have created large genomic databases of a variety of animals and plants. Ever since the human genome project was completed, scientists studied the genome of primates, mammals, and other phylogenetically distant living beings. Such large-scale studies have provided new insights into the evolutionary relationship between organisms.
Although the genome of each species varies greatly from each other, a few sequences are highly conserved. Such conserved...
Although the genome of each species varies greatly from each other, a few sequences are highly conserved. Such conserved...
3.9K
01:43Incomplete Dominance
21.6K
Gregor Mendel's work (1822 - 1884) was primarily focused on pea plants. Through his initial experiments, he determined that every gene in a diploid cell has two variants called alleles inherited from each parent. He suggested that amongst these two alleles, one allele is dominant in character and the other recessive. The combination of alleles determines the phenotype of a gene in an organism.
21.6K
03:21Genome Size and the Evolution of New Genes
7.9K
While every living organism has a genome of some kind (be it RNA, or DNA), there is considerable variation in the sizes of these blueprints. One major factor that impacts genome size is whether the organism is prokaryotic or eukaryotic. In prokaryotes, the genome contains little to no non-coding sequence, such that genes are tightly clustered in groups or operons sequentially along the chromosome. Conversely, the genes in eukaryotes are punctuated by long stretches of non-coding sequence.
7.9K