Accurate haplotype construction and detection of selection signatures enabled by high quality pig genome sequences

X Tong, D Chen, J Hu, S Lin, Z Ling, H Ai… - Nature …, 2023 - nature.com
High-quality whole-genome resequencing in large-scale pig populations with pedigree
structure and multiple breeds would enable accurate construction of haplotype and robust …

Revisiting the Evolutionary History of Pigs via De Novo Mutation Rate Estimation in a Three-Generation Pedigree

M Zhang, Q Yang, H Ai, L Huang - Genomics, Proteomics & …, 2022 - academic.oup.com
The mutation rate used in the previous analyses of pig evolution and demographics was
cursory and hence invited potential bias in inferring evolutionary history. Herein, we …

The 1000 Chinese Indigenous Pig Genomes Project provides insights into the genomic architecture of pigs

H Du, L Zhou, Z Liu, Y Zhuo, M Zhang, Q Huang… - Nature …, 2024 - nature.com
Pigs play a central role in human livelihoods in China, but a lack of systematic large-scale
whole-genome sequencing of Chinese domestic pigs has hindered genetic studies. Here …

[HTML][HTML] Characterizing structural variants based on graph-genotyping provides insights into pig domestication and local adaption

X Li, Q Liu, C Fu, M Li, C Li, X Li, S Zhao… - Journal of Genetics and …, 2024 - Elsevier
Structural variants (SVs), such as deletions (DELs) and insertions (INSs), contribute
substantially to pig genetic diversity and phenotypic variation. Using a library of SVs …

[HTML][HTML] Scan of the endogenous retrovirus sequences across the swine genome and survey of their copy number variation and sequence diversity among various …

JQ Chen, MP Zhang, XK Tong, JQ Li, Z Zhang… - Zoological …, 2022 - ncbi.nlm.nih.gov
In pig-to-human xenotransplantation, the transmission risk of porcine endogenous
retroviruses (PERVs) is of great concern. However, the distribution of PERVs in pig …

Copy number variation of horse Y chromosome genes in normal equine populations and in horses with abnormal sex development and subfertility: relationship of …

C Castaneda, L Radović, S Felkel, R Juras, BW Davis… - G3, 2022 - academic.oup.com
Structural rearrangements like copy number variations in the male-specific Y chromosome
have been associated with male fertility phenotypes in human and mouse but have been …

Construction of the porcine genome mobile element variations and investigation of its role in population diversity and gene expression

J Hu, L Gui, Z Wu, L Huang - Journal of Animal Science and …, 2024 - Springer
Mobile element variants (MEVs) have a significant and complex impact on genomic diversity
and phenotypic traits. However, the quantity, distribution, and relationship with gene …

Population genetics reveals new introgression in the nucleus herd of min pigs

T Liu, D Ji, X Li, J Liu, F Xu, Z Miao, Y Chang, M Tian… - Genes & Genomics, 2024 - Springer
Objective Min pigs are a unique genetic resource among local pig breeds in China. They
have more excellent characteristics in cold and stress resistance, good meat quality, and a …

A chromosome-level genome of Chenghua pig provides new insights into the domestication and local adaptation of pigs

Y Wang, Y Gou, R Yuan, Q Zou, X Zhang… - International Journal of …, 2024 - Elsevier
As a country with abundant genetic resources of pigs, the domestication history of pigs in
China and the adaptive evolution of Chinese pig breeds at different latitudes have rarely …

Evolutionary insights into porcine genomic structural variations based on a novel‐constructed dataset from 24 worldwide diverse populations

H Gong, W Liu, Z Wu, M Zhang, Y Sun… - Evolutionary …, 2022 - Wiley Online Library
Structural variations (SVs) are important DNA polymorphisms that contribute to genetic
diversity and evolution in humans, animals, and plants. In this study, we present a novel …