ArticleScientific reports2016
Structural Variant Detection by Large-scale Sequencing Reveals New Evolutionary Evidence on Breed Divergence between Chinese and European Pigs.
Article in Scientific reports, 2016. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 20 papers.
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Who cites it
20 citing papers in PubMed.
- Mapping and functional characterization of structural variation in 1060 pig genomes.Genome biology · 2024Article
- Unravelling inversions: Technological advances, challenges, and potential impact on crop breeding.Plant biotechnology journal · 2024Review
- Associations of genome-wide structural variations with phenotypic differences in cross-bred Eurasian pigs.Journal of animal science and biotechnology · 2023Article
- Comparative Genomic Analysis of Warthog and Sus Scrofa Identifies Adaptive Genes Associated with African Swine Fever.Biology · 2023Article
- Pangenome obtained by long-read sequencing of 11 genomes reveal hidden functional structural variants in pigs.iScience · 2023Article
- In it for the long run: perspectives on exploiting long-read sequencing in livestock for population scale studies of structural variants.Genetics, selection, evolution : GSE · 2023Review
- Comprehensive analysis of structural variants in chickens using PacBio sequencing.Frontiers in genetics · 2022Article
- The Chicken Pan-Genome Reveals Gene Content Variation and a Promoter Region Deletion in IGF2BP1 Affecting Body Size.Molecular biology and evolution · 2021Article
- Characterization of structural variation in Tibetans reveals new evidence of high-altitude adaptation and introgression.Genome biology · 2021Article
- Identification of High-Confidence Structural Variants in Domesticated Rainbow Trout Using Whole-Genome Sequencing.Frontiers in genetics · 2021Article
- Analysis of Structural Variants Reveal Novel Selective Regions in the Genome of Meishan Pigs by Whole Genome Sequencing.Frontiers in genetics · 2021Article
- Genome-Wide Detection of Selection Signatures in Duroc Revealed Candidate Genes Relating to Growth and Meat Quality.G3 (Bethesda, Md.) · 2020Article
- PRE-1 Revealed Previous Unknown Introgression Events in Eurasian Boars during the Middle Pleistocene.Genome biology and evolution · 2020Article
- Analysis of structural variants in four African cichlids highlights an association with developmental and immune related genes.BMC evolutionary biology · 2020Article
- Detection of genome-wide structural variations in the Shanghai Holstein cattle population using next-generation sequencing.Asian-Australasian journal of animal sciences · 2019Article
- Divergent evolution in the genomes of closely related lacertids, Lacerta viridis and L. bilineata, and implications for speciation.GigaScience · 2019Article
- Evidence of evolutionary history and selective sweeps in the genome of Meishan pig reveals its genetic and phenotypic characterization.GigaScience · 2018Article
- Detection of genomic structural variations in Guizhou indigenous pigs and the comparison with other breeds.PloS one · 2018Article
- CNVcaller: highly efficient and widely applicable software for detecting copy number variations in large populations.GigaScience · 2017Article
- Genome-wide analysis of structural variants reveals genetic differences in Chinese pigs.PloS one · 2017Article
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10 authors.
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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, and constrcuted a single-nucleotide resolution map involving 56,930 putative SVs. We firstly identified a SV hotspot spanning 35 Mb region on the X chromosome specifically in the genomes of Chinese originated individuals. Further scrutinizing this region by large-scale sequencing data of extra 111 individuals, we obtained the confirmatory evidence on our initial finding. Moreover, thirty five SV-related genes within the hotspot region, being of importance for reproduction ability, rendered significant different evolution rates between Chinese and European originated breeds. The SV hotspot identified herein offers a novel evidence for assessing phylogenetic relationships, as well as likely explains the genetic difference of corresponding phenotypes and features, among Chinese and European pig breeds. Furthermore, we employed various SVs to infer genetic structure of individuls surveyed. We found SVs can clearly detect the difference of genetic background among individuals. This clues us that genome-wide SVs can capture majority of geneic variation and be applied into cladistic analyses. Characterizing whole genome SVs demonstrated that SVs are significantly enriched/depleted with various genomic features.
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