In it for the long run: perspectives on exploiting long-read sequencing in livestock for population scale studies of structural variants
TV Nguyen, CJ Vander Jagt, J Wang… - Genetics Selection …, 2023 - Springer
Studies have demonstrated that structural variants (SV) play a substantial role in the
evolution of species and have an impact on Mendelian traits in the genome. However, unlike …
evolution of species and have an impact on Mendelian traits in the genome. However, unlike …
Assembly of a pangenome for global cattle reveals missing sequences and novel structural variations, providing new insights into their diversity and evolutionary …
Y Zhou, L Yang, X Han, J Han, Y Hu, F Li… - Genome …, 2022 - genome.cshlp.org
A cattle pangenome representation was created based on the genome sequences of 898
cattle representing 57 breeds. The pangenome identified 83 Mb of sequence not found in …
cattle representing 57 breeds. The pangenome identified 83 Mb of sequence not found in …
Structural variant-based pangenome construction has low sensitivity to variability of haplotype-resolved bovine assemblies
Advantages of pangenomes over linear reference assemblies for genome research have
recently been established. However, potential effects of sequence platform and assembly …
recently been established. However, potential effects of sequence platform and assembly …
High-resolution structural variants catalogue in a large-scale whole genome sequenced bovine family cohort data
Abstract Background Structural variants (SVs) are chromosomal segments that differ
between genomes, such as deletions, duplications, insertions, inversions and …
between genomes, such as deletions, duplications, insertions, inversions and …
A 12 kb multi-allelic copy number variation encompassing a GC gene enhancer is associated with mastitis resistance in dairy cattle
YL Lee, H Takeda, G Costa Monteiro Moreira… - PLoS …, 2021 - journals.plos.org
Clinical mastitis (CM) is an inflammatory disease occurring in the mammary glands of
lactating cows. CM is under genetic control, and a prominent CM resistance QTL located on …
lactating cows. CM is under genetic control, and a prominent CM resistance QTL located on …
Comparative analyses of copy number variations between Bos taurus and Bos indicus
Abstract Background Bos taurus and Bos indicus are two main sub-species of cattle.
However, the differential copy number variations (CNVs) between them are not yet well …
However, the differential copy number variations (CNVs) between them are not yet well …
A large structural variant collection in Holstein cattle and associated database for variant discovery, characterization, and application
Abstract Background Structural variants (SVs) such as deletions, duplications, and insertions
are known to contribute to phenotypic variation but remain challenging to identify and …
are known to contribute to phenotypic variation but remain challenging to identify and …
A global analysis of CNVs in Chinese indigenous fine-wool sheep populations using whole-genome resequencing
C Yuan, Z Lu, T Guo, Y Yue, X Wang, T Wang, Y Zhang… - BMC genomics, 2021 - Springer
Background Copy number variation (CNV) is an important source of genetic variation that
has a significant influence on phenotypic diversity, economically important traits and the …
has a significant influence on phenotypic diversity, economically important traits and the …
Discovering copy number variation in dual-purpose Xinjiang brown cattle
J Zhou, L Liu, E Reynolds, X Huang, D Garrick… - Frontiers in …, 2022 - frontiersin.org
Copy number variants (CNVs), which are a class of structural variant, can be important in
relating genomic variation to phenotype. The primary aims of this study were to discover the …
relating genomic variation to phenotype. The primary aims of this study were to discover the …
Structural variants and short tandem repeats impact gene expression and splicing in bovine testis tissue
Structural variants (SVs) and short tandem repeats (STRs) are significant sources of genetic
variation. However, the impacts of these variants on gene regulation have not been …
variation. However, the impacts of these variants on gene regulation have not been …