Ensembl 2023
FJ Martin, MR Amode, A Aneja… - Nucleic acids …, 2023 - academic.oup.com
Abstract Ensembl (https://www. ensembl. org) has produced high-quality genomic resources
for vertebrates and model organisms for more than twenty years. During that time, our …
for vertebrates and model organisms for more than twenty years. During that time, our …
Trajectory of livestock genomics in South Asia: a comprehensive review
Livestock plays a central role in sustaining human livelihood in South Asia. There are
numerous and distinct livestock species in South Asian countries. Several of them have …
numerous and distinct livestock species in South Asian countries. Several of them have …
Phylogenomics and the genetic architecture of the placental mammal radiation
The genomes of placental mammals are being sequenced at an unprecedented rate.
Alignments of hundreds, and one day thousands, of genomes spanning the rich living and …
Alignments of hundreds, and one day thousands, of genomes spanning the rich living and …
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 variation and introgression from wild populations in East Asian cattle genomes confer adaptation to local environment
X Xia, F Zhang, S Li, X Luo, L Peng, Z Dong, H Pausch… - Genome Biology, 2023 - Springer
Abstract Background Structural variations (SVs) in individual genomes are major
determinants of complex traits, including adaptability to environmental variables. The …
determinants of complex traits, including adaptability to environmental variables. The …
A Chinese indicine pangenome reveals a wealth of novel structural variants introgressed from other Bos species
Chinese indicine cattle harbor a much higher genetic diversity compared with other
domestic cattle, but their genome architecture remains uninvestigated. Using PacBio HiFi …
domestic cattle, but their genome architecture remains uninvestigated. Using PacBio HiFi …
The structural variation landscape in 492 Atlantic salmon genomes
Structural variants (SVs) are a major source of genetic and phenotypic variation, but remain
challenging to accurately type and are hence poorly characterized in most species. We …
challenging to accurately type and are hence poorly characterized in most species. We …
Novel functional sequences uncovered through a bovine multiassembly graph
Many genomic analyses start by aligning sequencing reads to a linear reference genome.
However, linear reference genomes are imperfect, lacking millions of bases of unknown …
However, linear reference genomes are imperfect, lacking millions of bases of unknown …
Extended haplotype-phasing of long-read de novo genome assemblies using Hi-C
Haplotype-resolved genome assemblies are important for understanding how combinations
of variants impact phenotypes. To date, these assemblies have been best created with …
of variants impact phenotypes. To date, these assemblies have been best created with …
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 …