Pan-genomics in the human genome era
RM Sherman, SL Salzberg - Nature Reviews Genetics, 2020 - nature.com
Since the early days of the genome era, the scientific community has relied on a single
'reference'genome for each species, which is used as the basis for a wide range of genetic …
'reference'genome for each species, which is used as the basis for a wide range of genetic …
Nanopore sequencing: Review of potential applications in functional genomics
Molecular biology has been led by various measurement technologies, and increased
throughput has developed omics analysis. The development of massively parallel …
throughput has developed omics analysis. The development of massively parallel …
Graph pangenome captures missing heritability and empowers tomato breeding
Missing heritability in genome-wide association studies defines a major problem in genetic
analyses of complex biological traits,. The solution to this problem is to identify all causal …
analyses of complex biological traits,. The solution to this problem is to identify all causal …
Automated assembly scaffolding using RagTag elevates a new tomato system for high-throughput genome editing
Advancing crop genomics requires efficient genetic systems enabled by high-quality
personalized genome assemblies. Here, we introduce RagTag, a toolset for automating …
personalized genome assemblies. Here, we introduce RagTag, a toolset for automating …
Improved pea reference genome and pan-genome highlight genomic features and evolutionary characteristics
Complete and accurate reference genomes and annotations provide fundamental resources
for functional genomics and crop breeding. Here we report a de novo assembly and …
for functional genomics and crop breeding. Here we report a de novo assembly and …
The genetic and epigenetic landscape of the Arabidopsis centromeres
INTRODUCTION The centromeres of eukaryotic chromosomes assemble the multiprotein
kinetochore complex and thereby position attachment to the spindle microtubules, allowing …
kinetochore complex and thereby position attachment to the spindle microtubules, allowing …
Major impacts of widespread structural variation on gene expression and crop improvement in tomato
Structural variants (SVs) underlie important crop improvement and domestication traits.
However, resolving the extent, diversity, and quantitative impact of SVs has been …
However, resolving the extent, diversity, and quantitative impact of SVs has been …
Two divergent haplotypes from a highly heterozygous lychee genome suggest independent domestication events for early and late-maturing cultivars
G Hu, J Feng, X Xiang, J Wang, J Salojärvi, C Liu… - Nature …, 2022 - nature.com
Lychee is an exotic tropical fruit with a distinct flavor. The genome of cultivar 'Feizixiao'was
assembled into 15 pseudochromosomes, totaling~ 470 Mb. High heterozygosity (2.27%) …
assembled into 15 pseudochromosomes, totaling~ 470 Mb. High heterozygosity (2.27%) …
SyRI: finding genomic rearrangements and local sequence differences from whole-genome assemblies
Genomic differences range from single nucleotide differences to complex structural
variations. Current methods typically annotate sequence differences ranging from SNPs to …
variations. Current methods typically annotate sequence differences ranging from SNPs to …
A sheep pangenome reveals the spectrum of structural variations and their effects on tail phenotypes
R Li, M Gong, X Zhang, F Wang, Z Liu… - Genome …, 2023 - genome.cshlp.org
Structural variations (SVs) are a major contributor to genetic diversity and phenotypic
variations, but their prevalence and functions in domestic animals are largely unexplored …
variations, but their prevalence and functions in domestic animals are largely unexplored …