Construction of chromosome-level assembly is a vital step in achieving the goal of a
'Platinum'genome, but it remains a major challenge to assemble and anchor sequences to …

Genome assembly is typically a two-stage process: paired sequencing reads are joined into
contigs, and contigs are assembled into scaffolds. Over the past 10 years, next-generation …

Although long-read sequencing can often enable chromosome-level reconstruction of
genomes, it is still unclear how one can routinely obtain gapless assemblies. In the model …

We present YaHS, a user-friendly command-line tool for the construction of chromosome-
scale scaffolds from Hi-C data. It can be run with a single-line command, requires minimal …

Long-read, single-molecule real-time (SMRT) sequencing is routinely used to finish
microbial genomes, but available assembly methods have not scaled well to larger …

Highlights•Long read sequencing has improved genome assembly by an order of
magnitude.•New genome assembly algorithms leverage long, error prone reads to untangle …

While genome assembly projects have been successful in many haploid and inbred
species, the assembly of noninbred or rearranged heterozygous genomes remains a major …

Genome duplication with hybridization, or allopolyploidization, occurs commonly in plants,
and is considered to be a strong force for generating new species. However, genome-wide …

Genomes assembled de novo from short reads are highly fragmented relative to the finished
chromosomes of Homo sapiens and key model organisms generated by the Human …

Alfalfa (Medicago sativa L.) is one of the most important and widely cultivated forage crops. It
is commonly used as a vegetable and medicinal herb because of its excellent nutritional …