Building a sequence map of the pig pan-genome from multiple de novo assemblies and Hi-C data
Sign Up to like & getrecommendations! Published in 2019 at "Science China Life Sciences"
DOI: 10.1007/s11427-019-9551-7
Abstract: Pigs were domesticated independently in the Near East and China, indicating that a single reference genome from one individual is unable to represent the full spectrum of divergent sequences in pigs worldwide. Therefore, 12 de… read more here.
Keywords: building sequence; pan genome; pig; reference genome ... See more keywords
The chromosome-level reference genome of Coptischinensis provides insights into genomic evolution and berberine biosynthesis
Sign Up to like & getrecommendations! Published in 2021 at "Horticulture Research"
DOI: 10.1038/s41438-021-00559-2
Abstract: Coptis chinensis Franch, a perennial herb, is mainly distributed in southeastern China. The rhizome of C. chinensis has been used as a traditional medicine for more than 2000 years in China and many other Asian… read more here.
Keywords: reference genome; level; chinensis; chromosome level ... See more keywords
Construction of JRG (Japanese reference genome) with single-molecule real-time sequencing
Sign Up to like & getrecommendations! Published in 2019 at "Human Genome Variation"
DOI: 10.1038/s41439-019-0057-7
Abstract: In recent genome analyses, population-specific reference panels have indicated important. However, reference panels based on short-read sequencing data do not sufficiently cover long insertions. Therefore, the nature of long insertions has not been well documented.… read more here.
Keywords: single molecule; reference genome; molecule real; reference ... See more keywords
The Indian cobra reference genome and transcriptome enables comprehensive identification of venom toxins
Sign Up to like & getrecommendations! Published in 2020 at "Nature Genetics"
DOI: 10.1038/s41588-019-0559-8
Abstract: Snakebite envenoming is a serious and neglected tropical disease that kills ~100,000 people annually. High-quality, genome-enabled comprehensive characterization of toxin genes will facilitate development of effective humanized recombinant antivenom. We report a de novo near-chromosomal genome… read more here.
Keywords: cobra; reference genome; venom; genome transcriptome ... See more keywords
Extended regions of suspected mis-assembly in the rat reference genome
Sign Up to like & getrecommendations! Published in 2019 at "Scientific Data"
DOI: 10.1038/s41597-019-0041-6
Abstract: We performed whole-genome sequencing for eight inbred rat strains commonly used in genetic mapping studies. They are the founders of the NIH heterogeneous stock (HS) outbred colony. We provide their sequences and variant calls to… read more here.
Keywords: rat reference; reference genome; regions suspected; genome ... See more keywords
Novel Megaptera novaeangliae (Humpback whale) haplotype chromosome-level reference genome
Sign Up to like & getrecommendations! Published in 2024 at "Scientific Data"
DOI: 10.1038/s41597-024-03922-9
Abstract: The sequencing of a kidney sample (KW2013002) from a stranded Megaptera novaeangliae (Humpback whale) calf is the first chromosome-level reference genome for this species1. The calf, a 457 cm and 2,500 lbs male, was found stranded… read more here.
Keywords: level; reference genome; chromosome level;
A chromosome-scale reference genome assembly for Triplophysa lixianensis
Sign Up to like & getrecommendations! Published in 2024 at "Scientific Data"
DOI: 10.1038/s41597-024-04268-y
Abstract: In this study, we constructed a chromosome-scale reference genome assembly for Lixian plateau loach, Triplophysa lixianensis, by integration of MGI short-read, PacBio HiFi long-read and Hi-C sequencing technologies. A 668-Mb haplotypic genome assembly was obtained… read more here.
Keywords: genome assembly; scale reference; chromosome scale; lixianensis ... See more keywords
An annotated near-complete sequence assembly of the Magnaporthe oryzae 70-15 reference genome
Sign Up to like & getrecommendations! Published in 2025 at "Scientific Data"
DOI: 10.1038/s41597-025-05116-3
Abstract: Magnaporthe oryzae is a devastating fungal pathogen that causes substantial yield losses in rice and other cereal crops worldwide. A high-quality genome assembly is critical for addressing challenges posed by this pathogen. However, the current… read more here.
Keywords: annotated near; high quality; reference; genome ... See more keywords
A complete Leishmania donovani reference genome identifies novel genetic variations associated with virulence
Sign Up to like & getrecommendations! Published in 2018 at "Scientific Reports"
DOI: 10.1038/s41598-018-34812-x
Abstract: Leishmania donovani is responsible for visceral leishmaniasis, a neglected and lethal parasitic disease with limited treatment options and no vaccine. The study of L. donovani has been hindered by the lack of a high-quality reference… read more here.
Keywords: virulence; reference genome; leishmania donovani; donovani ... See more keywords
A reference genome for the Harpy Eagle reveals steady demographic decline and chromosomal rearrangements in the origin of Accipitriformes
Sign Up to like & getrecommendations! Published in 2024 at "Scientific Reports"
DOI: 10.1038/s41598-024-70305-w
Abstract: The Harpy Eagle (Harpia harpyja) is an iconic species that inhabits forested landscapes in Neotropical regions, with decreasing population trends mainly due to habitat loss, and currently classified as vulnerable. Here, we report on a… read more here.
Keywords: harpy eagle; reference genome; harpy; decline ... See more keywords
A novel canine reference genome resolves genomic architecture and uncovers transcript complexity
Sign Up to like & getrecommendations! Published in 2021 at "Communications Biology"
DOI: 10.1038/s42003-021-01698-x
Abstract: We present GSD_1.0, a high-quality domestic dog reference genome with chromosome length scaffolds and contiguity increased 55-fold over CanFam3.1. Annotation with generated and existing long and short read RNA-seq, miRNA-seq and ATAC-seq, revealed that 32.1%… read more here.
Keywords: reference; novel canine; reference genome; dog ... See more keywords