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K-Mer-Based Genome Size Estimation in Theory and Practice
Recent advances in sequencing technologies have made genome sequencing of non-model organisms with very large and complex genomes possible. The data...
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Kmer2SNP: Reference-Free Heterozygous SNP Calling Using k-mer Frequency Distributions
DNA sequencing technologies enable the generation of genetic profiles from many individuals at a rapid rate. Identifying single-nucleotide...
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Merfin: improved variant filtering, assembly evaluation and polishing via k-mer validation
Variant calling has been widely used for genoty** and for improving the consensus accuracy of long-read assemblies. Variant calls are commonly...
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Fulgor : a fast and compact k-mer index for large-scale matching and color queriesThe problem of sequence identification or matching—determining the subset of reference sequences from a given collection that are likely to contain a...
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Intrinsic laws of k-mer spectra of genome sequences and evolution mechanism of genomes
BackgroundK-mer spectra of DNA sequences contain important information about sequence composition and sequence evolution. We want to reveal the...
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Exploring short k-mer profiles in cells and mobile elements from Archaea highlights the major influence of both the ecological niche and evolutionary history
BackgroundK-mer-based methods have greatly advanced in recent years, largely driven by the realization of their biological significance and by the...
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A chromosome-level genome assembly for the amphibious plant Rorippa aquatica reveals its allotetraploid origin and mechanisms of heterophylly upon submergence
The ability to respond to varying environments is crucial for sessile organisms such as plants. The amphibious plant Rorippa aquatica exhibits a...
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New chromosome-scale genomes provide insights into marine adaptations of sea snakes (Hydrophis: Elapidae)
BackgroundSea snakes underwent a complete transition from land to sea within the last ~ 15 million years, yet they remain a conspicuous gap in...
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Chromosome-level genome provides insight into the evolution and conservation of the threatened goral (Naemorhedus goral)
BackgroundGorals Naemorhedus resemble both goats and antelopes, which prompts much debate about the intragenus species delimitation and phylogenetic...
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A chromosome-scale Rhubarb (Rheum tanguticum) genome assembly provides insights into the evolution of anthraquinone biosynthesis
Rhubarb is the collective name for various perennial plants from the genus Rheum L. and the Polygonaceae family. They are one of the most ancient,...
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**st spatially amplifies SHARP/SPEN recruitment to balance chromosome-wide silencing and specificity to the X chromosome
Although thousands of long non-coding RNAs (lncRNAs) are encoded in mammalian genomes, their mechanisms of action are poorly understood, in part...
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Chromosome-level genome assembly of a cliff plant Taihangia rupestris var. ciliata provides insights into its adaptation and demographic history
BackgroundCliffs are recognized as one of the most challenging environments for plants, characterized by harsh conditions such as drought, infertile...
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High-quality chromosome-level scaffolds of the plant bug Pachypeltis micranthus provide insights into the availability of Mikania micrantha control
BackgroundThe plant bug, Pachypeltis micranthus Mu et Liu (Hemiptera: Miridae), is an effective potential biological control agent for Mikania...
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The chromosome-level genome and functional database accelerate research about biosynthesis of secondary metabolites in Rosa roxburghii
Rosa roxburghii Tratt, a valuable plant in China with long history, is famous for its fruit. It possesses various secondary metabolites, such as...
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A chromosome-level genome assembly reveals genomic characteristics of the American mink (Neogale vison)
Availability of a contiguous chromosome-level genome assembly is the foundational step to develop genome-based studies in American mink ( Neogale vison ...
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Chromosome-level genome provides insights into environmental adaptability and innate immunity in the common dolphin (Delphinus delphis)
The common dolphin ( Delphinus delphis ) is widely distributed worldwide and well adapted to various habitats. Animal genomes store clues about their...
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A chromosome-level genome assembly of the soybean pod borer: insights into larval transcriptional response to transgenic soybean expressing the pesticidal Cry1Ac protein
BackgroundGenetically modified (GM) crop plants with transgenic expression of Bacillus thuringiensis (Bt) pesticidal proteins are used to manage...
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Upgraded durian genome reveals the role of chromosome reshuffling during ancestral karyotype evolution, lignin biosynthesis regulation, and stress tolerance
Durian ( Durio zibethinus ) is a tropical fruit that has a unique flavor and aroma. It occupies a significant phylogenetic position within the...
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Chromosome-level genome assembly and population genomics of Robinia pseudoacacia reveal the genetic basis for its wide cultivation
Urban greening provides important ecosystem services and ideal places for urban recreation and is a serious consideration for municipal...
