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<h4>Motivation</h4>Antimicrobial resistance is increasingly recognized as one of the most significant global health threats, with profound implications for human, animal, and environmental health. Genome analysis represents a very useful tool that provides accurate and reproducible …
Read PDFPrasinophytes are a globally distributed, diverse polyphyletic group of photosynthetic green algae, displaying a combination of presumably ancestral traits for the Chloroplastida. The Nephroselmidophyceae is a prasinophyte clade comprising small biflagellate algae that includes the …
Read PDFWe report three draft genome sequences of wheat growth-promoting <i>Pantoea</i> spp. isolated from desert plant rhizosphere soils in western Inner Mongolia, China. Genomes were sequenced using Illumina NovaSeq 6000, yielding an average genome size of …
Read PDFThe assembly of plant mitochondrial genomes presents unique challenges due to difficulties in isolating mitochondrial DNA (mtDNA) and plant mitochondrial genome characteristics, such as low interspecific conservation; sequence sharing among mitochondrial, nuclear and plastid DNAs; …
Read PDFClimatic upheavals throughout Earth's history have driven species to subterranean refugia, where stable microclimates buffer environmental extremes. The spider family Pimoidae, relict lineages sensitive to thermal fluctuations, exemplifies this climate-driven habitat transition. Here, we present …
Read PDFThe identification of plasmids from assembled genomes is well supported by numerous different tools, yet very few incorporate a plasmid copy number estimation step. This limits a comprehensive plasmid analysis, often leaving researchers to perform …
Read PDF<i>Lacticaseibacillus paracasei</i> RAMULABWGS01 was isolated from fermented banana pseudostem and sequenced to explore its functional, probiotic, and anti-diabetic potential. Genomic DNA was isolated & whole-genome sequence (WGS) using the Illumina NovaSeq platform. The assembled draft …
Read PDFWe present the trio-binned, haplotype-resolved genome assemblies (released in 2020) of both haplotypes of an individual of the <i>Danio rerio</i> SAT strain, a cross between Tuebingen (maternal) and AB (paternal) strains (zebrafish; Chordata; Actinopteri; Cypriniformes; …
Read PDF<i>Klebsiella pneumoniae</i> is a major opportunistic pathogen responsible for a wide range of infections in both humans and animals. In this study, we report the draft genome sequence of <i>K. pneumoniae</i> strain KP-S-66, isolated from …
Read PDF<h4>Motivation</h4>Efficient and collision-free hashing of DNA sequences is essential for accuracy and performance in bioinformatics applications such as genome assembly, sequence alignment, and metagenomic classification. Traditional hashing methods often result in collisions, impacting the precision …
Read PDFThis study reports the draft genome sequence of <i>Paenibacillus</i> sp. M.A.Huq-84, a bacterial strain isolated from the rhizosphere of pine tree located in Anseong, South Korea, in 2021. The genome consists of 8,962,579 base pairs …
Read PDFCharacterizing genomic properties such as genome size, ploidy level, heterozygosity, and repetitive DNA proportion and composition without relying on genome assembly is crucial for profiling the genomes of non-model species. This study compares genome profiles …
Read PDF<i>Micromonospora</i> sp. strain PTRAS2, a gram-positive actinobacterium isolated from mulberry rhizospheric soil in Raiganj, India, has a 7.6 Mb genome (G + C 73.7%). Genome analysis revealed multiple biosynthetic gene clusters for antimicrobial and bioactive …
Read PDF<h4>Background</h4>Klebsiella michiganensis, a member of the Klebsiella oxytoca species complex, is increasingly recognized in healthcare-associated infection and can persist in hospital environmental reservoirs. However, genome-resolved data on environmental K. michiganensis from Africa remain limited.<h4>Methods</h4>We performed …
Read PDFAnoectochilus roxburghii, a highly valued medicinal plant in traditional Chinese medicine, exhibits unique pharmacological properties and broad application value. In this study, we de novo assembled and annotated haplotype-resolved chromosome-level genomes of A. roxburghii cultivar …
Read PDFGenome assembly aims to construct chromosome-level genome sequences, with scaffolding serving as a critical step, the accuracy of which highly depends on the quality of the input data. Although both Hi-C and Pore-C technologies are …
Read PDF<h4>Motivation</h4>The rapid evolution of bioinformatics tools and multi-step analytic procedure presents a challenge for building effective pipelines, particularly for researchers without extensive programming expertise. This study demonstrates that large language models (LLMs) hold strong potential …
Read PDFEpidendrum L. (Orchidaceae) is one of the largest plant genera in the neotropics, accounting for more than 1,500 species and a high variety of morphological, physiological, and ecological adaptations. However, addressing evolutionary and ecological questions …
Read PDFWe present the draft genome sequence of <i>Teratoramularia rumicicola</i> strain TR4, a potential bioherbicide isolated from <i>Rumex crispus</i> and sequenced using the DNBSEQ technology. This genome provides a foundational resource for future studies on taxonomy, …
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