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Long-read sequencing has transformed many areas of biology and holds significant promise for telomere research by enabling analysis of nucleotide-level resolution chromosome arm-specific telomere length in both model organisms and humans. However, the adoption of …
Read PDFCollagen-like proteins (CLPs) serve many pathogenic bacteria as adhesins to attach to host tissue. It was suggested that CLPs are a major determinant in the coevolution of the model system Daphnia (Crustacean) and its virulent …
Read PDF<h4>Background</h4>The Purpureocillium lilacinum NCHU-NPUST-175 (Pl-NCHU-NPUST-175) strain has been previously reported as an entomopathogenic fungus (EPF) with potential for controlling Forcipomyia taiwana (little black mosquito). In this study, genome sequencing of Pl-NCHU-NPUST-175 was performed via long-read …
Read PDFThe complete genome sequences of <i>Lactococcus garvieae</i> KN161025 and <i>Lactococcus formosensis</i> strains KN19830, KN201130, KN211206, and KU211113 were determined. Strain KN161025 contained no plasmids, whereas KN19830, KN201130, KN211206, and KU211113 carried two plasmids each.
Read PDF<i>Enterococcus faecalis</i> has been identified as a member of the vaginal community of healthy females, in addition to its association with vaginitis and urinary tract infections. Here we present the hybrid assembly of an <i>E. …
Read PDFThe Micrapis subgenus, which includes the black dwarf honey bee (Apis andreniformis) and the red dwarf honey bee (Apis florea), remains underrepresented in genomic studies despite its ecological significance. Here, we present high-quality de novo …
Read PDFIn August 2025, Mozambique's Central Veterinary Laboratory, part of the Agricultural Research Institute, received broiler chicken carcasses for investigation after reports of elevated flock mortality. Pooled samples from the carcasses (i.e. trachea and lung) tested …
Read PDFLong-read RNA sequencing is a powerful technology for transcriptomics, but low throughput and high cost pose challenges. Adaptive sampling, a feature of Oxford Nanopore Technologies, offers real-time enrichment by selectively ejecting non-target molecules. We evaluate …
Read PDFRecovering high-contiguity, circular bacterial genomes from complex microbiomes (e.g., gut) is challenged by limitations of short-read and error-prone long-read sequencing. This study comprehensively compares PacBio High-Fidelity (HiFi) sequencing-based metagenome-assembled genomes (MAGs) against Illumina MAGs, Oxford …
Read PDFWe report a draft genome of a species from the ascomycotal fungal genus <i>Pseudopithomyces</i> (isolate name SBW1) obtained using a culture isolate from brewery wastewater. The 43 contig genome has a length of 39.65 Mbp, …
Read PDF<h4>Background</h4>Oxford Nanopore adaptive sampling (NAS) is a method by which the long-read sequencing flowcell accepts or rejects DNA molecules that are actively being sequenced based on their initial ~ 500 bp sequences, selectively increasing target …
Read PDF<h4>Background</h4>Complex cases of retinoblastoma (RB) often require integrative molecular approaches to define tumor etiology and guide clinical management.<h4>Purpose</h4>Our aim was to evaluate the usefulness of combining aqueous humor (AH)/plasma cell-free DNA next-generation sequencing (cfDNA-NGS) and …
Read PDFSelective antimicrobial dry cow therapy (DCT) is implemented as part of mastitis control programs, particularly in dairy cows with recent clinical episodes or elevated somatic cell counts. In this study, we investigated the effects of …
Read PDFWe report complete genomes of four strains of <i>Ochrobactrum pituitosum</i> and three strains of <i>Pseudochrobactrum saccharolyticum</i> isolated from gut microbiomes of <i>Caenorhabditis elegans</i> colonized with microbial communities extracted from garden compost. Genomes were assembled from …
Read PDFWe present draft-quality genomes of eight cultured microbes isolated from two soil sites with different levels of leaf cover in Wellesley, MA. This dataset includes representatives of taxa including <i>Pedobacter</i>, <i>Bacillus</i>, <i>Paenibacillus</i>, <i>Streptomyces</i>, and <i>Flavobacterium</i>.
Read PDF<h4>Background</h4>Donor-derived cell-free DNA (ddcfDNA) has been shown to be useful in monitoring lung graft health, and single nucleotide variations (SNVs) between donor and recipient are used to identify ddcfDNA in post-transplant recipient blood. One limitation …
Read PDFThe reference genome of the freshwater snake, <i>Natrix maura,</i> offers a crucial resource for uncovering the genetic basis of adaptability to freshwater environments, while providing insights into hybridization and gene flow within the genus <i>Natrix</i>. …
Read PDFBacterial culture collections represent a valuable tool for mechanistic understanding of microbiome assemblies and are increasingly used to assemble tailored synthetic communities to characterize their microbe-microbe interactions and those with the environment. Given the size …
Read PDFThe D4Z4 locus is a macrosatellite array on Chromosome 4q normally comprising 8 to >100 3.3-kb repeat units. Its size and repetitiveness render it refractory to most sequencing technologies; consequently, its genetic and epigenetic architectures …
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