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Schistosomes are parasitic trematode worms of the genus Schistosoma, responsible for causing urogenital and intestinal schistosomiasis. Six primary species infect humans: S. mansoni, S. japonicum, S. mekongi, S. intercalatum, S. guineensis, and S. haematobium. In …
Read PDF<h4>Background</h4>Traditional molecular epidemiological analysis has been limited in its ability to evaluate pathogen homology, making detailed transmission pathway estimation in outbreaks challenging. Bayesian reconstruction methods using whole-genome sequencing and epidemiological data enable estimation of temporal …
Read PDFThe co-circulation of the recently emerged H5N1 clade 2.3.4.4b and the endemic H9N2 avian influenza viruses (AIV) in poultry farms has led to significant economic losses and increased the likelihood of viral reassortment. Continuous and …
Read PDFIndividual CpG methylation signatures characterize each mammalian cell type, thereby offering a powerful readout for clinical and diagnostic applications. Here, we apply this principle to in vitro cellular systems, using cell-free DNA released into the …
Read PDFHere, we report the draft genome sequences of <i>Trichoderma deliquescens</i> and <i>Aureobasidium</i> sp., fungi isolated from sediments of the Elizabeth River. Genomes assembled from Nanopore sequencing revealed genes encoding enzymes implicated in polycyclic aromatic hydrocarbon …
Read PDFRhodiola yunnanensis (Crassulaceae) is an endemic medicinal plant species distributed in the Hengduan Mountains of southwestern China. Here, we present a high-quality and near telomere-to-telomere chromosome-level genome assembly of R. yunnanensis generated using Oxford Nanopore …
Read PDFThe Icacinales order includes numerous genera and species, many of which have medicinal properties. Iodes seguinii, a species from this order, is traditionally used for treating rheumatic and inflammatory diseases. This study presents the first …
Read PDFUtricularia aurea Lour. is an aquatic herbaceous plant with yellow flowers and a unique insect-trapping mechanism, distributed in several regions of China and other Asian countries. In this study, we assembled a chromosome-scale genome of …
Read PDF<h4>Background</h4>Nanopore sequencing produces ionic current signals that are sensitive to chemical modifications in DNA and RNA molecules. However, accurate modification detection remains challenging due to limited labeled data and variability across experimental conditions.<h4>Methods</h4>We present a …
Read PDFLong-read sequencing, whether using PacBio (PB) or Oxford Nanopore Technologies (ONT), requires high-molecular-weight (HMW) DNA at high purity and free of contaminants. Here, we present a protocol for high-throughput processing of fecal samples for long-read …
Read PDFWhole-genome sequencing of bacterial pathogens can positively impact infectious disease management in clinical contexts, both in individual settings and by assisting infection prevention efforts. However, logistical issues have often prevented its translation into clinical settings. …
Read PDFHLA-G*01:66 differs from HLA-G*01:01:22:01 by one missense nucleotide substitution at position 508 in exon 3.
Read PDFAfrican swine fever is a transboundary disease of wild boar and domestic pigs that is caused by the African swine fever virus (ASFV), with a mortality rate of 100 % in naïve animals. The ongoing …
Read PDF<h4>Background</h4>Granulomatous lobular mastitis (GLM) is a benign, nonspecific inflammatory disease associated with autoimmune dysregulation, pathogenic infection, endocrine disorders, and other etiological factors. Although various treatments for GLM exist, there is currently no standardized approach. <i>Aerococcus …
Read PDFHomatula variegata is a small benthic loach from the upper Yangtze and adjacent basins with aquaculture and ornamental value but no reference genome. We present a near telomere-to-telomere (T2T) chromosome-level assembly built from PacBio HiFi, …
Read PDFHigh-quality reference genomes permit deeper investigation into species' evolution and provide insight into species management and conservation. Next-generation sequencing technologies, such as Oxford Nanopore Technologies, allow researchers to generate high-accuracy long-read genetic data in real-time …
Read PDFHaplotypes of polyploid organisms provide important insights into polyploid evolution and advanced breeding strategies. Significant challenges remain in polyploid haplotype phasing, including the great number of haplotype copies and the presence of haplotypes with high …
Read PDF<h4>Background</h4>Genetic stability of live-attenuated infectious laryngotracheitis virus (ILTV) vaccines is essential for consistent efficacy and safety; however, marker-based assessments targeting partial genes are often insufficient given the virus's large, structurally complex genome. The ILTV genome …
Read PDFWe report the complete genome sequence of <i>Micrococcus luteus</i> TG3.30, isolated from sugarcane soil in Brazil. The 2.58 Mb genome (GC 72.92%) was assembled from hybrid Illumina-Nanopore sequencing with 99.96% completeness, providing a high-quality resource …
Read PDFHydropotes inermis (Chinese water deer, 2n = 70) is a relatively primitive small Cervidae species naturally distributed along the eastern coast of China and the Korean Peninsula. High-quality genomic resources are essential for investigating its …
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