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Long-read sequencing offers unprecedented opportunities for high-resolution bacterial genome reconstruction, yet fragmented bioinformatics workflows hinder biological insights. <i>StrainCascade</i> addresses this gap by providing a fully automated, modular pipeline that integrates genome assembly, accurate annotation, and …
Read PDFHere, we report the draft sequence of a rapid-growing nontuberculous <i>Mycobacterium</i> isolated from a urine sample at the Scottish Mycobacteria Reference Laboratory, Royal Infirmary of Edinburgh, UK. The reported genome has a length of 6,749,454 …
Read PDFWe report the complete genome sequence of <i>Ligilactobacillus animalis</i> strain NP51, a probiotic strain used extensively in the beef cattle industry.
Read PDFHighly pathogenic avian influenza (HPAI) poses a major threat to the world economy and human health; hence, rapid and accurate identification of avian influenza virus (AIV) subtypes is required for effective surveillance and outbreak prevention, …
Read PDFA strain of <i>Catenibacterium</i> spp. was isolated from a fecal sample of a patient diagnosed with stage IV melanoma in December 2008. The patient began treatment with the immune checkpoint inhibitor pembrolizumab in May 2016 …
Read PDFNanopore sequencing provides long and ultra-long reads that are valuable for structural variation (SV) detection and genome assembly. However, false-positive chimeric reads can arise and interfere with somatic SV calling. Here, we show that ligation-based …
Read PDFWe report the complete genome sequence of <i>Mycobacterium</i> sp. strain Panama NTM2, isolated from a sputum sample of a patient with pulmonary tuberculosis in Panama. The 5,922,402-bp genome (68% GC) was assembled into five contigs …
Read PDF<h4>Motivation</h4>Efficient data compression is crucial for reducing storage and transmission costs associated to vast volumes of nanopore raw sequencing data. Surpassing the state-of-the-art compression performance has been challenging, and all recent progress in this direction …
Read PDFWe report the complete genome of a sorbitol-fermenting, <i>β</i>-glucuronidase-positive, non-motile <i>Escherichia coli</i> O157:H7 isolated from a human stool sample. The genome consisted of a 5,487,050-bp circular chromosome and a 79,741-bp F-like plasmid.
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