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Wastewater can be a useful sample to monitor disease outbreaks in the community, as it was demonstrated during the recent Severe acute respiratory syndrome coronavirus 2 pandemic. Due to housing conditions, diseases can rapidly spread …
Read PDFOxford Nanopore Technology (ONT)-based methylation sequencing is emerging as a powerful approach for the rapid and accurate classification of brain tumors, an essential component of precision oncology. However, its broader clinical adoption has been limited …
Read PDFThe genome of Comamonas sediminis FS4_11, a bacterial strain with mycotoxin fumonisin B1 (FB1) transformation capability, was sequenced using Oxford Nanopore Technologies (ONT) and Illumina platforms. The final assembly generated a circular chromosome of 5,148,490 …
Read PDFThe placenta is a temporary organ present during pregnancy that is responsible for coordinating all aspects of pregnancy between the mother and fetus. It has a distinct epigenetic, transcriptomic, and mutational landscape with low levels …
Read PDFNon-tuberculous mycobacteria are emerging respiratory pathogens that can persist in treated water systems. In 2018, a cluster of <i>Mycobacterium intracellulare</i> lung infections was linked to a pool facility in Australia, prompting an epidemiological and genomic …
Read PDF<h4>Background</h4>Disruptions in the early-life gut microbiome have been reported to be associated with various health conditions. However, few studies have investigated the establishment of the gut microbiota in the immediate postnatal period.<h4>Aim</h4>To characterize the gut …
Read PDFThe life cycle of <i>Plasmodium falciparum</i> is characterized by complex regulatory changes that allow adaptation of the parasites to different environmental conditions, which are especially pronounced during transmission between the mammalian host and the insect …
Read PDFWith the advent of long-read DNA sequencing technologies, assembling eukaryotic genomes has become routine; however, properly phasing the maternal and paternal contributions, which is of great value for breeding programs, remains technically challenging. Here, we …
Read PDFThe advent of single cell DNA sequencing revealed astonishing dynamics of genomic variability, but failed at characterizing smaller to mid size variants that on the germline level have a profound impact. In this work we …
Read PDFThe protocol for Extraction and Analysis of Small Yeast-Chromosomes (EASY-C) is a transformative, rapid, cost-effective, and user-friendly method designed for the efficient isolation of artificial synthetic mini-chromosomes (~42-52 kb) and large plasmids (~12 kb) from …
Read PDFWe report the complete genome sequences of five <i>Variovorax</i> strains isolated from the roots of <i>Populus</i> species in greenhouse and field settings. Genome sizes range from 7.44 to 7.71 Mbp and encode 6,077-6,879 predicted protein-coding …
Read PDFWe report the complete circular genome sequence (2,316,546 bp; 37.0% G + C) of <i>Solobacterium moorei</i> 10714-02, a gram-positive obligate anaerobe isolated from stool samples of a human colorectal cancer patient, differing from the typically …
Read PDF<h4>Objectives</h4>Carbapenemase-producing Enterobacterales (CPE) represent a serious health care concern and their spread in animals has become alarming. Following several cases of CPE infections in a companion animal clinic, the role of the clinic backyard lawn …
Read PDF<b>Introduction.</b> Cholera, caused by <i>Vibrio cholerae</i>, remains a priority public health concern, particularly in developing countries. The first cholera outbreak in Zambia was documented in the 1970s, with recurring epidemics reported since then. In 2023, …
Read PDFEnvironmental DNA (eDNA) metabarcoding is a key tool in biodiversity monitoring due to its high-throughput, non-destructive nature. While short-read (SR) sequencing platforms such as Illumina Miseq have been routinely used in environmental monitoring, their limited …
Read PDFFour bacterial strains with yellow-colored colonies, which were isolated from the radioactive element-containing water in Fukushima Daiichi nuclear power station unit 2, were identified as <i>Micrococcus luteus</i>. Here, we present the complete genome sequences of …
Read PDFNanopore sequencing is an increasingly central tool for genomics. Despite rapid advances in the field, large data volumes and computational bottlenecks continue to pose major challenges. Here, we introduce ex-zd, a new data compression strategy …
Read PDFAnsell's mole-rat (Fukomys anselli) is an African rodent known for its subterranean lifestyle and unique phenotypic traits, including extreme longevity, magnetoreception, and a cooperative breeding social structure. Efforts to dissect the genetic architecture of these …
Read PDF<i>Klebsiella pneumoniae</i> is a leading cause of healthcare-associated infections worldwide, yet its population structure and transmission dynamics remain largely uncharacterized in New Zealand hospitals. We conducted a 15-month prospective genomic surveillance pilot at Wellington Regional …
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