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Pelodiscus sinensis (Chinese soft-shelled turtle) is a freshwater species with economic and biomedical value. Here, we report a near-telomere-to-telomere (near-T2T) chromosome-level genome assembly. Using a combination of PacBio HiFi, Oxford Nanopore ultra-long reads, and Hi-C …
Read PDFSweetpotato is a key crop for global food security, particularly in Burkina Faso, where its productivity is increasingly threatened by viral diseases, especially those caused by CRESS-DNA viruses. However, the diversity of these viruses in …
Read PDFWe report the complete genome sequence of <i>Paenibacillus polymyxa</i> 19197, an endophyte isolated from <i>Morchella importuna</i>. The 6.93 Mb circular chromosome encodes a diverse array of carbohydrate-active enzymes (CAZymes), including 220 glycoside hydrolases, and a …
Read PDFThis study aimed to analyse the microbiome of chronic infected diabetic foot ulcers (DFUs) using parallel methods: traditional culture (the culturome), 16S rRNA gene sequencing (the microbiome) as well as the Antibiotic Resistance Gene (ARG) …
Read PDFArtemisinin-based combination therapies (ACTs) remain the cornerstone of malaria treatment in Rwanda, but the emergence of drug resistance threatens their efficacy. This study conducted genomic surveillance of <i>Plasmodium falciparum</i> isolates collected in Kigali between October …
Read PDF<h4>Background</h4>Molecular typing of Mycobacterium tuberculosis complex isolates enhances understanding of tuberculosis (TB) transmission dynamics, supporting public health efforts in outbreak investigations. This study aims to validate TBpore, a novel bioinformatic pipeline for clustering TB transmission …
Read PDF<i>Limosilactobacillus reuteri</i>, formerly <i>Lactobacillus reuteri</i>, is a rod-shaped, Gram-positive, facultative anaerobe that colonizes the gastrointestinal tract of most vertebrates, including humans. We report the first isolation of <i>L. reuteri</i> strain HDB from the stool of …
Read PDFFlow velocity is a key environmental factor that exerts multifaceted effects on fish growth and adaptation. Through long-term natural selection, fish have evolved adaptability to specific flow conditions, which not only relate to oxygen supply …
Read PDF<h4>Abstract</h4>Adaptive sampling (AS), a computational enrichment method developed for Oxford Nanopore Technologies sequencing platforms, offers a promising advance in molecular blood group diagnostics. By leveraging long-read sequencing, AS has the potential to accurately resolve complex …
Read PDFNeuronal intranuclear inclusion disease (NIID) is a rare, progressive neurodegenerative disorder caused by abnormal GGC repeat expansions in the NOTCH2NLC gene, leading to multisystem involvement. Electrophysiological abnormalities in NIID have gained increasing attention in recent …
Read PDFWhile nanopore direct RNA sequencing has substantially advanced transcriptomics, its detection of RNA modifications remains primarily focused on abundant biological base modifications. However, therapeutic RNAs employ a diverse catalog of modifications, including base, sugar, and …
Read PDF<h4>Background</h4>Advancements in sequencing technologies, such as Illumina and Oxford Nanopore Technologies (ONT), have significantly improved microbiome research. However, variations in sequencing platforms, primer selection, and DNA quality may influence microbial diversity assessments, particularly in studies …
Read PDFOn-demand access to information encoded in nucleotides lies at the heart of DNA/RNA applications. However, contemporary methods for targeted retrieval using PCR amplification or bead-based extraction, rely on Watson-Crick base pairing and pre-defined primers, limiting …
Read PDFOBJECTIVES: Obrimoposthia wandeli is the most abundant marine planarian in the intertidal zone of the maritime Antarctic region and is presumed to have adapted to the extreme conditions of the Southern Ocean. However, genomic studies …
Read PDFLeishmania spp. regulate gene expression posttranscriptionally, yet untranslated regions (UTRs) that can affect mRNA stability and translation remain poorly delineated. We generated a de novo assembled genome for Leishmania donovani strain 1S2D (Ld1S) using PacBio …
Read PDF<i>Coxiella burnetii</i> (<i>C. burnetii</i>) is a zoonotic pathogen with significant public and veterinary significance. Whilst livestock are considered as primary reservoirs of the pathogen, ticks play a crucial role in transmission and environmental contamination. Within …
Read PDFShrimp aquaculture is a rapidly expanding food sector; however, its sustainability is challenged by disease outbreaks often linked to imbalances in the microbiome. Here, we characterized the microbial communities in the intestines of shrimp and …
Read PDFWe present the complete genome sequences of three <i>Geobacillus stearothermophilus</i> strains-EF60063, EF60133, and EF60134-isolated from a Korean hot spring. S8 family serine peptidases and M4 family metallopeptidases were identified in all strains. Strain EF60063 harbors …
Read PDFLiverwort organellar genomes are generally highly conserved, but the subclass Pellidae (simple thalloids) shows unusual variation. This ancient yet unexplored lineage of simple thalloid liverworts provides an excellent model for investigating organellar genome evolution. In …
Read PDF<h4>Background</h4>The legume Astragalus mongholicus (A. mongholicus) has a wide variety of medicinal properties. Based on the genome of A. mongholicus, this study intended to investigate the phylogenetic position of A. mongholicus and excavate the specific …
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