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In their recent publication, Alblooshi et al. report the identification and preliminary functional analysis of a novel LACC1 variant, p.Asp220Asn, associated with familial juvenile idiopathic arthritis. While their study provides a valuable genetic association, this …
Read PDFDriven by the increasing scale of microbiome studies and the rise of large, continuously expanding population cohorts, the volume of sequencing data is growing rapidly. As such, ensuring the comparability of data generated across different …
Read PDF<h4>Background</h4>Mobilized colistin resistance (mcr) gene has emerged as a major driver of colistin resistance. Therefore, this study aimed to determine the distribution of mcr-variants and mcr-carrying genomes deposited in the NCBI database by sample collection …
Read PDFWe present a genome assembly from an individual <i>Sabellastarte</i> sp. h YS-2021 (feather duster worm; Annelida; Polychaeta; Sabellida; Sabellidae). The genome sequence has a total length of 1 786.39 megabases. Most of the assembly (97.94%) …
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Read PDF•Climate change and environmental stressors are major drivers affecting global food security and agricultural sustainability.•Microbial communities play a central role in nutrient cycling, plant health, and ecosystem resilience.•Climate variability alters microbial diversity, functions, and plant...microbe …
Read PDF<h4>Background</h4>The biological relationship between oral human papillomavirus (HPV) infection and the community-level virulence ecology of the oral bacterial microbiome remains unresolved due to taxon-centric analyses. We profiled non-cancer oral HPV infection status and the ecological …
Read PDFNatural history collections are unparalleled archives of global biodiversity, yet most specimens remain molecularly uncharacterised due to the technical challenges of historical DNA (hDNA), including degradation, low endogenous content and contamination. Genome skimming offers a …
Read PDFDrought stress is the most pervasive abiotic constraint on global crop productivity, with projected intensification under climate change threatening the yields of staple crops including wheat, rice, maize, and legumes. Conventional breeding approaches have delivered …
Read PDFLassa fever is a viral haemorrhagic fever that poses a persistent public health threat in several West African countries, particularly Nigeria. The scarcity of Lassa virus (LASV) sequences isolated from small mammal reservoirs limits our …
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Read PDFYellow fever virus (YFV), a mosquito-borne orthoflavivirus that causes severe hemorrhagic disease, is endemic in parts of South America and Africa, yet genomic data from Sierra Leone is lacking despite ongoing case-based surveillance. Using hybrid-capture …
Read PDFPharmacogenomics AI offers significant potential for individualized drug therapy; however, its clinical benefits remain unevenly distributed. Models trained predominantly on European-ancestry data consistently underperform in non-European populations, with polygenic risk scores (PRS) showing an estimated …
Read PDF[This corrects the article DOI: 10.3389/fmicb.2022.880484.].
Read PDFThe Chicken Genotype-Tissue Expression (ChickenGTEx) project was established to systematically characterize the regulatory landscape of the chicken genome and to accelerate the translation of functional genomics into precision breeding. By integrating whole-genome sequencing with multi-tissue …
Read PDF<h4>Summary</h4>Microbiome HiFi Amplicon Sequence Simulator (MHASS) creates realistic synthetic PacBio HiFi amplicon sequencing datasets for microbiome studies, by integrating genome-aware abundance modeling, realistic dual-barcoding strategies, and empirically derived pass-number distributions from actual sequencing runs. MHASS …
Read PDFBACKGROUND: Platycodin D (PD) is a typical triterpenoid saponin with low oral bioavailability. Despite its potent anti-ALI effects, its active metabolites and underlying mechanisms remain unclear, thereby significantly impeding its further development. This study aimed …
Read PDF[This corrects the article DOI: 10.3389/fmicb.2025.1557174.].
Read PDFHere, we present the integration of the decontam method for contaminant identification and a supplemental approach for identifying the source of contaminants in sequencing data within the QIIME 2 Framework for microbiome data science. We …
Read PDF<h4>Motivation</h4>A central problem for metaproteomic analysis is the often-unknown taxonomic composition of the analyzed microbiomes. Using a database search, the standard approach requires prior knowledge of which proteins and taxa to include in the protein …
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