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Newcastle disease (ND), caused by avian orthoavulavirus 1 (AOAV-1), poses a global threat to poultry and wild birds. In early 2025, an outbreak of pigeon paramyxovirus type 1 (PPMV-1, genotype VI AOAV-1) was detected in …
Read PDF<h4>Introduction</h4>Phenylketonuria (PKU) is an inherited metabolic disorder caused by biallelic variants in the <i>PAH</i> gene, leading to phenylalanine accumulation and progressive neuronal damage. Over 3,000 variants have been described worldwide; however, a previously unreported exon …
Read PDF<h4>Background</h4>Nanopore technology enables the direct sequencing of intact RNA molecules allowing for the detection of native chemical modifications. In 2024, Oxford Nanopore Technologies updated direct RNA sequencing from RNA002 to RNA004 platform as well as …
Read PDFTelomere-to-telomere (T2T) assembly is the ultimate goal for de novo genome assembly. Existing algorithms<sup>1,2</sup> capable of near-T2T assembly all require Oxford Nanopore Technologies (ONT) ultra-long reads, which are costly and experimentally challenging to obtain and …
Read PDFSalt marsh sediments host intensive sulfur cycling. Genome sequences from culturable sulfur-oxidizing microbes are required for targeted engineering to test <i>sox</i> gene function. We report the complete genome sequence (3,410,538 bp, 59.6 mol% G + …
Read PDF<b>Background</b>: Breast implant-associated anaplastic large cell lymphoma (BIA-ALCL) is a mature T-cell lymphoma linked to textured breast implants. A leading hypothesis suggests that chronic inflammation, combined with immunological and genetic factors, drives its pathogenesis. Two …
Read PDFMendelian genetics posits equal transmission of alleles, but selfish alleles can bias the transmission of large genomic regions or entire chromosomes. One long-standing question is how transmission bias evolves to encompass large genomic regions. Mus …
Read PDFWe report the complete genome sequence of <i>Varibaculum</i> strain GTC20041 isolated from a clinical specimen in Japan. The genome comprised a circular chromosome with a length of 2,266,073 bp.
Read PDFThis study examined the tracheal and cecal microbiome composition across three broiler chicken genotypes including a heritage New Hampshire × Columbian cross (NHC) and modern Ross × Ross 308 (R308) and Ross YP × Ross …
Read PDF<i>Citrobacter koseri</i> is a significant bacterial cause of community-acquired urinary tract infections in female college students. Given limited previous attention to genomic analysis and molecular epidemiology of this species, whole-genome sequencing was carried out for …
Read PDFMultiple displacement amplification (MDA) outperforms conventional PCR in long fragment and whole-genome amplification, making it attractive to couple MDA with long-read sequencing of samples with limited quantities of DNA to obtain improved genome assemblies. Here, …
Read PDFWe present the complete genome of <i>Lacticaseibacillus rhamnosus</i> strain LR110, a human stool isolate from the NORDBIOTIC strain collection. The genome consists of a 2,867,184-bp chromosome with 46.8% GC content. Genomic analysis revealed genes related …
Read PDFPangenome projects have enhanced our understanding of human genomic and genetic diversity, but repetitive regions are still challenging to assemble and yet medically important. Here we generate 20 near-complete haplotypes from 10 Japanese male individuals …
Read PDFCharting the eukaryotic epitranscriptome by direct RNA sequencing is promising but still very challenging, as current bioinformatics tools are based on modification-unaware software and require multiple modification-specific learning steps. Here, we introduce NanoSpeech, a modification-aware …
Read PDFGoats play a significant role in global livestock production and are highly valued for their meat, which is both nutritious and easily digestible. The longissimus dorsi and biceps femoris muscles are not only critical for …
Read PDF<h4>Background</h4>Progressive myoclonic epilepsy is a heterogeneous neurodegenerative disorder characterized by early-onset myoclonus, epilepsy, generalized tonic-clonic seizures, and progressive neurological deterioration. Recently, a CGG repeat expansion and increased CSNK1E DNA methylation have been shown to be …
Read PDFAn isolate of the multidrug-resistant yeast <i>Candida auris</i> (Pal1) was identified in the urine of a patient with sepsis and sequenced using both Oxford Nanopore and Illumina sequencing technologies. Phylogenetic analysis placed <i>C. auris</i> Pal1 …
Read PDFMobile elements, particularly long terminal repeat retrotransposons (LTR-RTEs), are abundant and dynamic components of plant genomes. Although viral infections are known to transcriptionally activate retrotransposons, it remains unclear whether such virus-induced activation leads to their …
Read PDFWild crop relatives are valuable genetic resources for improving stress adaptation in cultivated species, but their effective use depends on high-quality reference genomes integrated with phenotypic and molecular datasets. Hordeum erectifolium, a wild relative of …
Read PDF<h4>Objective</h4>This study aimed to investigate the metagenomic and microbial diversity of dadih in Kampar District, Riau, Indonesia.<h4>Materials and methods</h4>The dadih samples were collected from dadih producers in three villages, namely Limau Manis (LM), Rumbio (RB), …
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