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This research aims to assess whether sequencing the full length of the 16S rRNA gene using PacBio HiFi sequencing and Oxford Nanopore Technology (ONT) platforms outperform Illumina MiSeq platform in providing detailed specie level insights. …
Read PDFThis case study examines a preterm newborn with autosomal recessive <i>ABCC8</i> gene-related diffuse congenital hyperinsulinism (CHI). The interdisciplinary management of the patient, including advanced genetic testing and long-read sequencing, finally led to the molecular diagnosis. …
Read PDF<h4>Background</h4>Intrachromosomal insertion is a rare form of structural chromosomal rearrangement that often cannot be accurately delineated by conventional G-banding, making it difficult to predict reproductive outcomes. In clinical practice, such insertions are often misinterpreted as …
Read PDF<h4>Introduction</h4>Alternative splicing (AS) is a major source of transcriptome diversity in plants, but short-read RNA sequencing (RNA-seq) has limited power for resolving full-length transcripts and complex AS patterns, particularly in perennial crops.<h4>Methods</h4>We integrated Oxford Nanopore …
Read PDFWe report genome sequences of two polar <i>Carnobacterium maltaromaticum</i> strains: 2857 (draft, 3.54 Mb, 34.4% GC) and 2862 (complete, 3.61 Mb, 34.6% GC, five plasmids). Sequencing used Illumina (both) and Nanopore (2862). Genome analysis revealed …
Read PDF<h4>Background</h4>Genetic testing is essential for disease screening, diagnosis, prognosis, and pharmacotherapy guidance. Oxford Nanopore Technologies (ONT) offers a cost-effective platform for long-read sequencing, yet its routine use in clinical diagnostics remains under evaluation. We tested …
Read PDFThe study of the application of plant growth-promoting (PGP) bacteria has increased due to their potential to enhance crop yield, improve nutrient acquisition, and increase plant tolerance to biotic and abiotic stresses. Developing synthetic microbial …
Read PDFWe report the 5.7 Mbp draft genome of carbapenem-resistant <i>Phytobacter ursingii</i> strain OUH-01, recovered from the feces of a patient with acute lymphoblastic leukemia. The genome comprises a chromosome (G+C content of 53.5%), three plasmids, …
Read PDFTraccatichthys pulcher is an ornamental loach species recognized for its vibrant body coloration, characteristic black dorsal fin margin, and iridescent green lateral stripes. To advance genomic research on this species, a high-quality, near telomere-to-telomere (T2T) …
Read PDFBACKGROUND: Post-weaning diarrhoea (PWD) remains a major cause of morbidity in pig production and is commonly associated with enterotoxigenic Escherichia coli (ETEC). Conventional diagnostics rely on culturing and targeted qPCR, which provide limited resolution of …
Read PDF<h4>Introduction</h4>Recently, de novo transcriptome assembly methods have been developed to utilise long-read data in cases where a reference genome is unavailable, such as in non-model organisms. Despite the potential of these tools, there remains a …
Read PDF<b>Background.</b> Nanopore-based sequencing by Oxford Nanopore Technologies (ONT) offers rapid, cost-effective and portable sequencing. As an emerging technology, ONT must be evaluated for efficacy and practical application in both high- and low-resource settings. This scoping …
Read PDFLong-read whole-transcriptome sequencing (WTS) has the potential to precisely characterize fusion oncogenes that drive leukemia and other cancers. Although there is a variety of general-purpose fusion detection algorithms that use modern long-read sequencing data, they …
Read PDF<b>Background:</b> Despite the huge burden of deaths associated with or attributable to antimicrobial resistance, studies on sequencing based antimicrobial resistance (AMR) monitoring in Africa are scarce, specifically in the animal sector. Objective and Methods: With …
Read PDFRNA modifications add a dynamic and versatile regulatory layer to gene expression, influencing RNA stability, splicing, translation, and cellular responses. Despite their importance, traditional detection methods-such as antibody-based enrichment, chemical labeling, or indirect sequencing approaches-often …
Read PDFThe Japanese cutlassfish (Trichiurus japonicus) is a commercially important marine species across Asia. Here, we present a high-quality, chromosome-level genome assembly generated using PacBio HiFi, Hi-C, and Nanopore ONT reads. The nuclear genome comprised 24 …
Read PDF<h4>Background/objectives</h4>Since its emergence in late 2019, SARS-CoV-2 has demonstrated remarkable genetic diversity driven by mutations and recombination events that shaped the course of the COVID-19 pandemic. Continuous genomic monitoring is essential to track viral evolution, …
Read PDFThree <i>Salmonella enterica</i> isolates were isolated from a municipal wastewater treatment plant in Knoxville, TN, USA. Genomic DNA was extracted and sequenced on the Illumina and Oxford Nanopore platforms. Annotated hybrid assemblies showed the strains …
Read PDFWe report the complete genome sequence of <i>Leucobacter</i> sp. WKLB1, an Actinobacteria isolated from the pegmatite surface in the fourth ore body in the Wagu-Kannon mine, Fukushima Prefecture. The complete circular genome has a genome …
Read PDF<h4>Background</h4>Rapid and accurate detection of drug-resistant tuberculosis (DR-TB) is crucial for ensuring effective treatment, halting transmission and preventing the amplification of resistance. Comparative evaluations of molecular diagnostic assays in high-burden settings are essential for informing …
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