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The COVID-19 pandemic significantly accelerated the development of genomic surveillance capabilities worldwide, though equitable access remains a challenge. On 12 March 2020, Guinea, a low-income country in West Africa, reported its first COVID-19 case; however, …
Read PDFRabies remains a major public health concern in Thailand. Nucleoprotein (N) and glycoprotein (G) genes from eight rabies-positive specimens collected during 2022 to 2024 were sequenced using Oxford Nanopore. Assemblies and phylogenetic analyses indicate genetic …
Read PDF<h4>Introduction</h4>Malaria remains a major public health challenge across sub-Saharan Africa, with Plasmodium falciparum responsible for the vast majority of cases and deaths. In Rwanda, although control measures have led to significant progress, malaria continues to …
Read PDFRibosomal RNAs (rRNAs) serve as species-defining markers and undergo processing steps, such as excision of intervening sequences (IVSs). Direct analysis of native rRNAs is hampered by enzyme-induced biases and by the high conservation of rRNA …
Read PDFDNA methylation offers an objective method to assess the impact of smoking. In this work, we conduct a Bayesian EWAS of smoking pack years (n = 17,865, ~850k sites, Illumina EPIC array) and extend it …
Read PDFThe human <i>ALKBH</i> gene family comprises nine Fe<sup>2+</sup>/α-ketoglutarate-dependent dioxygenases that catalyze the oxidative demethylation of DNA, RNA, and proteins, thereby influencing key cellular processes. Consequently, dysregulation of these enzymes has been implicated in various human …
Read PDFMolar incisor hypomineralization (MIH) is a dental condition that affects the enamel of permanent molars and/or incisors, often leading to tooth decay. Although several etiological hypotheses have come forward, including prenatal medical problems and postnatal …
Read PDF<h4>Background</h4>Carbapenem-resistant Enterobacterales pose a significant public health threat, particularly when detected in food-producing animals and retail meat. Although carbapenems are not used in European Union animal production, sporadic cases of carbapenemase-producing <i>Escherichia coli</i> have emerged …
Read PDFThe ongoing development of human artificial chromosomes (HACs) will permit investigation into essential centromere processes and the means to deliver large genetic cargoes to target cells. Starting with large (~750 kb) yeast artificial chromosome (YAC)-based …
Read PDFAfrican swine fever virus (ASFV) is highly transmissible and can cause up to 100% mortality in pigs. The virus has spread across most regions of Asia and Europe, resulting in the deaths of millions of …
Read PDFTwo yeast strains, PYCC 10015 and PYCC 10016, were isolated from soil from an Irish forest. Sequence analysis of the internal transcribed spacer (ITS) region (ITS1-5.8S-ITS2) of the rRNA gene repeat, and the D1/D2 domain …
Read PDF<h4>Motivation</h4>Nanopore sequencing by Oxford Nanopore Technologies (ONT) enables direct analysis of DNA and RNA by capturing raw electrical signals. Different nanopore chemistries have varied k-mer lengths, current levels, and standard deviations, which are stored in …
Read PDFWild carnivores can harbor pathogens affecting wildlife conservation and domestic animal health. This study surveyed major viral pathogens in free-ranging wolves, red foxes, stone martens, and Eurasian badgers in Northwestern Italy. Duodenal samples from 140 …
Read PDFOff-white or yellowish shoots are common in tea plants (<i>Camellia sinensis</i> L.), and such albino variations are often accompanied by metabolic reprogramming, including increased contents of amino acids and lower levels of polyphenols. Nonetheless, the …
Read PDF<i>Rhodotorula pacifica</i> INDKK, an oleaginous red yeast isolated from mangrove forest soil, efficiently metabolizes biomass hydrolysates and accumulates lipids of more than 60% of its dry weight. Hybrid <i>de novo</i> genome assembly (Illumina and Oxford …
Read PDF<h4>Background</h4>Colorectal cancer (CRC) is the third most common cancer globally. Alternative splicing contributes significantly to CRC tumorigenesis through aberrant transcript generation. However, the regulatory influence of RNA modifications on splicing remains poorly understood, largely due …
Read PDFLong-read amplicon profiling through read classification limits phylogenetic analysis of amplicons while community analysis of multicopy genes, relying on unique molecular identifier (UMI) corrections, often demands deep sequencing. To address this, we present a long …
Read PDFBiodiversity monitoring using metabarcoding is now widely used as a routine environmental management tool. However, despite the rapid advancement of third-generation high-throughput sequencing platforms, there are limited studies assessing the most suitable tools and approaches …
Read PDFDuring the COVID-19 pandemic, stringent public health measures led to historically low influenza activity in Hong Kong. However, after these interventions were relaxed in 2023, Influenza A viruses (IAV), including A(H1N1)pdm09 and A(H3N2), rapidly resurfaced. …
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