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BACKGROUND: Imported malaria cases, driven by human migration and travel, pose a significant challenge to malaria elimination efforts. Genomic approaches have become essential for distinguishing between local transmission and imported infections. The state of Sarawak, …
Read PDFBACKGROUND: Aedes triseriatus is an endemic North American mosquito and the primary vector of La Crosse virus, the etiologic agent of La Crosse encephalitis. This neuroinvasive disease is the leading cause of arboviral encephalitis in …
Read PDFThe polychaete Capitella teleta is a primary model for evolutionary developmental biology, comparative genomics, conservation, and ecotoxicology. Although it was the first polychaete genome sequenced, the original assembly is outdated by modern standards. Here, we …
Read PDFThe necrotrophic predatory yeast Saccharomycopsis schoenii preys on diverse fungal species including multidrug-resistant Candida auris, making it a promising candidate for fungal biocontrol. Despite growing interest in its predation mechanisms, a high-quality reference genome is …
Read PDFGaruga floribunda var. gamblei (King ex W. W. Sm.) Kalkman, a tree species of Burseraceae (Sapindales), is rare in China and prized for its high-quality timber. Despite its economic and ecological significance, genetic architecture remains …
Read PDFBACKGROUND: Accessory genome regions of plant pathogenic fungi, which are highly variable and consist of niche-adaptive genes, play a crucial role in shaping host-specific interactions but are notoriously difficult to assemble. Fusarium oxysporum causes some …
Read PDFTropaeolum tuberosum is a tuber-forming crop native to the Andes, valued for its nutritional content, pest resistance, and adaptation to high-altitude environments. Despite its contribution to food security and sustainable agriculture, it remains an underutilized …
Read PDFWe present a contemporary high-quality, complete <i>de novo</i> assembly of <i>Wolbachia pipientis</i> (<i>w</i>Ri Merrill 23, OZ411647), an alphaproteobacterial endosymbiont of <i>Drosophila simulans (D. simulans)</i>. This assembly was generated using long-read sequencing of <i>w</i>Ri-infected <i>D. simulans</i> …
Read PDFAccurate detection of all types of mitochondrial DNA (mtDNA) variants, including single large-scale mtDNA deletions (SLSMDs) and multiple mtDNA deletions (MMDs), along with heteroplasmy quantification, is essential for Primary Mitochondrial Disease (PMD) diagnosis. This study …
Read PDF<h4>Motivation</h4>Nanopores are cutting-edge interdisciplinary tools that can analyze biomolecules at the single-molecule level for many applications, e.g. DNA sequencing. Efforts are underway to extend nanopores to proteomics, including the development of machine learning algorithms for …
Read PDF<h4>Summary</h4>Accurate annotation of coding sequences and translational features within transcript models is essential for interpreting assembled transcriptomes and their functional potential. Existing open reading frame (ORF) prediction tools typically operate on transcript FASTA files and …
Read PDFHereditary spastic paraplegia (HSP) groups rare, clinically and genetically heterogeneous neurodegenerative disorders, characterized by progressive lower-limb spasticity and weakness. Over the past decades, diagnostic strategies have evolved from pure clinical assessment to the integration of …
Read PDFCytosine methylation, a crucial epigenetic modification, plays a vital role in genomic regulation. Leveraging the advancements in long-read sequencing, we investigate the methylation patterns of polymorphic transposable element (TE) insertions of human lymphoblastoid cell lines …
Read PDFThe integration of artificial intelligence (AI) into next-generation sequencing (NGS) has revolutionized genomics, offering unprecedented advancements in data analysis, accuracy, and scalability. This review explores the synergistic relationship between AI and NGS, highlighting its transformative …
Read PDFThere is no immunohistochemical or molecular marker to confirm the histologic diagnosis of pancreatic ductal adenocarcinoma (PDAC). This is particularly important in a scenario of unknown primary. Molecularly, PDAC is characterized by a limited set …
Read PDFStructural variations (SVs ≥ 50 bp) are a critical but underexplored source of genetic diversity in cattle, shaping traits vital for productivity, adaptability, and health. Advances in long-read sequencing, pangenome graph construction, and near-complete genome …
Read PDFMethylomics has emerged as a central framework for understanding gene regulation in development and disease, yet the rapid expansion of profiling technologies, computational integration methods, and clinical applications has outpaced comprehensive synthesis. This review addresses …
Read PDFRhabdosargus sarba, the goldlined seabream, is a euryhaline marine fish of great aquaculture potential. Genome sequencing and assembly of R. sarba was carried utilizing a multi-platform sequencing strategy that included long-read sequencing (PacBio HiFi), short-read …
Read PDFMacropharyngodon meleagris is a coral reef-dwelling, benthic predatory fish renowned for its striking coloration and distinctive body patterns. It exhibits pronounced sexual dimorphism and is characterized by the presence of prominent canine-like teeth. Here, we …
Read PDFLeaf rust caused by Puccinia triticina is a yield limiting disease of cultivated wheat throughout the world. Ae. umbellulata is a diploid species of wheat wild relatives containing high genetic diversity for resistance to multiple …
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