Search the literature by keyword, topic, or author. Filter to articles with full text available.
1062 results
For the first time, the complete genome assembly of the dolphinfish (Coryphaena hippurus), a tropical cosmopolitan species with commercial fishing importance was sequenced. Using a combination of Illumina and Nanopore sequencing technologies, a draft genome …
Read PDFPitaya, (Selenicereus spp.), a fruit originating from North and Central America and extensively cultivated in China and Vietnam, holds significant economic value. Utilizing PacBio HiFi sequencing and Oxford Nanopore Technologies ultra-long sequencing, aided by Hi-C …
Read PDF<h4>Summary</h4>Viral genome sequencing and analysis are crucial for understanding the diversity and evolution of viruses. Traditional Sanger sequencing is limited by low sequence depth and is labor intensive. Next-Generation Sequencing (NGS) methods, such as Illumina, …
Read PDFBrucellosis is a globally prevalent zoonotic disease caused by <i>Brucella</i> species, posing a significant threat to both public health and the livestock industry. Despite ongoing research efforts, the mechanisms underlying <i>Brucella</i> pathogenesis remain poorly understood, …
Read PDF<h4>Background</h4>Soil salinization threatens global rice production, driving the urgent need for salt-tolerant rice cultivars. Sea rice HD961, renowned for its exceptional salt tolerance, serves as an ideal model for elucidating molecular adaptations to salinity.<h4>Results</h4>In this …
Read PDF<h4>Objective</h4>Staphylococcus capitis is part of the human microbiome and an opportunistic pathogen known to cause catheter-associated bacteraemia, prosthetic joint infections, skin and wound infections, among others. Detection of S. capitis in normally sterile body sites …
Read PDF<h4>Background</h4>Advanced long-read sequencing technologies, such as those from Oxford Nanopore Technologies and Pacific Biosciences, are finding a wide use in de novo genome sequencing projects. However, long reads typically have higher error rates relative to …
Read PDFWe present the genome sequence of <i>Pediococcus pentosaceus</i> 13.7 13A-2, isolated from a Jersey dairy cow from a conventionally managed dairy farm in Münsterland, Germany. The circular chromosome comprises 1.77 Mbp and 1,686 predicted protein-coding …
Read PDF<i>Mixta calida</i>, formerly known as <i>Pantoea calida</i>, is a motile Gram-negative, facultatively anaerobic bacterium with coccoid rod morphology. Although previously considered non-pathogenic, emerging case studies indicate its potential role in causing serious infections, including bacteraemia, …
Read PDF<h4>Motivation</h4>Raw nanopore signal analysis is a common approach in genomics to provide fast and resource-efficient analysis without translating the signals to bases (i.e. without basecalling). However, existing solutions cannot interpret raw signals directly if a …
Read PDFTritrichomonas musculus is a commensal protist colonizing the large intestine of laboratory mice. Parasite colonization reshapes the gut microbiome and modulates mucosal immunity. This parasite is refractory to axenic culture. In order to facilitate functional …
Read PDFArabica coffee (Coffea arabica) dominates global coffee production, accounting for over 60% of the world's coffee trade. The Mundo Novo cultivar, predominantly grown in Yunnan, China, represents a significant germplasm resource. However, the absence of …
Read PDFFood security remains a pressing global challenge, particularly for staple crops like rice. The traditional Yunnan landrace rice variety Mowanggu (MWG) exhibits broad-spectrum and durable resistance to Magnaporthe oryzae, the causal agent of destructive rice …
Read PDFThe construction of accurate whole genome sequences is pivotal for characterizing the genetic diversity of plant species, identifying genes controlling important traits, or understanding their evolutionary dynamics. Here, we generated the nuclear, mitochondrial, and chloroplast …
Read PDF<h4>Background</h4>Lizards have sex determination systems that can differ between even closely related species. These include XY and ZW systems, and thermolabile systems where genes and temperature interact to determine sex. The eastern three-lined skink (Bassiana …
Read PDFCultivar Désirée is an important model for potato functional genomics studies to assist breeding strategies. Here, we present a haplotype-resolved genome assembly of Désirée, achieved by assembling PacBio HiFi reads and Hi-C scaffolding, resulting in …
Read PDFWhole bacterial genome sequence reconstruction using Oxford Nanopore Technologies ('Nanopore') long-read-only sequencing may offer a lower-cost, higher-throughput alternative for pathogen surveillance to 'hybrid' assembly with recent improvements in Nanopore sequencing accuracy. We evaluated the accuracy, …
Read PDF<h4>Motivation</h4>De novo assembly creates reference genomes that underpin many modern biodiversity and conservation studies. Large numbers of new genomes are being assembled by labs around the world. To avoid duplication of efforts and variable data …
Read PDF<i>Pediococcus pentosaceus</i> was isolated from a Holstein Friesian dairy cattle from a conventionally operated farm. The complete genome of strain <i>P. pentosaceus</i> 13.7 2A-1 comprises 1.84 Mbp and 1,746 protein-coding sequences. The decoded genome sequence …
Read PDFGenomic-level studies on the adaptive evolution of animals in the Qinghai-Tibet Plateau have been rapidly increasing. However, most studies are concentrated on vertebrates, and there are few reports on invertebrates. Here, we report the chromosome-level …
Read PDF