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Genome assembly has been a cornerstone of bioinformatics for decades, with faster and more accurate assembly of unknown genomes remaining a critical challenge. However, genome diversity, structural variations, insufficient sequencing depth, and limitations of current …
Read PDFThe draft genome sequence of <i>Halomonas sulfidivorans</i>, a halophilic bacterium from the class Gammaproteobacteria, isolated from the experimental salt farm of CSIR-CSMCRI, Bhavnagar. Genomic analysis reveals the presence of genes involved in the synthesis of …
Read PDFAibika (<i>Abelmoschus manihot</i>) is a tropical leafy vegetable with great potential in the prevention of malnutrition. Its high fibre and micronutrient content makes it a valuable complement to staple foods such as rice and starchy …
Read PDFMagnolia amoena (Magnoliaceae), a deciduous tree endemic to eastern China, is valued for its striking floral diversity and traditional medicinal uses, yet remains understudied. To support its conservation and evolutionary research, we generated a high-quality …
Read PDF<h4>Motivation</h4>Quality assessment and assembly comparison are essential steps while assembling new genomes. Many tools for evaluating assemblies typically provide synthetic parameters representing assembly quality or overall features, while others provide long detailed files where it …
Read PDFHere, we report the genome sequence of the epiphytic <i>Bacillus safensis</i> Cap07D, a bacterium isolated from <i>Chenopodium album</i> L. seeds. The raw sequencing data were obtained using the NextSeq 1000 technology (Illumina).
Read PDF<h4>Motivation</h4>Advances in sequencing technologies have enabled researchers to sequence whole genomes rapidly and cheaply. However, despite improvements in genome assembly, structural genome annotation (i.e. the identification of protein-coding genes) remains challenging, particularly for eukaryotic genomes. …
Read PDFSatellite DNA (satDNA) is a family of tandemly repeated non-coding sequences in eukaryotic genomes involved in shaping genome architecture and regulation of various biological functions. Within a species, all satDNA families collectively form the satellitome. …
Read PDF<i>Flavobacterium</i> sp. strain PL002 is a psychrotolerant marine bacterium isolated from Antarctic <i>Porphyra</i> algae. This article reports the complete genome dataset of strain PL002 generated using long-read sequencing technology to improve a previously published Illumina-based …
Read PDFA copper-tolerant, siderophore-producing bacterium, <i>Rhodanobacter</i> sp. BL-MT-08, was isolated from soil from the Carpenter Snow Creek Mining District Superfund Site in Montana, which has a legacy of heavy metal contamination. The <i>Rhodanobacter</i> have been investigated …
Read PDF<i>Quercus oxyphylla</i> (E. H. Wilson) Hand.-Mazz. is a threatened evergreen subalpine tree species with fragmented habitats native to China. Here, we present a de novo chromosome-level genome assembly of this oak species by integrating PacBio …
Read PDFThe rapid expansion of publicly available genome assemblies has made genome annotation an increasingly challenging task, particularly for large-scale analyses across prokaryotic and eukaryotic organisms. While several tools exist for assembly evaluation and annotation, their …
Read PDFAdvances in sequencing technologies have made whole-genome data widely accessible, enabling research in population genetics, evolutionary biology, and conservation. However, analysing whole-genome sequencing (WGS) data remains challenging, often requiring multiple specialised tools and substantial bioinformatics …
Read PDFSpatially resolved omics enable the discovery of tissue organization of biological or clinical importance. Despite the existence of several methods, performing a rational analysis, including multiple algorithms while integrating different conditions such as clinical data, …
Read PDFThe cellular origin and molecular mechanisms underlying therapeutic resistance in colorectal cancer remain largely unclear.This study integrates single-cell transcriptomics, spatial transcriptomics, molecular docking, and multi-cohort public databases to systematically elucidate the epithelial cell-driven drug resistance …
Read PDFTranscriptional bursting, the stochastic production of mRNA in episodic pulses, is a fundamental source of cell-to-cell heterogeneity. In pluripotent stem cells (PSCs), these bursting dynamics at core pluripotency loci are not just noise but critical …
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