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C4-like Sesuvium sesuvioides (Aizoaceae) exhibits CAM in cotyledons and putative C4-like + CAM metabolism in adult leaves as revealed by transcriptome analysis
BackgroundThe co-occurrence of C 4 and CAM photosynthesis in a single species seems to be unusual and rare. This is likely due to the difficulty in...
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Evaluation of heritability partitioning approaches in livestock populations
BackgroundHeritability partitioning approaches estimate the contribution of different functional classes, such as coding or regulatory variants, to...
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A novel deep-benthic sea cucumber species of Benthodytes (Holothuroidea, Elasipodida, Psychropotidae) and its comprehensive mitochondrial genome sequencing and evolutionary analysis
BackgroundThe holothurians, commonly known as sea cucumbers, are marine organisms that possess significant dietary, nutritional, and medicinal value....
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GeCKO: user-friendly workflows for genoty** complex genomes using target enrichment capture. A use case on the large tetraploid durum wheat genome
BackgroundGenoty** of individuals plays a pivotal role in various biological analyses, with technology choice influenced by multiple factors...
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Enhancing SNV identification in whole-genome sequencing data through the incorporation of known genetic variants into the minimap2 index
MotivationAlignment of reads to a reference genome sequence is one of the key steps in the analysis of human whole-genome sequencing data obtained...
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Unveiling the translational dynamics of lychee (Litchi chinesis Sonn.) in response to cold stress
Cold stress poses a significant threat to the quality and productivity of lychee ( Litchi chinensis Sonn . ). While previous research has extensively...
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Keypoint-MoSeq: parsing behavior by linking point tracking to pose dynamics
Keypoint tracking algorithms can flexibly quantify animal movement from videos obtained in a wide variety of settings. However, it remains unclear...
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METASEED: a novel approach to full-length 16S rRNA gene reconstruction from short read data
BackgroundWith the emergence of Oxford Nanopore technology, now the on-site sequencing of 16S rRNA from environments is available. Due to the error...
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Comprehensive analysis of the Xya riparia genome uncovers the dominance of DNA transposons, LTR/Gypsy elements, and their evolutionary dynamics
Transposable elements (TEs) are DNA sequences that can move or replicate within a genome, and their study has become increasingly important in...
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expHRD: an individualized, transcriptome-based prediction model for homologous recombination deficiency assessment in cancer
BackgroundHomologous recombination deficiency (HRD) stands as a clinical indicator for discerning responsive outcomes to platinum-based chemotherapy...
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Deep 3D histology powered by tissue clearing, omics and AI
To comprehensively understand tissue and organism physiology and pathophysiology, it is essential to create complete three-dimensional (3D) cellular...
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Navigating the complexity of p53-DNA binding: implications for cancer therapy
AbstractThe tumor suppressor protein p53, a transcription factor playing a key role in cancer prevention, interacts with DNA as its primary means of...
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Expression genome-wide association study identifies key regulatory variants enriched with metabolic and immune functions in four porcine tissues
BackgroundIntegration of high throughput DNA genoty** and RNA-sequencing data enables the discovery of genomic regions that regulate gene...
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A strategy to detect metabolic changes induced by exposure to chemicals from large sets of condition-specific metabolic models computed with enumeration techniques
BackgroundThe growing abundance of in vitro omics data, coupled with the necessity to reduce animal testing in the safety assessment of chemical...
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OBSERVE: guidelines for the refinement of rodent cancer models
Existing guidelines on the preparation (Planning Research and Experimental Procedures on Animals: Recommendations for Excellence (PREPARE)) and...
