whole-genome sequencing

This study examines gene flow and genomic structure in Dudleya abramsii ssp. setchellii, finding strong isolation by distance and limited seed dispersal contributing to spatial genetic structure.

This study identifies male-specific genome sequences for non-invasive sex identification in Nishikigoi, develops PCR markers, and establishes a field-applicable diagnostic platform.

This study uses saturation barcoding and ultra-long-read sequencing to resolve the structure and variation of human nucleolar organizer regions (NORs) in the K562 cell line.

The paper screens humanized mouse xenograft models for murine leukemia virus integration in the human genome, finding significant contamination by both xenotropic and ecotropic MLVs.

The paper presents a chromosome-level genome assembly for the endangered northern dragonhead sap beetle, providing a genomic resource for conservation.

The paper develops a method to confirm potentially pathogenic variants from whole-genome sequencing using pooled multiplex amplicon sequencing, achieving high concordance with Sanger sequencing.

This study identifies sex-determining genes and links them to self-incompatibility in an androdioecious plant species.

The paper examines how Drosophila simulans adapts to three new transposable element invasions through piRNA cluster insertions and finds that resistance evolves independently in different strains.

This study shows that reduced swimming motility accompanies B-lactam antibiotic resistance in E. coli through efflux mechanisms, with motility recovery after antibiotic removal.

This study identifies extensive horizontal gene transfer in the fungus gnat Bradysia coprophila, showing these genes contribute to stress tolerance and ecological adaptation.

The paper identifies conserved overlapping accessory ORFs in coronavirus N genes and shows that nucleotide and codon biases drive their formation.

The paper tests if mitochondrial backgrounds influence nuclear allele fate during hybridization, finding no evidence of such effects despite expected incompatibilities.

This paper introduces ACE, a method to create genomic chimeras by integrating large genomic segments from donor cells into a recipient genome, demonstrating its ability to generate stable chimeric organisms across species barriers.

This study examines genomic features and resistance mechanisms in vancomycin-resistant Enterococcus faecalis ST525 isolates, revealing variable linezolid resistance despite a single mutational mechanism.

The paper introduces Yruler, a tool to measure Y chromosome satellite arrays from sequencing reads without alignment, revealing lineage-specific variations in satellite length and composition.

The paper characterizes a unique cluster of Shigella-like organisms in Bangladesh, identifying them as potentially a new serotype of S. boydii based on phenotypic, genotypic, and serological analyses.

WheatPanRef provides a unified linear pan-reference genome for wheat, improving read alignment and enabling integration of genomic resources across diverse accessions.

The paper reconstructs the asperosaponin biosynthesis pathway in Dipsacus asperoides by integrating genomics, transcriptomics, and biochemical analyses, revealing gene family diversification and glycosylation order.

The paper highlights the lack of standardized genomic metadata in plant and metazoan genome assemblies and proposes making ploidy, cultivar, and subgenome structure mandatory metadata fields.

The paper closes the genome of a Dominican group B Streptococcus isolate, revealing a composite integrative element linking nisin P biosynthesis to antibiotic resistance genes.

This paper presents the first de novo genome assembly of the floating-hook moss Warnstorfia fluitans, along with its chloroplast and mitochondrial genomes, providing a resource for ecological and evolutionary studies.

The paper reports four new chromosome-level genome assemblies of wild Gossypium hirsutum from Yucatan, highlighting their genetic diversity and potential for improving cotton resistance traits.

This study identifies chromothripsis as a common driver of pleural mesothelioma, linked to gene deletions and poor patient survival.

This paper presents a chromosome-level genome assembly for the wolverine, providing a more complete and sex chromosome-inclusive reference for conservation studies.

This study identifies anti-phage defense systems in VREfm genomes and finds limited associations between specific systems and phage resistance, with one candidate gene reducing susceptibility.

The paper investigates the mcm4Chaos3 mutation in yeast, showing it causes genome instability by impairing specific centromere-proximal origins.

The paper identifies tandem repeats in methanogenic archaea and their viruses, showing they contribute to genomic diversity and adaptation potential.