Chromosomal and Genetic Variations

The paper constructs a photomap of Drosophila malerkotliana polythenic chromosomes and maps the Hsp83 locus using in situ hybridization, identifying a potential chromosomal arm homology with D. melanogaster.

The paper quantifies synaptonemal complex length in threespine stickleback fish and finds sexual dimorphism and population differences.

This study shows that transposable elements contribute to the transcriptome of human pluripotent stem cells by being spliced into coding and non-coding transcripts, affecting gene expression and generating novel peptides.

The paper investigates the role of PIWI/piRNA in somatic tissues of the pearl oyster Pinctada fucata, showing that piRNA0001 regulates hundreds of endogenous genes through differential expression.

This study identifies a novel mechanism of holocentromere formation in Lepidoptera linked to low chromatin dynamics and CenH3 deficiency.

The paper investigates structural genomic variants and repetitive content in Brassica rapa genomes using long-read sequencing and optical mapping, revealing significant intraspecific diversity in genome size and structure.

The paper assembles the genome of Symbiodinium microadriaticum using Hi-C and describes its unique chromosomal structure and organization.

This study identifies and characterizes centromeres in ten Verticillium species, revealing conserved and variable features linked to repetitive elements and genome evolution.

The paper shows how a transposon insertion can trigger germline gene silencing via piRNA biogenesis and how a second insertion can reverse this silencing by altering the same process.

The paper systematically analyzes genomic features of 26 parthenogenetic animals and finds that no feature is consistently replicated across transitions to asexuality, suggesting lineage-specific patterns.

This study identifies RPB-9 as essential for piRNA-mediated silencing in C. elegans by promoting transcriptional elongation/termination at piRNA loci.

The paper shows that Ago proteins in Schistosoma mansoni control retrotransposable elements, despite lacking the piRNA pathway.

The paper performs a meta-analysis of transposable elements in Apis species using 11 genome datasets to establish a TE landscape and identify species-specific patterns.

This study identifies the hybrid origin of Populus tomentosa through genome sequencing and phylogenomic analysis, revealing it resulted from hybridization between Populus adenopoda and Populus alba var. pyramidalis around 3.93 Mya.

The paper shows symbiotic bracovirus genes have spread to all chromosomes of parasitoid wasps and are stably maintained, with synchronized expression and no immune response.

The paper analyzes simple sequence repeats (SSRs) across species and proposes a folded slippage model to explain their high occurrence and expansion.

The paper generates high-contiguity long-read assemblies of Brassica nigra, enabling localization of active centromeres and insights into the ancestral Brassica genome.

The paper identifies Ig switch-like recombination regions in zebrafish 45S rDNA loci that are involved in the formation of extrachromosomal circular DNA during oogenesis.

This study demonstrates heritable endogenization of an RNA virus, EMCV, in laboratory mice, showing viral RNA is reverse transcribed and transmitted through the germline.

This study presents three Osteoglossidae genomes to explore ancient teleost evolution, revealing divergence times and genomic changes linked to continental drift and dietary adaptations.

The paper shows that deleting large KRAB-ZFP gene clusters in mice leads to retrotransposon activation, indicating most KRAB-ZFPs are non-essential for transposon suppression.

The paper shows that full-length LINE-1s with functional ORFs are under stronger host-level selection in human genomes, as indicated by higher selection coefficients and SNP depletion in ORFs.

The paper presents a chromosome-scale reference genome of tea tree using SMRT sequencing and Hi-C, enabling annotation of gene families and retrotransposon diversity.

The paper shows that the IN1 bNLS is necessary and sufficient for retrotransposon integration into Pol III-transcribed genes.

The paper analyzes gene distribution patterns across 21 animal genomes and finds that gene distribution follows a mathematically ordered relationship with genome complexity.

The paper quantifies age-related somatic mutations and epimutations in a wild Populus trichocarpa tree over 330 years, showing lower mutation rates than annuals and distinct epimutation origins.

This study identifies stress-induced genetic changes in flax that reveal a non-random mechanism of genome reorganization and variation.

The paper uses long-read sequencing to analyze human centromere sequences, revealing substantial structural diversity and novel higher-order repeats across individuals.

The paper reports genome sequencing and transcriptome analysis of gilthead sea bream, identifying recent species-specific gene duplications linked to adaptation and immune function.