Chromosomal and Genetic Variations

This study identifies transposable element insertions as a major cause of recessive lethality in Drosophila melanogaster, suggesting they drive lethal mutation frequencies through repeated invasions and suppression.

This study identifies structural variations associated with heterodichogamy in Pterocarya and Cyclocarya using a pan-genomic approach, revealing non-homologous loci across Juglandaceae genera.

The paper examines sex-specific recombination patterns in bulb mites with holocentric chromosomes, finding similar recombination landscapes in males and females with higher rates at chromosome ends and female-specific higher overall rates.

The paper generates high-quality genome assemblies for three Bouteloua species and identifies polyploidy and transposable elements, providing genomic resources for comparative studies.

The paper identifies TE fragments with regulatory potential in cerebellar development across species and introduces a framework to analyze their contribution to gene regulation.

This study investigates RIP-like mutation signatures across fungi, finding a 30-fold genome size increase in leotiomycetes linked to loss of RIP-related genes and identifying a zinc-finger protein as a novel genome defense mechanism.

The paper examines TE accumulation in Killifish hybrids, finding increased levels of bi-parentally inherited Neptune elements due to suboptimal piRNA pathway function.

The paper identifies six protein complexes in the Drosophila piRNA pathway through protein interaction screening and structural modeling.

The paper examines transcriptional compensation between homoeologs in wheat mutants with PTC mutations and finds limited upregulation.

The paper shows how the transposon Springer rewires gene expression and how Flamenco piRNA clusters remodel to allow transposon spread to the germline.

The paper presents chromosome-scale genome assemblies for two notothenioid fish species, providing insights into their evolutionary history and adaptation to climate change.

This study identifies SUGP1 as a key splicing factor in piRNA biogenesis in Bombyx mori, revealing its interaction with Y-box protein and dual role in piRNA maturation and transposon regulation.

The paper presents a high-quality genome assembly of Drosophila melanogaster ovarian somatic cells to study piRNA biology and transposon control.

The paper develops a framework to detect and trace somatic retrotransposition events in human tissues, identifying rare L1 insertions and improving detection accuracy.

The study identifies a transposon insertion in the hoxc12a 3' UTR of widefins medaka that reduces hox gene expression and causes phenotypic variation in fin rays.

This paper identifies chimeric pseudogenes formed by segmental duplications that exhibit functional roles in human-specific processes like genotoxic stress response and neuronal differentiation.

The paper identifies and traces the spread of the endogenous retrovirus Kuruka in Drosophila melanogaster populations, showing its recent horizontal transfer from an Afrotropical species.

The paper investigates the evolutionary history of visual opsins in vertebrates by analyzing jawless vertebrate genomes and finds evidence of tandem duplications before vertebrate radiation.

In spatial transcriptomes from five plant species, segmental (including whole-genome) duplicates show higher, broader, spatially variable expression and redundancy, while small-scale duplicates diverge asymmetrically.

This study identifies epigenetic sequence differences between endogenous and exogenous retroviral integrants using statistical analysis of public sequence data.

This study identifies Imp as a regulator of transposable elements and developmental genes, showing its role in suppressing TEs and maintaining genome stability during embryogenesis.

This study benchmarks TE detection tools on long-read data, showing significant variation in performance and highlighting tool-specific strengths and limitations.

The paper models TE dynamics in genomes under asexual reproduction, showing TE persistence depends on genome diversity and TE silencing mechanisms.

The paper shows PRC2 controls small RNA dynamics during DNA elimination in Paramecium by selectively degrading non-TE scnRNAs, independent of its histone methyltransferase activity.

The paper investigates genome size variation in two Hordeum species, finding that drought drives genome expansion through transposable element accumulation, with TE silencing as the key regulatory mechanism.

The paper presents the first chromosome-level genome assembly for Sichuan taimen, revealing high tandem repeat proportions and population shrinkage.

This study investigates the phylogeny and chromosomal differentiation in Cestreae by analyzing cytogenetic traits, expanding phylogenetic sampling, and reconstructing ancestral chromosome characteristics.

TEtrimmer automates TE curation by integrating alignment and classification methods, improving intact TE identification across six organisms.

The paper quantifies viral mimicry in genomes across species and shows how repetitive elements maintain pathogen-like features under selection.

This study presents chromosome-level genomes for sloths and anteaters, revealing retrocopy formation and domestication as key drivers of xenarthran genome evolution and physiological specializations.