The Drosophila ZAD zinc finger protein Kipferl guides Rhino to piRNA clusters DOI Creative Commons
Lisa Baumgartner, Dominik Handler, Sebastian Platzer

и другие.

bioRxiv (Cold Spring Harbor Laboratory), Год журнала: 2022, Номер unknown

Опубликована: Май 9, 2022

SUMMARY RNA interference systems depend on the synthesis of small precursors whose sequences define target spectrum these silencing pathways. The Drosophila Heterochromatin Protein 1 (HP1) variant Rhino permits transcription PIWI-interacting (piRNA) within transposon-rich heterochromatic loci in germline cells. Current models propose that Rhino’s specific chromatin occupancy at piRNA source is determined by histone marks and maternally inherited piRNAs, but also imply existence other, undiscovered specificity cues. Here, we identify a member diverse family zinc finger associated domain (ZAD)-C 2 H proteins, Kipferl, as critical cofactor ovaries. By binding to guanosine-rich DNA motifs interacting with chromodomain, Kipferl recruits stabilizes it chromatin. In kipferl mutant flies, lost from most its instead accumulates pericentromeric satellite arrays, resulting decreased levels transposon targeting piRNAs impaired fertility. Our findings reveal sequence, addition H3K9me3 mark, determines identity provide insight into how might be caught crossfire genetic conflicts.

Язык: Английский

Evolutionary dynamics between transposable elements and their host genomes: mechanisms of suppression and escape DOI Creative Commons
Matthew A. Lawlor, Christopher E. Ellison

Current Opinion in Genetics & Development, Год журнала: 2023, Номер 82, С. 102092 - 102092

Опубликована: Июль 28, 2023

Transposable elements (TEs) are ubiquitous among eukaryotic species. Their evolutionary persistence is likely due to a combination of tolerogenic, evasive/antagonistic, and cooperative interactions with their host genomes. Here, we focus on metazoan species review recent advances related the harmful effects TE insertions, including how epigenetic TE-derived RNAs can damage cells. We discuss new findings pathways that silence TEs, such as piRNA pathway APOBEC3 Kruppel-associated box zinc finger gene families. Finally, summarize novel strategies used by TEs evade silencing, Y chromosome permissive niche for mobilization counterdefense block silencing factors.

Язык: Английский

Процитировано

11
ZNF593 regulates the cGAS-mediated innate immune response by attenuating cGAS-DNA binding DOI
Xuemei Bai, Na Dong,

Nan Cao

и другие.

Cell Death and Differentiation, Год журнала: 2025, Номер unknown

Опубликована: Апрель 10, 2025

Язык: Английский

Процитировано

0
Functional Diversification of Chromatin on Rapid Evolutionary Timescales DOI Creative Commons
Cara L. Brand, Mia T Levine

Annual Review of Genetics, Год журнала: 2021, Номер 55(1), С. 401 - 425

Опубликована: Ноя. 23, 2021

Repeat-enriched genomic regions evolve rapidly and yet support strictly conserved functions like faithful chromosome transmission the preservation of genome integrity. The leading resolution to this paradox is that DNA repeat–packaging proteins adaptively mitigate deleterious changes in repeat copy number, sequence, organization. Exciting new research has tested model coevolution by engineering evolutionary mismatches between evolving chromatin one species repeats a close relative. Here, we review these innovative evolution-guided functional analyses. studies demonstrate vital, chromatin-mediated cellular processes, including transposon suppression, transmission, retention depend on species-specific versions package repeats. In many cases, ever-evolving are selfish genetic elements, raising possibility battleground intragenomic conflict.

Язык: Английский

Процитировано

18
Genetic conflicts in budding yeast: The 2μ plasmid as a model selfish element DOI
Michelle Hays

Seminars in Cell and Developmental Biology, Год журнала: 2024, Номер 161-162, С. 31 - 41

Опубликована: Апрель 10, 2024

Язык: Английский

Процитировано

2
Evolutionarily new genes in humans with disease phenotypes reveal functional enrichment patterns shaped by adaptive innovation and sexual selection. DOI Creative Commons
Jianhai Chen,

Patrick Landback,

Deanna Arsala

и другие.

bioRxiv (Cold Spring Harbor Laboratory), Год журнала: 2023, Номер unknown

Опубликована: Ноя. 15, 2023

New genes (or young genes) are genetic novelties pivotal in mammalian evolution. However, their phenotypic impacts and evolutionary patterns over time remain elusive humans due to the technical ethical complexities of functional studies. Integrating gene age dating with Mendelian disease phenotyping, our research shows a gradual rise proportion as increases. Logistic regression modeling indicates that this increase older may be related longer sequence lengths higher burdens deleterious de novo germline variants (DNVs). We also find steady integration new biomedical phenotypes into human genome macroevolutionary timescales (~0.07% per million years). Despite stable pace, we observe distinct enrichment, pleiotropy, selective pressures across ages. Notably, show significant enrichment diseases male reproductive system, indicating strong sexual selection. Young exhibit disease-related functions tissues systems potentially linked innovations, such increased brain size, musculoskeletal phenotypes, color vision. further reveal logistic growth pattern pleiotropy time, diminishing marginal for intensifying constraints time. propose "pleiotropy-barrier" model delineates potentials innovation compared genes, process is subject natural Our study demonstrates evolutionarily critical influencing evolution adaptive innovations driven by selection, low advantage.

Язык: Английский

Процитировано

4
Annual and perennial Medicago show signatures of parallel adaptation to climate and soil in highly conserved genes DOI Creative Commons
José Luis Blanco‐Pastor, Isabel M. Liberal, Muhammet Şakiroğlu

и другие.

Molecular Ecology, Год журнала: 2021, Номер 30(18), С. 4448 - 4465

Опубликована: Июль 3, 2021

Human induced environmental change may require rapid adaptation of plant populations and crops, but the genomic basis remain poorly understood. We analysed polymorphic loci from perennial crop Medicago sativa (alfalfa or lucerne) annual legume model species M. truncatula to search for a common set candidate genes that might contribute abiotic stress in both species. identified associated with gradients along distribution two Candidate each were detected homologous linkage blocks using genome-environment (GEA) genome-phenotype association analyses. Hundreds GEA species-specific, these, 13.4% (M. sativa) 24% truncatula) also significantly phenotypic traits. A 168 candidates shared by species, which was 25.4% more than expected chance. When combined, they explained high proportion variance certain traits adaptation. Genes highly conserved functions dominated among enriched gene ontology terms have shown play central role drought avoidance tolerance mechanisms means cellular shape modifications other cell homeostasis. Our results point existence molecular determined functions. discuss these light recently proposed omnigenic complex

Язык: Английский

Процитировано

9
An accessible digital imaging workflow for multiplexed quantitative analysis of adult eye phenotypes inDrosophila melanogaster DOI Creative Commons
Heidi J. J. Pipkin, Hunter L. Lindsay, Adam T. Smiley

и другие.

bioRxiv (Cold Spring Harbor Laboratory), Год журнала: 2024, Номер unknown

Опубликована: Янв. 27, 2024

The compound eye of

Язык: Английский

Процитировано

1
Escalation of genome defense capacity enables control of an expanding meiotic driver DOI Creative Commons
Peiwei Chen,

Katherine C. Pan,

Eunice H. Park

и другие.

bioRxiv (Cold Spring Harbor Laboratory), Год журнала: 2024, Номер unknown

Опубликована: Июнь 14, 2024

Summary From RNA interference to chromatin silencing, diverse genome defense pathways silence selfish genetic elements safeguard integrity 1,2 . Despite their diversity, different share a modular organization, where numerous specificity factors identify targets and common effectors them. In the PIWI-interacting (piRNA) pathway, which controls in metazoan germline, target RNAs are first identified by complementary base pairing with piRNAs then silenced PIWI-clade nucleases via enzymatic cleavage 1,3 Such binary architecture allows systems be readily adaptable, new can captured innovation of 4,5 Thus, our current understanding against lineage-specific genes has been largely limited evolution factors, while it remains poorly understood whether other types innovations required. Here, we describe type innovation, escalates capacity piRNA pathway control recently expanded gene Drosophila melanogaster Through an vivo RNAi screen for repressors Stellate —a evolved meiotic driver 6–8 —we discovered novel factor, Trailblazer. Trailblazer is transcription factor that promotes expression two nucleases, Aub AGO3, match abundance. Recent DNA-binding domain enabled drastically elevate AGO3 D. lineage, thereby escalating silencing fertility. As copy-number expansion recurrent feature across tree life 9–12 , envision augmenting quantitatively likely repeatedly employed strategy evolution.

Язык: Английский

Процитировано

1
Orphan genes are not a distinct biological entity DOI Creative Commons

Arthur Maerllyson Alves Pereira,

María Rosa Maraño,

Ramya Bathala

и другие.

BioEssays, Год журнала: 2024, Номер unknown

Опубликована: Ноя. 3, 2024

Abstract The genome sequencing revolution has revealed that all species possess a large number of unique genes critical for trait variation, adaptation, and evolutionary innovation. One widely used approach to identify such consists detecting protein‐coding sequences with no homology in other genomes, termed orphan genes. These have been extensively studied, under the assumption they represent valid proxies species‐specific Here, we critically evaluate taxonomic, phylogenetic, sequence evolution evidence showing belong range ages thus cannot be assigned single lineage. Furthermore, show processes generating are substantially more diverse than generally thought include horizontal gene transfer, transposable element domestication, overprinting. Thus, heterogeneous collection rather biological entity, making them unsuitable as subject meaningful investigation phenotypic

Язык: Английский

Процитировано

1
HP6/Umbrea is dispensable for viability and fertility, suggesting essentiality of newly evolved genes is rare DOI Creative Commons
Sherilyn Grill,

Ashley Riley,

Monica Selvaraj

и другие.

Proceedings of the National Academy of Sciences, Год журнала: 2023, Номер 120(39)

Опубликована: Сен. 19, 2023

The newly evolved gene Heterochromatin Protein 6 (

Язык: Английский

Процитировано

3