Taxon-specific, phased siRNAs underlie a speciation locus in monkeyflowers

Science, Год журнала: 2023, Номер 379(6632), С. 576 - 582

Опубликована: Фев. 10, 2023

Taxon-specific small RNA loci are widespread in eukaryotic genomes, yet their role lineage-specific adaptation, phenotypic diversification, and speciation is poorly understood. Here, we report that a locus monkeyflowers (Mimulus), YELLOW UPPER (YUP), contains an inverted repeat region produces interfering RNAs (siRNAs) phased pattern. Although the derived from partial duplication of protein-coding gene not involved flower pigmentation, one siRNAs targets represses master regulator floral carotenoid pigmentation. YUP emerged with two genes control other aspects coloration as "superlocus" subclade Mimulus has contributed to subsequent diversification pollinator-mediated descendant species.

Язык: Английский

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Functional innovation through new genes as a general evolutionary process

Nature Genetics, Год журнала: 2025, Номер unknown

Опубликована: Янв. 28, 2025

Язык: Английский

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circEIF3I facilitates the recruitment of SMAD3 to early endosomes to promote TGF-β signalling pathway-mediated activation of MMPs in pancreatic cancer

Molecular Cancer, Год журнала: 2023, Номер 22(1)

Опубликована: Сен. 9, 2023

Abstract Background Among digestive tract tumours, pancreatic ductal adenocarcinoma (PDAC) shows the highest mortality trend. Moreover, although PDAC metastasis remains a leading cause of cancer-related deaths, biological mechanism is poorly understood. Recent evidence demonstrates that circular RNAs (circRNAs) play important roles in progression. Methods Differentially expressed circRNAs normal and tissues were screened via bioinformatics analysis. Sanger sequencing, RNase R actinomycin D assays performed to confirm loop structure circEIF3I. In vitro vivo functional experiments conducted assess role circEIF3I PDAC. MS2-tagged RNA affinity purification, mass spectrometry, immunoprecipitation, pull-down assay, fluorescence situ hybridization, immunofluorescence RNA–protein interaction simulation analysis identify circEIF3I-interacting proteins. The effects on interactions SMAD3 with TGFβRI or AP2A1 measured through co-immunoprecipitation western blotting. Results A microarray data showed was highly cells correlated TNM stage poor prognosis. Functional revealed accelerated migration, invasion by increasing MMPs expression activity. Mechanistic research indicated binds MH2 domain increases phosphorylation strengthening between early endosomes. directly promotes circEIF3I-bound recruitment Finally, we found circEif3i exerts functions mice similar those humans Conclusions Our study reveals cancer molecular scaffold interacts form ternary complex, facilitates endosomes then activates TGF-β signalling pathway. Hence, potential prognostic biomarker therapeutic target

Язык: Английский

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Nonadaptive molecular evolution of seminal fluid proteins in Drosophila

Evolution, Год журнала: 2021, Номер 75(8), С. 2102 - 2113

Опубликована: Июнь 29, 2021

Seminal fluid proteins (SFPs) are a group of reproductive that among the most evolutionarily divergent known. As SFPs can impact male and female fitness, these have been proposed to evolve under postcopulatory sexual selection (PCSS). However, fast change also result from nonadaptive evolution, extent which selective constraints prevent rapid evolution remains unknown. Using intra- interspecific sequence information, along with genomics functional data, we examine molecular approximately 300 in Drosophila. We found 50–57% SFP genes, depending on population examined, evolving relaxed selection. Only 7–12% showed evidence positive selection, no supporting other forms PCSS, 35–37% genes were selectively constrained. Further, despite associations gene location X chromosome protease activity, analysis additional genomic features revealed their lack influence Our results highlight sufficient claim driven rapidly by PCSS while identifying attributes different modes evolution.

Язык: Английский

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Deciphering the Genetic Basis of Silkworm Cocoon Colors Provides New Insights into Biological Coloration and Phenotypic Diversification

Molecular Biology and Evolution, Год журнала: 2023, Номер 40(2)

Опубликована: Янв. 31, 2023

Abstract The genetic basis of phenotypic variation is a long-standing concern evolutionary biology. Coloration has proven to be visual, easily quantifiable, and highly tractable system for analysis an ever-evolving focus biological research. Compared with the homogenized brown-yellow cocoons wild silkworms, domestic silkworms are spectacularly diverse in color, such as white, green, yellow-red; this provides outstanding model exploring diversification coloration. Herein, molecular mechanism underlying silkworm green cocoon formation was investigated, which not fully understood. We demonstrated that five seven members sugar transporter gene cluster were specifically duplicated Bombycidae evolved new spatial expression patterns predominantly expressed silk glands, accompanying complementary temporal expression; they synergistically facilitate uptake flavonoids, thus determining cocoon. Subsequently, polymorphic coloring landscape involving multiple loci evolution color from analyzed based on pan-genome sequencing data. It found coloration involved epistatic interaction between loci; all identified color-related existed silkworms; segregation, recombination, these shaped multicolored silkworms. This study revealed flavonoids-based highlights crucial role duplication followed by functional acquiring functions; furthermore, results work provide insight into innovation during domestication.

Язык: Английский

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Young duplicate genes show developmental stage- and cell type-specific expression and function in Caenorhabditis elegans

Cell Genomics, Год журнала: 2023, Номер 4(1), С. 100467 - 100467

Опубликована: Дек. 18, 2023

Gene duplication produces the material that fuels evolutionary innovation. The "out-of-testis" hypothesis suggests sperm competition creates selective pressure encouraging emergence of new genes in male germline, but somatic expression and function newly evolved are not well understood. We systematically mapped young duplicate throughout development Caenorhabditis elegans using both whole-organism single-cell transcriptomic data. Based on dynamics across developmental stages, fall into three clusters preferentially expressed early embryos, mid-stage late-stage larvae. Early embryonic involved protein degradation develop essentiality comparable to genomic average. In mid-to-late embryos L4-stage larvae, enriched intestine, epidermal cells, coelomocytes, amphid chemosensory neurons. Their molecular functions inducible indicate potential roles innate immune response perceptions, which may contribute adaptation outside sperm.

Язык: Английский

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The molecular basis of phenotypic evolution: beyond the usual suspects

Trends in Genetics, Год журнала: 2024, Номер unknown

Опубликована: Май 1, 2024

Язык: Английский

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Sexual conflict drive in the rapid evolution of new gametogenesis genes

Seminars in Cell and Developmental Biology, Год журнала: 2024, Номер 159-160, С. 27 - 37

Опубликована: Фев. 2, 2024

Язык: Английский

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Shared evolutionary trajectories of three independent neo-sex chromosomes in Drosophila

Genome Research, Год журнала: 2021, Номер 31(11), С. 2069 - 2079

Опубликована: Окт. 21, 2021

Dosage compensation (DC) on the X Chromosome counteracts deleterious effects of gene loss Y Chromosome. However, DC is not efficient if also degenerates. This indeed occurs in Drosophila miranda, which both neo-Y and neo-X are under accelerated pseudogenization. To examine generality this pattern, we investigated evolution two additional neo-sex chromosomes that emerged independently D. albomicans americana reanalyzed chromosome miranda Comparative genomic transcriptomic analyses revealed pseudogenization rate although to a lesser extent than In males, neo-X-linked genes whose neo-Y-linked homologs pseudogenized tended be up-regulated more those remain functional. Moreover, strong functional constraint highly expressed testis neo-Y, respectively. Focusing from same autosome, further found tend become parallel neo-Y. These include Idgf6 JhI-26, may unnecessary or even harmful males. Our results indicate share common evolutionary trajectory after their emergence, prevent sex being an dead end.

Язык: Английский

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Mechanisms underlying the cooperation between loss of epithelial polarity and Notch signaling during neoplastic growth in Drosophila

Development, Год журнала: 2022, Номер 149(3)

Опубликована: Янв. 10, 2022

ABSTRACT Aggressive neoplastic growth can be initiated by a limited number of genetic alterations, such as the well-established cooperation between loss cell architecture and hyperactive signaling pathways. However, our understanding how these different alterations interact influence each other remains very incomplete. Using Drosophila paradigms imaginal wing disc epithelial growth, we have monitored changes in Notch pathway activity according to polarity status cells (scrib mutant). We show that scrib mutation impacts direct transcriptional output pathway, without altering global distribution Su(H), Notch-dedicated transcription factor. The Notch-dependent neoplasms require, however, action group factors, similar those previously identified for Ras/scrib neoplasm (namely AP-1, Stat92E, Ftz-F1 basic leucine zipper factors), further suggesting importance this factor network during growth. Finally, work highlights some Notch/scrib specificities, particular role PAR domain-containing target Pdp1

Язык: Английский

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