Molecular biology and evolution最新文献_第5页

Bone Adhered Sediments as a Source of Target and Environmental DNA and Proteins. 骨黏附沉积物作为靶和环境DNA和蛋白质的来源。

IF 5.3 1区生物学

Molecular biology and evolution Pub Date : 2025-09-01 DOI: 10.1093/molbev/msaf202

Toni de-Dios, Biancamaria Bonucci, Rémi Barbieri, Alena Kushniarevich, Eugenia D'Atanasio, Jenna Dittmar, Craig Cessford, Anu Solnik, John E Robb, Christina Warinner, Ester Oras, Christiana L Scheib

{"title":"Bone Adhered Sediments as a Source of Target and Environmental DNA and Proteins.","authors":"Toni de-Dios, Biancamaria Bonucci, Rémi Barbieri, Alena Kushniarevich, Eugenia D'Atanasio, Jenna Dittmar, Craig Cessford, Anu Solnik, John E Robb, Christina Warinner, Ester Oras, Christiana L Scheib","doi":"10.1093/molbev/msaf202","DOIUrl":"10.1093/molbev/msaf202","url":null,"abstract":"In recent years, sediments from cave environments have provided invaluable insights into ancient hominids, as well as past fauna and flora. Unfortunately, however, sediments are not always collected during excavation. In this study, we analyzed an overlooked but abundant resource in archaeological collections - sediments adhered to bone. We performed metagenomics and metaproteomics analysis on sediment from several human skeletal elements, originating from Neolithic to Medieval sites in England. We were able to reconstruct a partial human genome, the genetic profile of which matches that recovered from the original skeletal element. Additionally, aDNA sequences matching the genomes of endogenous gut microbiome bacteria were identified. We also found the presence of genetic sequences corresponding to animals and plants. In particular, we managed to retrieve the partial genome and proteome of a Black Rat (Rattus rattus), sharing close genetic affinities to other medieval Rattus rattus. Our results demonstrate that material that is usually ignored or discarded, can be used to reveal information about the individual and the environmental conditions at the time of their death.","PeriodicalId":18730,"journal":{"name":"Molecular biology and evolution","volume":" ","pages":""},"PeriodicalIF":5.3,"publicationDate":"2025-09-01","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"https://www.ncbi.nlm.nih.gov/pmc/articles/PMC12409277/pdf/","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"144961571","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":1,"RegionCategory":"生物学","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"OA","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}

引用次数: 0

The Length of Haplotype Blocks and Signals of Structural Variation in Reconstructed Genealogies. 重建家谱中单倍型片段的长度和结构变异信号。

IF 5.3 1区生物学

Molecular biology and evolution Pub Date : 2025-09-01 DOI: 10.1093/molbev/msaf190

Anastasia Ignatieva, Martina Favero, Jere Koskela, Jaromir Sant, Simon R Myers

{"title":"The Length of Haplotype Blocks and Signals of Structural Variation in Reconstructed Genealogies.","authors":"Anastasia Ignatieva, Martina Favero, Jere Koskela, Jaromir Sant, Simon R Myers","doi":"10.1093/molbev/msaf190","DOIUrl":"10.1093/molbev/msaf190","url":null,"abstract":"Recent breakthroughs have enabled the accurate inference of large-scale genealogies. Through modelling the impact of recombination on the correlation structure between genealogical local trees, we evaluate how this structure is reconstructed by leading approaches. Despite identifying pervasive biases, we show that applying a simple correction recovers the desired distributions for one algorithm, Relate. We develop a statistical test to identify clades spanning unexpectedly long genomic regions, likely reflecting regional suppression of recombination in some individuals. Our approach allows a systematic scan for inter-individual recombination rate variation at an intermediate scale, between genome-wide differences and individual hotspots. Using genealogies reconstructed with Relate for 2,504 human genomes, we identify 50 regions possessing clades with unexpectedly long genomic spans (P<1⋅10-12). The strongest signal corresponds to a known inversion on chromosome 17. The second strongest uncovers a novel 760-kb inversion on chromosome 10, common (21%) in S. Asians and correlated with GWAS hits for a range of phenotypes. Other regions indicate additional genomic rearrangements: inversions (8), copy number changes (2), or other variants (12). The remaining regions appear to reflect recombination suppression by previously unevidenced mechanisms. They are enriched for precisely spanning single genes (P=5⋅10-10), specifically those expressed in male gametogenesis, and for eQTLs (P=2⋅10-3). This suggests an extension of previously hypothesized crossover suppression within meiotic genes, towards a model of suppression varying across individuals with different expression levels. Our methods can be readily applied to other species, showing that genealogies offer previously untapped potential to study structural variation and other phenomena impacting evolution.","PeriodicalId":18730,"journal":{"name":"Molecular biology and evolution","volume":" ","pages":""},"PeriodicalIF":5.3,"publicationDate":"2025-09-01","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"https://www.ncbi.nlm.nih.gov/pmc/articles/PMC12400028/pdf/","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"144835727","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":1,"RegionCategory":"生物学","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"OA","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}

引用次数: 0

Spectral Tuning in Mammalian Melanopsins. 哺乳动物黑视素的光谱调谐。

IF 5.3 1区生物学

Molecular biology and evolution Pub Date : 2025-09-01 DOI: 10.1093/molbev/msaf158

Richard J McDowell, Mazie J Gatt, Saba Notash, Robert J Lucas

{"title":"Spectral Tuning in Mammalian Melanopsins.","authors":"Richard J McDowell, Mazie J Gatt, Saba Notash, Robert J Lucas","doi":"10.1093/molbev/msaf158","DOIUrl":"10.1093/molbev/msaf158","url":null,"abstract":"Melanopsin is a light-sensitive G-protein coupled receptor responsible for essential visual and non-visual light-mediated behaviors in mammals. Human melanopsin shows maximal sensitivity (λmax) in the blue region of the spectrum (∼480 nm), and available evidence suggests that this spectral sensitivity may be retained across mammals. However, melanopsin spectral sensitivity has been defined for only a small number of species, and the molecular mechanisms determining this property remain poorly understood. Here, we use heterologous action spectroscopy to determine the spectral sensitivity of melanopsins from 8 mammalian species, selected to cover diversity in retinal physiology, lighting niche, and evolutionary distance, and of engineered mutants of mouse melanopsin designed to explore mechanisms of spectral tuning. We find that melanopsin λmax varies by only 23 nm across tested mammalian species and that, within this range, it is not strongly predicted by phylogeny, retinal physiology, or lighting niche. Mutation of residues predicted to shift the electrostatic environment of the chromophore was successfully applied to produce long and short wavelength shifts in the spectral sensitivity of mouse melanopsins. However, neither natural diversity in melanopsin λmax nor the magnitude of shifts produced by mutagenesis could be adequately predicted by mechanisms of spectral tuning established in vertebrate visual or invertebrate opsins. Our data indicate that melanopsin spectral sensitivity is constrained across mammalian species via molecular mechanisms that are substantially distinct from those defined in other branches of the opsin family.","PeriodicalId":18730,"journal":{"name":"Molecular biology and evolution","volume":"42 9","pages":""},"PeriodicalIF":5.3,"publicationDate":"2025-09-01","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"https://www.ncbi.nlm.nih.gov/pmc/articles/PMC12461567/pdf/","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"145137982","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":1,"RegionCategory":"生物学","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"OA","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}

引用次数: 0

IF 5.3 1区生物学

Molecular biology and evolution Pub Date : 2025-09-01 DOI: 10.1093/molbev/msaf187

Heather M Hines, Tunc Dabak, Sarthok Rasique Rahman, Tatiana Terranova, Li Tian, Cecil Smith, Jonathan Berenguer Uhuad Koch, Jeffrey D Lozier

{"title":"Similar Genetic Routes Are Independently Targeted for Mimetic Color Convergence in Bumble Bees.","authors":"Heather M Hines, Tunc Dabak, Sarthok Rasique Rahman, Tatiana Terranova, Li Tian, Cecil Smith, Jonathan Berenguer Uhuad Koch, Jeffrey D Lozier","doi":"10.1093/molbev/msaf187","DOIUrl":"10.1093/molbev/msaf187","url":null,"abstract":"Bumble bees (Bombus) exhibit exceptional diversity in setal body color patterns, largely as a result of convergence onto multiple Mullerian mimicry patterns globally. When multiple species cross the same sets of mimicry complexes, they can acquire the same color polymorphisms, providing replicates of phenotypic evolution. This study examines the genetic basis of parallel color pattern acquisition in three bumble bee taxon pairs in western North America that shift between orange-red and black mid-abdominal segmental coloration in Rocky Mountain and Pacific Coastal mimicry regions: polymorphic Bombus vancouverensis and B. melanopygus, and sister species B. huntii and B. vosnesenskii. Initial gene targets are identified using a genome-wide association study, while cross-developmental transcriptomics reveals genetic pathways leading to final pigmentation genes. The data show all three lineages independently target the regulatory region of a segmental-fate determining Hox gene, Abdominal B (Abd-B), for this color transition. For B. vancouverensis and B. melanopygus, this involves different deletions in the same location, and all mimicry pairs differentially express Abd-B and ncRNAs in this locus. Transcriptomics reveals a shared core gene network across species, where Abd-B interacts with nubbin and pigment enzyme ebony to decrease black melanin production in favor of paler, redder morphs. Expression of multiple genes in the melanin biosynthesis pathway is modified to promote this phenotype, with differing roles by taxon. Replicated morphologies unveil key genes and a Hox gene hotspot, while enabling evolutionary tracking of genetic changes to phenotypic changes and informing how gene regulatory networks evolve.","PeriodicalId":18730,"journal":{"name":"Molecular biology and evolution","volume":" ","pages":""},"PeriodicalIF":5.3,"publicationDate":"2025-09-01","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"144835726","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":1,"RegionCategory":"生物学","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}

引用次数: 0

Rapid Divergence of Visual Systems and Signaling Traits to Contrasting Light Regimes During Early Speciation of African Crater Lake Cichlid Fish. 非洲火山口湖慈鲷早期形成过程中视觉系统和信号特征的快速分化。

IF 5.3 1区生物学

Molecular biology and evolution Pub Date : 2025-09-01 DOI: 10.1093/molbev/msaf204

Madeleine Carruthers, Karen L Carleton, Tyler Linderoth, Jon Bridle, Alan G Hudson, Milan Malinsky, Msafiri A Ndawala, Benjamin P Ngatunga, Andrew D Saxon, Asilatu H Shechonge, Nicholas W Roberts, George F Turner, Grégoire Vernaz, M Emília Santos, Martin J Genner

{"title":"Rapid Divergence of Visual Systems and Signaling Traits to Contrasting Light Regimes During Early Speciation of African Crater Lake Cichlid Fish.","authors":"Madeleine Carruthers, Karen L Carleton, Tyler Linderoth, Jon Bridle, Alan G Hudson, Milan Malinsky, Msafiri A Ndawala, Benjamin P Ngatunga, Andrew D Saxon, Asilatu H Shechonge, Nicholas W Roberts, George F Turner, Grégoire Vernaz, M Emília Santos, Martin J Genner","doi":"10.1093/molbev/msaf204","DOIUrl":"10.1093/molbev/msaf204","url":null,"abstract":"Sensory adaptation is widely hypothesized to drive ecological speciation, yet empirical evidence from natural populations undergoing early stage divergence remains limited. In Lake Masoko, a young crater lake in East Africa, the haplochromine cichlid Astatotilapia calliptera is undergoing early stage sympatric speciation into shallow-water littoral and deep-water benthic ecotypes that experience contrasting light environments. Here, we integrate retinal transcriptomics, phenotypic analyses, and visual modeling to uncover rapid sensory divergence associated with this ecological transition. We find striking shifts in cone opsin expression, with the benthic ecotype exhibiting a switch from short-wavelength sensitive SWS2B to SWS2A and an overall narrowing of cone sensitivity toward the center of the light spectrum, consistent with changes in deep-water light environment. In contrast, coding sequence variation in opsin genes was limited and no significant differences in allele frequencies were detected across nine polymorphic sites, pointing to expression regulation as the primary axis of early divergence in visual systems. In parallel, we observed divergence in male signaling traits, with benthic males displaying deeper red egg-spots, aligning with predictions from visual modeling of signal efficiency in different light environments. These results demonstrate rapid transcriptomic and phenotypic divergence in associated signaling traits-within ∼1,000 years-supporting a potential role for regulatory evolution in sensory adaptation during early ecological speciation.","PeriodicalId":18730,"journal":{"name":"Molecular biology and evolution","volume":" ","pages":""},"PeriodicalIF":5.3,"publicationDate":"2025-09-01","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"https://www.ncbi.nlm.nih.gov/pmc/articles/PMC12418386/pdf/","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"144883165","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":1,"RegionCategory":"生物学","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"OA","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}

引用次数: 0

A Balanced Inversion Polymorphism Exhibits a Dominance Reversal at the Gene Expression Level that Depends on Developmental Context. 平衡反转多态性在基因表达水平上表现出显性逆转，这取决于发育背景。

IF 5.3 1区生物学

Molecular biology and evolution Pub Date : 2025-09-01 DOI: 10.1093/molbev/msaf209

Esra Durmaz Mitchell, Envel Kerdaffrec, Paul Schmidt, Thomas Flatt, Sebastian Kittelmann

{"title":"A Balanced Inversion Polymorphism Exhibits a Dominance Reversal at the Gene Expression Level that Depends on Developmental Context.","authors":"Esra Durmaz Mitchell, Envel Kerdaffrec, Paul Schmidt, Thomas Flatt, Sebastian Kittelmann","doi":"10.1093/molbev/msaf209","DOIUrl":"10.1093/molbev/msaf209","url":null,"abstract":"How genetic variance for fitness is maintained is incompletely understood. Mutation-selection balance and single-locus overdominance cannot account for the large variance observed. Recent work suggests that antagonistic balancing selection, favoring different alleles in different contexts and involving beneficial dominance reversals, might contribute to maintaining fitness variance. However, while this mechanism is plausible, evidence for dominance reversals remains scarce. Here, we study how In(3R)Payne, a balanced inversion polymorphism in Drosophila melanogaster, affects gene expression and chromatin accessibility by using RNA-seq and ATAC-seq (assay for transposase-accessible chromatin with sequencing). We find that, in embryos, the inverted (INV) arrangement tends to have dominant effects, while the standard (STD) arrangement behaves like a recessive Mendelian allele. Yet, in wing discs, this pattern is reversed: STD has mostly dominant effects, whereas INV behaves recessively. Since this shift in the dominance of the INV \"allele\" between developmental contexts affects the expression of suites of genes in a concerted manner, it might be mediated by a dominance modifier, for example, a transcription factor. In favor of this idea, 25% of the differentially expressed genes between INV and STD encode transcription factors. Interestingly, while only four differentially expressed genes are shared between embryos and wing discs, one of them is HP1c, a chromatin-binding protein and major transcriptional regulator, and thus a promising candidate for mediating the context-dependent change in dominance. Although the relationship between these patterns and fitness is presently unknown, our observations are consistent with a potential role of reversals (or, more generally, shifts) of dominance in maintaining inversion polymorphism.","PeriodicalId":18730,"journal":{"name":"Molecular biology and evolution","volume":" ","pages":""},"PeriodicalIF":5.3,"publicationDate":"2025-09-01","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"https://www.ncbi.nlm.nih.gov/pmc/articles/PMC12448880/pdf/","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"144961557","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":1,"RegionCategory":"生物学","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"OA","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}

引用次数: 0

Redundant and Singular Regulatory Elements Underlie the Rapidly Evolving Pigmentation of Drosophila. 果蝇色素沉着快速进化背后的冗余和单一调控元件。

IF 5.3 1区生物学

Molecular biology and evolution Pub Date : 2025-09-01 DOI: 10.1093/molbev/msaf213

Logan A Brubaker, Hayley Long, Allison Pavlus, Melissa E Williams, Devon M Seibert, Ashley V Williams, Marc S Halfon, Mark Rebeiz, Thomas M Williams

{"title":"Redundant and Singular Regulatory Elements Underlie the Rapidly Evolving Pigmentation of Drosophila.","authors":"Logan A Brubaker, Hayley Long, Allison Pavlus, Melissa E Williams, Devon M Seibert, Ashley V Williams, Marc S Halfon, Mark Rebeiz, Thomas M Williams","doi":"10.1093/molbev/msaf213","DOIUrl":"10.1093/molbev/msaf213","url":null,"abstract":"A major hurdle in understanding the molecular changes responsible for metazoan diversity is the characterization of cis-regulatory elements (CREs) for gene regulatory networks (GRNs). CRE changes are suspected to be commonplace in trait evolution, since such changes circumvent the deleterious effects of pleiotropy. A growing list of genes, though, is known to be regulated by redundant CREs. Such redundant CRE architectures complicate the characterization of GRN evolution, as they compound the effort to characterize each locus, and raise the questions of how and whether genes with redundant architectures evolve expression. Here, we used the evolution of sexually dimorphic abdomen pigmentation of Drosophila (D.) melanogaster as a model to study the function and evolution of CREs. Numerous sequences were evaluated that were previously predicted as potential abdomen CREs. Most of these predictions were validated, including two, four, and ten that, respectively, reside in the homothorax, grainy head, and Eip74EF transcription factor loci. The homothorax CREs were found to be partially redundant for this gene's pigmentation function, and pupal-stage Homothorax expression and the CRE activities were conserved among Drosophila species with the derived dimorphic and ancestral monomorphic phenotypes. Similarly, the Eip74EF CREs were conserved in the monomorphic D. willistoni. Thus, this gene's extensive CRE spatiotemporal redundancy has been conserved for over 30 million years, predating the dimorphic trait. Pigmentation evolution has been connected elsewhere to changes in nonredundant CREs. When these traits evolve, GRN changes may be biased towards the genes with singular nonredundant CREs, while the expression of redundantly regulated genes remains conserved.","PeriodicalId":18730,"journal":{"name":"Molecular biology and evolution","volume":" ","pages":""},"PeriodicalIF":5.3,"publicationDate":"2025-09-01","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"https://www.ncbi.nlm.nih.gov/pmc/articles/PMC12449766/pdf/","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"144992911","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":1,"RegionCategory":"生物学","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"OA","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}

引用次数: 0

Generalist Malaria Parasites and Host Imprinting: Unveiling Transcriptional Memory. 多面手疟疾寄生虫和宿主印记：揭示转录记忆。

IF 5.3 1区生物学

Molecular biology and evolution Pub Date : 2025-09-01 DOI: 10.1093/molbev/msaf198

Luz García-Longoria, Vaidas Palinauskas, Justė Aželytė, Alfonso Marzal, David Ovelleiro, Olof Hellgren

{"title":"Generalist Malaria Parasites and Host Imprinting: Unveiling Transcriptional Memory.","authors":"Luz García-Longoria, Vaidas Palinauskas, Justė Aželytė, Alfonso Marzal, David Ovelleiro, Olof Hellgren","doi":"10.1093/molbev/msaf198","DOIUrl":"10.1093/molbev/msaf198","url":null,"abstract":"Generalist parasites must adapt to diverse host environments to ensure their survival and transmission. These adaptations can involve fixed genetic responses, transcriptional plasticity, or epigenetic mechanisms. The avian malaria parasite Plasmodium homocircumflexum offers an ideal model for studying transcriptional variation across hosts. We experimentally inoculated P. homocircumflexum into different bird species, bypassing the vector, to assess whether gene expression remains stable across hosts, resets in response to new environments, or reflects epigenetic inheritance. We tested two alternative hypotheses: (i) universal gene expression profile (\"one key fits all\"), where parasite expression remains consistent across hosts. Our outcomes revealed that gene expression differed significantly depending on the host species and time postinfection, rejecting this hypothesis. (ii) Transcriptional plasticity, where gene expression is determined by the recipient host. Contrary to this hypothesis, we observed that gene expression was primarily influenced by the donor at 8 d postinfection (dpi), whereas gene expression was more aligned with the recipient host at 16 dpi. We also explored two mechanisms to explain these patterns: (i) epigenetic inheritance, whereby early transcription reflects the donor environment but adjusts over time, and (ii) genetic differentiation selecting for specific haplotypes. Our data support mechanism (i): 2,647 differentially expressed genes (DEGs) were associated with the donor at 8 dpi, while only 271 DEGs were linked to the recipient at 16 dpi. Single Nucleotide Polymorphism analyses revealed low genetic differentiation, rejecting mechanism (ii). These findings suggest that P. homocircumflexum undergoes a shift from donor-dependent to recipient-dependent gene expression, likely driven by epigenetic regulation and transcriptional plasticity.","PeriodicalId":18730,"journal":{"name":"Molecular biology and evolution","volume":"42 9","pages":""},"PeriodicalIF":5.3,"publicationDate":"2025-09-01","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"https://www.ncbi.nlm.nih.gov/pmc/articles/PMC12400150/pdf/","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"144961550","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":1,"RegionCategory":"生物学","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"OA","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}

引用次数: 0

No Evidence of Sexually Antagonistic Coevolution in Drosophila Reproductive Tract Transcriptomes. 没有证据表明果蝇生殖道转录组存在性拮抗性共同进化。

IF 5.3 1区生物学

Molecular biology and evolution Pub Date : 2025-09-01 DOI: 10.1093/molbev/msaf210

Rachel C Thayer, Elizabeth S Polston, Giovanni Hanna, David J Begun

{"title":"No Evidence of Sexually Antagonistic Coevolution in Drosophila Reproductive Tract Transcriptomes.","authors":"Rachel C Thayer, Elizabeth S Polston, Giovanni Hanna, David J Begun","doi":"10.1093/molbev/msaf210","DOIUrl":"10.1093/molbev/msaf210","url":null,"abstract":"Drosophila seminal fluid proteins (SFPs) are often cited as an example of interlocus sexual conflict, wherein the proteins increase male fitness while decreasing female fitness, spurring recurring female counter-adaptations and rapid molecular evolution. This model predicts that male-expressed genetic variation in the accessory gland, which produces seminal fluid, should generate counter-evolving genetic pathways in females, resulting in sexual coevolution. Using a trio of D. melanogaster populations exhibiting substantial SFP expression divergence due to recent selection, we test for coevolution in the female post-mating transcriptome in the lower reproductive tract and head. Contrasting predictions of sexual antagonism, female post-mating gene expression is indifferent to male population of origin. Instead, our results better support the alternative hypotheses that environmental variation is the source of selection on male SFP gene expression and that population differentiation in the female post-mating transcriptome is generated by female-expressed genotypic differentiation.","PeriodicalId":18730,"journal":{"name":"Molecular biology and evolution","volume":" ","pages":""},"PeriodicalIF":5.3,"publicationDate":"2025-09-01","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"https://www.ncbi.nlm.nih.gov/pmc/articles/PMC12449178/pdf/","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"145015779","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":1,"RegionCategory":"生物学","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"OA","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}

引用次数: 0

Molecular Phylogeny of the SELMA Translocation Machinery Recounts the Evolution of Complex Photosynthetic Eukaryotes. SELMA易位机制的分子系统发育叙述了复杂光合作用真核生物的进化。

IF 5.3 1区生物学

Molecular biology and evolution Pub Date : 2025-09-01 DOI: 10.1093/molbev/msaf167

Rafael I Ponce-Toledo, David Moreira, Purificación López-García, Philippe Deschamps

{"title":"Molecular Phylogeny of the SELMA Translocation Machinery Recounts the Evolution of Complex Photosynthetic Eukaryotes.","authors":"Rafael I Ponce-Toledo, David Moreira, Purificación López-García, Philippe Deschamps","doi":"10.1093/molbev/msaf167","DOIUrl":"10.1093/molbev/msaf167","url":null,"abstract":"Photosynthetic eukaryotes and their relatives are the result of an intricate evolutionary history involving a series of plastid acquisitions through endosymbiosis, multiple reversions to heterotrophy, and sometimes total plastid losses. Among these events, one of the most debated is the emergence and diversification of the CASH lineages (Cryptophyta, Alveolata, Stramenopiles, and Haptophyta). Although they all include species bearing a complex plastid that derived from the endosymbiosis of a red alga, their phylogenetic relationships remain controversial, and the timing and number of plastid acquisitions are still undetermined. The inner metabolism of all plastids is mostly supported by nuclear-encoded proteins, and consequently, mechanisms allowing the relocation of those proteins have evolved or were recycled at each endosymbiotic event. Thus, the study of the composition and origins of those translocation machineries provides important clues for understanding how photosynthetic lineages have emerged and might be related. In CASH species, the SELMA complex, composed of about 20 proteins, is dedicated to the transport of preproteins across the periplastidial membrane, the second outermost membrane of complex red plastids. In this work, we present a comprehensive genomic survey and phylogenetic analysis of the proteins composing the SELMA complex. We confirm the presence, homology, and monophyletic origin of SELMA in the four CASH lineages and use these observations to infer a scenario for the serial transmission of secondary red plastids that differs from previous hypotheses and sheds new light on the evolution of photosynthetic eukaryotes.","PeriodicalId":18730,"journal":{"name":"Molecular biology and evolution","volume":" ","pages":""},"PeriodicalIF":5.3,"publicationDate":"2025-09-01","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"https://www.ncbi.nlm.nih.gov/pmc/articles/PMC12412216/pdf/","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"144612216","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":1,"RegionCategory":"生物学","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"OA","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}

引用次数: 0