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Topological, Functional, and Phylogenetic Analysis of the Cell Division Site Selection Protein MinJ of Bacillus subtilis. 枯草芽孢杆菌细胞分裂位点选择蛋白MinJ的拓扑、功能和系统发育分析。
IF 3.1 2区 生物学
Molecular Microbiology Pub Date : 2026-10-12 DOI: 10.1111/mmi.70119
Kehinde O Adebiyi, Laura C Lastra, Jane H Joncha, Sadie B Ruesewald, Stephen C Jacobson, Daniel B Kearns
{"title":"Topological, Functional, and Phylogenetic Analysis of the Cell Division Site Selection Protein MinJ of Bacillus subtilis.","authors":"Kehinde O Adebiyi, Laura C Lastra, Jane H Joncha, Sadie B Ruesewald, Stephen C Jacobson, Daniel B Kearns","doi":"10.1111/mmi.70119","DOIUrl":"https://doi.org/10.1111/mmi.70119","url":null,"abstract":"<p><p>The Min system disassembles FtsZ-rings after septation in Bacillus subtilis and is localized to the nascent division plane and cell poles by the protein MinJ. The N-terminal region of MinJ contains transmembrane segments while the C-terminal region contains a PDZ domain, but its membrane topology and functional domains are poorly understood. Here, we empirically tested competing topology models and found that MinJ is a nine-pass transmembrane protein with an extracellular N terminus and a cytoplasmic C terminal PDZ domain. Deletion of the PDZ domain resembled a MinJ null mutation but retained polar localization and interaction with both MinD and DivIVA. Deletion of transmembrane segments 6 and 7 abolished polar localization and interaction with MinD and DivIVA but conferred a hyper-minicell phenotype that was additive in the absence of MinD. Structural prediction by AlphaFold3 suggests that segments 6 and 7 may constitute an unusual transmembrane β-sheet, making MinJ perhaps the first of its kind to have such a secondary structure in the plasma membrane. Finally, phylogenetic analyses and structural comparison showed that MinJ sequence and structure are highly conserved within the Firmicutes and tightly co-conserved with MinD and DivIVA with which it interacts. Our work clarifies the membrane topology and functional organization of MinJ and supports models in which MinJ contributes to bacterial cell division through mechanisms beyond canonical Min system regulation.</p>","PeriodicalId":19006,"journal":{"name":"Molecular Microbiology","volume":" ","pages":""},"PeriodicalIF":3.1,"publicationDate":"2026-10-12","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"149166650","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":2,"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
Nutrient Sensing and Growth Control in Plasmodium : Beyond mTOR Signaling 疟原虫的营养感知和生长控制:超越mTOR信号
IF 3.6 2区 生物学
Molecular Microbiology Pub Date : 2026-10-12 DOI: 10.1111/mmi.70123
Felix Müller, Gabriele Pradel
{"title":"Nutrient Sensing and Growth Control in Plasmodium : Beyond mTOR Signaling","authors":"Felix Müller, Gabriele Pradel","doi":"10.1111/mmi.70123","DOIUrl":"https://doi.org/10.1111/mmi.70123","url":null,"abstract":"The mechanistic target of rapamycin (mTOR) signaling pathway is a central regulator of nutrient sensing, metabolism, growth, and stress adaptation in most eukaryotes. Malaria parasites of the genus <jats:italic>Plasmodium</jats:italic> , however, lack identifiable orthologues of mTOR kinase and its associated signaling complexes, raising the question of how these organisms coordinate environmental sensing with developmental progression and proliferation. Here, we discuss emerging evidence suggesting that <jats:italic>Plasmodium</jats:italic> has evolutionarily replaced the canonical mTOR signaling axis with a distributed regulatory architecture composed of parasite‐specific nutrient sensors, kinase‐based signaling pathways, translational repression mechanisms, and unconventional autophagy processes. Components such as KIN, PI3K, eIF2α kinases, eIF4E‐interacting protein DOZI, and Maf1 collectively preserve many hallmark outputs of mTOR signaling, including metabolic adaptation, stress tolerance, developmental plasticity, and reversible quiescence. In addition, malaria parasites interact with host mTOR pathways during infection, potentially exploiting host‐derived anabolic signaling environments to support intracellular development. These findings suggest that <jats:italic>Plasmodium</jats:italic> exemplifies an extreme case of signaling plasticity in eukaryotic evolution, demonstrating how essential mTOR‐associated functions can be maintained despite the apparent loss of the pathway itself.","PeriodicalId":19006,"journal":{"name":"Molecular Microbiology","volume":"10 1","pages":""},"PeriodicalIF":3.6,"publicationDate":"2026-10-12","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"149151806","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":2,"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 Motility Arrest of the Lyme Disease Spirochete, Borrelia burgdorferi , by Vaccine‐Induced OspA Antibodies 通过疫苗诱导的OspA抗体快速抑制莱姆病螺旋体伯氏疏螺旋体的运动
IF 3.6 2区 生物学
Molecular Microbiology Pub Date : 2026-10-06 DOI: 10.1111/mmi.70122
Ankita Bhattacharyya,Raymond Yau,Thomas M. Bartlett,Nicholas J. Mantis
{"title":"Rapid Motility Arrest of the Lyme Disease Spirochete,\u0000 Borrelia burgdorferi\u0000 , by Vaccine‐Induced\u0000 OspA\u0000 Antibodies","authors":"Ankita Bhattacharyya,Raymond Yau,Thomas M. Bartlett,Nicholas J. Mantis","doi":"10.1111/mmi.70122","DOIUrl":"https://doi.org/10.1111/mmi.70122","url":null,"abstract":"ABSTRACT Outer surface protein A (OspA)‐based Lyme disease vaccines elicit antibodies that inhibit transmission of infectious Borrelia burgdorferi spirochetes from ticks to humans, although the mechanism by which this occurs is unclear. Here we demonstrate using high‐resolution, single‐cell fluorescence video microscopy that B. burgdorferi motility is arrested within minutes by human OspA‐specific monoclonal antibodies and polyclonal OspA antisera from mice immunized with a candidate OspA mRNA lipid nanoparticle vaccine.","PeriodicalId":19006,"journal":{"name":"Molecular Microbiology","volume":"8 1","pages":""},"PeriodicalIF":3.6,"publicationDate":"2026-10-06","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"149090165","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":2,"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
Modest Changes in Extracellular pH Impose Metabolic and Envelope Remodeling in Burkholderia thailandensis 泰国伯克霍尔德菌胞外pH值的适度变化导致代谢和包膜重塑
IF 3.6 2区 生物学
Molecular Microbiology Pub Date : 2026-09-26 DOI: 10.1111/mmi.70120
Ahmed Al‐Tohamy, Sarmin Akter, Fabrizio Donnarumma, Anne Grove
{"title":"Modest Changes in Extracellular pH Impose Metabolic and Envelope Remodeling in Burkholderia thailandensis","authors":"Ahmed Al‐Tohamy, Sarmin Akter, Fabrizio Donnarumma, Anne Grove","doi":"10.1111/mmi.70120","DOIUrl":"https://doi.org/10.1111/mmi.70120","url":null,"abstract":"<jats:styled-content style=\"fixed-case\"> <jats:italic>Burkholderia thailandensis</jats:italic> </jats:styled-content> is a commonly used surrogate for pathogenic <jats:italic>Burkholderia</jats:italic> species, yet how it adapts to changes in extracellular pH remains poorly characterized. Using quantitative mass spectrometry, we report here the relative proteomes for cells exposed to a change in pH from 7.0 to either 6.0 or 8.0, conditions that may be encountered in the rhizosphere. Acute exposure to mildly acidic conditions resulted in four proteins being depleted while four accumulated based on an absolute log <jats:sub>2</jats:sub> ‐fold change of 0.4. By comparison, a transition to mildly alkaline conditions resulted in accumulation of 13 proteins and depletion of 14. Exposure to both pH 6.0 and pH 8.0 resulted in an overall reduction in the pathways linked to ribosome, flagellar assembly, and β‐lactam resistance. Consistent with the observed pathway changes, both surface motility and resistance to certain β‐lactams were greatly reduced at pH 6.0 and 8.0 compared to pH 7.0. Transcriptome changes at pH 8.0 primarily included global downregulation of genes associated with flagellar motility and chemotaxis, while genes encoding secondary metabolite biosynthetic enzymes were markedly upregulated. Taken together, our data afford insight into how <jats:styled-content style=\"fixed-case\"> <jats:italic>B. thailandensis</jats:italic> </jats:styled-content> responds to physiologically relevant pH changes to achieve optimal niche adaptation, survival, and competitive fitness.","PeriodicalId":19006,"journal":{"name":"Molecular Microbiology","volume":"12 1","pages":""},"PeriodicalIF":3.6,"publicationDate":"2026-09-26","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"149043586","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":2,"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
Archaeal Genes Code for GGDEF Domain Proteins With Diguanylate Cyclase Activity. 古细菌基因编码具有二胍酸环化酶活性的GGDEF结构域蛋白。
IF 3.1 2区 生物学
Molecular Microbiology Pub Date : 2026-09-21 DOI: 10.1111/mmi.70117
Roman Sidorov, Li Li, Ali Dadvar, Irfan Ahmad, Stefan Spring, Jörg Overmann, Ute Römling
{"title":"Archaeal Genes Code for GGDEF Domain Proteins With Diguanylate Cyclase Activity.","authors":"Roman Sidorov, Li Li, Ali Dadvar, Irfan Ahmad, Stefan Spring, Jörg Overmann, Ute Römling","doi":"10.1111/mmi.70117","DOIUrl":"https://doi.org/10.1111/mmi.70117","url":null,"abstract":"<p><p>Cyclic di-GMP is ubiquitous in Bacteria, including members of the deepest branching phyla, but has not yet been detected in Archaea. Thus, whether cyclic di-GMP was present as a signaling nucleotide in the last universal common ancestor (LUCA) of Bacteria and Archaea remains unknown. In this work, bioinformatic analyses and structural modelling identified GGDEF domain proteins in archaeal isolates and encoded by metagenomes of confirmed archaeal origin. In particular, in bacterial model organisms, phenotypic and in vivo assays, in combination with catalytic mutants, suggest that selected archaeal GGDEF domain proteins possess diguanylate cyclase activity. These include the complex REC<sub>S</sub>-PAS/PAC-PocR-GGDEF-HD-GYP domain protein of Methanocella arvoryzae MRE50, a member of the Stenosarchaea order Methanocellales. While cyclic di-GMP signaling proteins are ubiquitous in Bacteria, their presence seems to be more sporadic in Archaea. It is currently unclear whether cyclic di-GMP signaling proteins have been lost in some lineages, secondarily introduced by horizontal gene transfer into others, or whether both scenarios have occurred.</p>","PeriodicalId":19006,"journal":{"name":"Molecular Microbiology","volume":" ","pages":""},"PeriodicalIF":3.1,"publicationDate":"2026-09-21","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"149016342","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":2,"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
Synthetic Lethality of Fungal Catabolite Repressors Reveals Essential Coupling of Carbon Repression With Mitochondrial and Ribosomal Gene Expression. 真菌分解代谢抑制因子的合成致死率揭示了碳抑制与线粒体和核糖体基因表达的基本耦合。
IF 3.1 2区 生物学
Molecular Microbiology Pub Date : 2026-09-17 DOI: 10.1111/mmi.70116
Anmoldeep Randhawa, Raubins Kumar, Sonal Kapoor, Mayank Gupta, Syed Shams Yazdani
{"title":"Synthetic Lethality of Fungal Catabolite Repressors Reveals Essential Coupling of Carbon Repression With Mitochondrial and Ribosomal Gene Expression.","authors":"Anmoldeep Randhawa, Raubins Kumar, Sonal Kapoor, Mayank Gupta, Syed Shams Yazdani","doi":"10.1111/mmi.70116","DOIUrl":"https://doi.org/10.1111/mmi.70116","url":null,"abstract":"<p><p>Carbon catabolite repression (CCR) enables fungi to preferentially utilize favorable carbon sources through global transcriptional control. In filamentous fungi, CCR is classically attributed to the C2H2 zinc-finger repressor Mig1/CreA; however, residual repression following Mig1 disruption suggests additional regulatory layers in Talaromyces pinophilus (previously called Penicillium funiculosum NCIM1228). Here, we identify Mig3, a previously uncharacterized, Eurotiales-specific C2H2 transcription factor that functions redundantly with Mig1 in CCR. Mig3 contains conserved N-terminal zinc-finger motifs and a fungal transcription factor middle homology region and binds canonical Mig1 response elements with higher DNA affinity. Genetic analyses reveal that simultaneous loss of Mig1 and Mig3 is synthetically lethal, indicating an essential shared function beyond carbon repression. Integrative transcriptomic, chromatin immunoprecipitation sequencing, and proteomic analyses demonstrate that Mig1 and Mig3 directly regulate genes encoding mitochondrial and ribosomal components, including key factors involved in oxidative phosphorylation, while repressing genes required for alternative carbon metabolism. Loss of either repressor compromises expression of respiratory and ribosomal genes and confers hypersensitivity to mitochondrial and ribosomal inhibitors. In addition, both repressors physically associate with mitochondrial, ribosomal, and central metabolic proteins, suggesting coordination of transcriptional and posttranscriptional regulatory mechanisms. Together, our findings redefine fungal catabolite repressors as metabolic gatekeepers that couple CCR to mitochondrial and ribosome biogenesis, thereby controlling the metabolic switch between core cellular growth processes and enzyme secretion.</p>","PeriodicalId":19006,"journal":{"name":"Molecular Microbiology","volume":" ","pages":""},"PeriodicalIF":3.1,"publicationDate":"2026-09-17","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"148990668","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":2,"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
A Genetically Encoded Marker for Imaging of Internal Plasmodium Membranes 一种用于内疟原虫膜成像的基因编码标记
IF 3.6 2区 生物学
Molecular Microbiology Pub Date : 2026-09-15 DOI: 10.1111/mmi.70098
Leah Zink, Viola Reuschenbach, Samy Sid Ahmed, Muriel Lauer, Jana Niethammer, Aistė Kudulytė, Katharina Zorko, Oliver T. Fackler, Franziska Hentzschel, Markus Ganter
{"title":"A Genetically Encoded Marker for Imaging of Internal Plasmodium Membranes","authors":"Leah Zink, Viola Reuschenbach, Samy Sid Ahmed, Muriel Lauer, Jana Niethammer, Aistė Kudulytė, Katharina Zorko, Oliver T. Fackler, Franziska Hentzschel, Markus Ganter","doi":"10.1111/mmi.70098","DOIUrl":"https://doi.org/10.1111/mmi.70098","url":null,"abstract":"Fluorescence microscopy is a powerful tool to analyze the subcellular architecture, and long‐term live‐cell imaging permits the analysis of the dynamics of intracellular structures, such as membranes. Fluorescent labeling of the plasma membrane of <jats:italic>Plasmodium</jats:italic> , the causative agent of malaria, via membrane‐resident proteins has been described, but proteins that broadly mark internal membranes are currently elusive. Alternatively, general membrane dyes can be employed to study membrane dynamics; however, we find that the membrane dye BODIPY TR Ceramide has adverse effects on cell viability during live‐cell imaging. To overcome this limitation, we present IMMP (Internal Membrane Marker for <jats:italic>Plasmodium</jats:italic> ), a 32‐amino acid long peptide derived from <jats:italic>P. falciparum</jats:italic> PCNA1, which targets (fluorescent) protein tags to internal membranes for detection in live or fixed samples. Importantly, IMMP enables non‐invasive, long‐term live‐cell imaging of internal membranes without affecting <jats:italic>P. falciparum</jats:italic> viability and is functional in blood stages of both the human malaria parasite <jats:italic>P. falciparum</jats:italic> and the rodent‐infecting parasite <jats:italic>P. berghei</jats:italic> , as well as in <jats:italic>P. berghei</jats:italic> mosquito stages. IMMP is also compatible with advanced techniques such as expansion microscopy. Together, our results establish IMMP as a tool for internal membrane imaging in <jats:italic>Plasmodium</jats:italic> .","PeriodicalId":19006,"journal":{"name":"Molecular Microbiology","volume":"53 1","pages":""},"PeriodicalIF":3.6,"publicationDate":"2026-09-15","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"148964290","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":2,"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
The Orphan Histidine Kinase TodK Influences Myxococcus xanthus Multicellular Development by Inactivating the CRP /Fnr Homolog, MrpC 孤儿组氨酸激酶TodK通过失活CRP /Fnr同源物MrpC影响黄粘球菌的多细胞发育
IF 3.6 2区 生物学
Molecular Microbiology Pub Date : 2026-09-15 DOI: 10.1111/mmi.70115
Christopher Mataczynski, Maike Glaser, Stuart Huntley, Penelope I. Higgs
{"title":"The Orphan Histidine Kinase TodK Influences Myxococcus xanthus Multicellular Development by Inactivating the CRP /Fnr Homolog, MrpC","authors":"Christopher Mataczynski, Maike Glaser, Stuart Huntley, Penelope I. Higgs","doi":"10.1111/mmi.70115","DOIUrl":"https://doi.org/10.1111/mmi.70115","url":null,"abstract":"Environmental bacteria have abundant signaling systems wired into complex gene regulatory networks to adapt to fluctuating conditions. In <jats:styled-content style=\"fixed-case\"> <jats:italic>Myxococcus xanthus</jats:italic> </jats:styled-content> , starvation triggers a developmental program (specialized biofilm) that produces spore‐filled multicellular fruiting bodies surrounded by a distinct quiescent state termed peripheral rods. Fruiting body structure as well as the proportion of cells following each fate can be tuned by a large repertoire of signaling proteins, including numerous orphan histidine kinases. Here, we focus on the histidine kinase TodK, which was previously demonstrated to influence developmental progression. We find that loss of TodK produces distinct developmental phenotypes that vary with environmental conditions. To quantify these effects, we developed an image‐analysis pipeline that measures aggregation and fruiting body patterning during development on nutrient‐limited agar. These analyses revealed the <jats:italic>todK</jats:italic> mutant prematurely aggregates particularly at the peripheries of the colony. Under submerged‐culture conditions, initial production of aggregates was observed with wild‐type timing, but these aggregates displayed accelerated transition to mature fruiting bodies. Overexpression of active TodK completely blocked fruiting body formation. Molecular analyses demonstrated that TodK overproduction suppressed expression of core developmental regulators including FruA and CsgA. Interestingly, protein accumulation of MrpC, a transcription factor necessary for expression of both FruA and CsgA, was not significantly perturbed. These data suggest TodK silences MrpC's ability to activate transcription of key developmental targets. Together, these findings establish TodK as a modulator of developmental progression and demonstrate how quantitative phenotyping approaches can reveal biologically meaningful functions for orphan histidine kinases whose mutant phenotypes might otherwise appear subtle.","PeriodicalId":19006,"journal":{"name":"Molecular Microbiology","volume":"34 1","pages":""},"PeriodicalIF":3.6,"publicationDate":"2026-09-15","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"148964292","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":2,"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 Translation of the Early Coding Region Promotes Premature Transcription Termination, Reducing Protein Expression in Escherichia coli 在大肠杆菌中,早期编码区的快速翻译促进转录过早终止,降低蛋白表达
IF 3.6 2区 生物学
Molecular Microbiology Pub Date : 2026-09-12 DOI: 10.1111/mmi.70113
Steen Pedersen, Alberte Honoré Jepsen, Bertil Gummesson, Namiko Mitarai, Kim Sneppen, Sine Lo Svenningsen
{"title":"Rapid Translation of the Early Coding Region Promotes Premature Transcription Termination, Reducing Protein Expression in Escherichia coli ","authors":"Steen Pedersen, Alberte Honoré Jepsen, Bertil Gummesson, Namiko Mitarai, Kim Sneppen, Sine Lo Svenningsen","doi":"10.1111/mmi.70113","DOIUrl":"https://doi.org/10.1111/mmi.70113","url":null,"abstract":"Slowly translated codons are overrepresented among the first approximately 30 codons of natural genes across all domains of life, yet the functional basis for this conserved feature remains incompletely understood. Using the <jats:italic> <jats:styled-content style=\"fixed-case\">Escherichia coli</jats:styled-content> lacZ </jats:italic> gene as a model, we previously showed that insertion of fast‐translated codons into the early coding region dramatically reduces β‐galactosidase production by increasing premature transcription termination and decreasing mRNA stability. Here we show that premature transcription termination events occur several nucleotides downstream of the fast‐codon inserts, at positions coinciding with previously characterized Rho‐dependent intragenic termination sites in <jats:italic>lacZ</jats:italic> . To exclude the possibility that the specific amino acid sequence of the inserts—rather than their translation speed—was responsible for termination, we constructed two additional <jats:italic>lacZ</jats:italic> variants with distinct fast‐translated sequences, including one replacing the 30 earliest <jats:italic>lacZ</jats:italic> codons with their fastest synonymous alternatives. Both variants showed premature transcription termination of comparable magnitude to the original inserts, demonstrating that it is the high translation rate itself which causes premature termination. Analysis of a conservative set of seven high‐confidence fast‐translated codons across natural highly expressed genes and the synthetic constructs revealed that a run of consecutive fast codons is the feature that most clearly distinguishes the terminating sequences from natural genes. We propose that excessively rapid synthesis of the N‐terminal part of a polypeptide may impair its proper entry into the ribosomal exit tunnel, thereby disrupting transcription‐translation coupling and exposing downstream mRNA to Rho‐dependent termination.","PeriodicalId":19006,"journal":{"name":"Molecular Microbiology","volume":"185 1","pages":""},"PeriodicalIF":3.6,"publicationDate":"2026-09-12","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"148946747","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":2,"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
Regulation by the Transcriptional Regulator YdcI in E. coli and (p) ppGpp ‐Dependent Activation of ydcI Expression 转录调节剂YdcI在大肠杆菌中的调控和(p) ppGpp依赖性YdcI表达的激活
IF 3.6 2区 生物学
Molecular Microbiology Pub Date : 2026-09-12 DOI: 10.1111/mmi.70110
Ria Basu Roy, Karin Schnetz
{"title":"Regulation by the Transcriptional Regulator YdcI in E. coli and (p) ppGpp ‐Dependent Activation of ydcI Expression","authors":"Ria Basu Roy, Karin Schnetz","doi":"10.1111/mmi.70110","DOIUrl":"https://doi.org/10.1111/mmi.70110","url":null,"abstract":"YdcI, a LysR‐type transcription regulator, has been associated with various phenotypes related to stress response and metabolic adaptation in <jats:italic> <jats:styled-content style=\"fixed-case\">Escherichia coli</jats:styled-content> and <jats:styled-content style=\"fixed-case\">Salmonella enterica</jats:styled-content> </jats:italic> . This work addresses regulation of specific target loci by YdcI as well as regulation of <jats:italic>ydcI</jats:italic> expression and YdcI synthesis in <jats:styled-content style=\"fixed-case\"> <jats:italic>E. coli</jats:italic> </jats:styled-content> . DNA binding of YdcI to loci previously identified through ChIP‐exo analysis in <jats:styled-content style=\"fixed-case\"> <jats:italic>E. coli</jats:italic> </jats:styled-content> K12 was validated for 10 loci by electrophoretic mobility shift assays. Two of these loci, <jats:italic>iraP</jats:italic> and <jats:italic>mqo</jats:italic> , are regulated by YdcI as shown using promoter <jats:italic>lacZ</jats:italic> fusions, while regulation of the other loci is marginal, at least under the conditions tested. Our data suggest that YdcI acts as an H‐NS antagonist at the H‐NS repressed and (p)ppGpp‐dependent stress‐induced <jats:italic>iraP</jats:italic> promoter. Gene <jats:italic>iraP</jats:italic> encodes the RssB anti‐adaptor protein IraP that prevents RssB‐mediated targeting of RpoS for degradation. <jats:italic>Gene mqo</jats:italic> , which is repressed by YdcI, encodes the TCA cycle enzyme malate: quinone oxidoreductase. Other YdcI bound loci encode enzymes involved in the TCA cycle, as well as membrane transport proteins. Furthermore, the transcription of the <jats:italic>ydcI</jats:italic> gene itself is induced by the alarmone (p)ppGpp under phosphate stress conditions; it is not autoregulated, and a significant increase in YdcI protein levels occurs upon entry from early to mid‐exponential growth phase. Taken together, aspects of regulation by YdcI and of <jats:italic>ydcI</jats:italic> expression as well as YdcI synthesis are presented that relate to its potential role in the response to abiotic stresses and control of metabolism in <jats:italic> <jats:styled-content style=\"fixed-case\">E. coli</jats:styled-content> </jats:italic> .","PeriodicalId":19006,"journal":{"name":"Molecular Microbiology","volume":"6 1","pages":""},"PeriodicalIF":3.6,"publicationDate":"2026-09-12","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"148946748","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":2,"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
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