Analysis of an Uncharacterized Gene in Caulobacter Crescentus and Its Novel Connections with Cell Cycle Regulatory Machinery

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ISBN 13 : 9781658425261
Total Pages : 149 pages
Book Rating : 4.4/5 (252 download)

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Book Synopsis Analysis of an Uncharacterized Gene in Caulobacter Crescentus and Its Novel Connections with Cell Cycle Regulatory Machinery by : Haibi Wang

Download or read book Analysis of an Uncharacterized Gene in Caulobacter Crescentus and Its Novel Connections with Cell Cycle Regulatory Machinery written by Haibi Wang and published by . This book was released on 2019 with total page 149 pages. Available in PDF, EPUB and Kindle. Book excerpt: Cell division and differentiation are complex biological phenomena that occur in all kingdoms of life. Understanding the molecular mechanisms that underlie these complex processes often requires the study of experimentally tractable model organisms. As a Gram-negative bacteria with less than four thousand genes, Caulobacter crescentus exhibits cell differentiation, highly regulated chromosome replication and segregation, and asymmetric cell division with every turn of the cell cycle. To achieve these behaviors, Caulobacter utilizes spatial control mechanisms such as sub-cellular compartmentalization and protein localization. The cell poles are particularly enriched for cell cycle regulatory proteins. Many of these proteins are localized by the hub protein PopZ, which forms a three-dimensional scaffold that also aids in chromosome segregation. The PopZ scaffold also includes proteolysis activity, which regulates cell cycle progression in a manner that is analogous to well-known eukaryotic systems. In this dissertation, I characterized an evolutionarily conserved protein of unknown function, which is now named SpbR (Swarmer pole blocking factoR). SpbR is a pole-localized protein that has co-evolved with PopZ and other polar proteins. Strikingly, SpbR over-production exhibited a severe chromosome segregation phenotype, in which the newly replicated centromere failed to travel across the cell to its normal destination at the opposite pole. SpbR overproduction results in its accumulation at the old pole, where it physically interacts with PopZ. This prevents the relocation of PopZ to the new pole, thereby eliminating a positional cue for centromere translocation. Consistent with this, the centromere translocation phenotype of SpbR overproducing cells is further enhanced in genetic backgrounds that accumulate higher SpbR or reduce chromosome segregation activity. We find that pole-localized SpbR is normally cleared by proteolysis before the time of chromosome segregation, indicating that SpbR turnover is part of the cell cycle-dependent program of polar development.

Novel Genetic Elements and Features of the Caulobacter Crescentus System

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ISBN 13 :
Total Pages : pages
Book Rating : 4.:/5 (749 download)

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Book Synopsis Novel Genetic Elements and Features of the Caulobacter Crescentus System by : Eduardo Abeliuk Acuna

Download or read book Novel Genetic Elements and Features of the Caulobacter Crescentus System written by Eduardo Abeliuk Acuna and published by . This book was released on 2011 with total page pages. Available in PDF, EPUB and Kindle. Book excerpt: In the last decade remarkable technologies, such as high-density tiling arrays and high-throughput DNA sequencing have enabled whole-genome studies at an unprecedented scale and resolution. In this work I describe how we used these technologies to map novel genetic elements as well as regulatory features of the bacterium Caulobacter crescentus, a model species used for understanding the prokaryotic cell-cycle. I describe a dynamic programming algorithm I used to determine the location of 27 novel small RNA transcripts (sRNAs), several novel antisense RNA transcripts, as well as the accurate mapping of mRNA transcripts. Many of these predictions were validated biochemically. In addition, I describe how we coupled high-throughput transposon mutagenesis with statistical analysis to map all the essential genetic elements in the Caulobacter crescentus genome to 8 base-pair accuracy. We found that 480 out of the 3960 genes contained in Caulobacter's genome are essential for cell viability, as well as 3 out of the 27 novel sRNA that we had identified. Interestingly, there are 90 essential small intergenic DNA segments of unknown function. Finally, I describe the operon organization of Caulobacter's genome.

Investigating the Genetic Linkage Between Chromosomal Replication and Cell Division in Caulobacter Crescentus

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ISBN 13 :
Total Pages : 0 pages
Book Rating : 4.:/5 (135 download)

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Book Synopsis Investigating the Genetic Linkage Between Chromosomal Replication and Cell Division in Caulobacter Crescentus by : Duha AlAwad

Download or read book Investigating the Genetic Linkage Between Chromosomal Replication and Cell Division in Caulobacter Crescentus written by Duha AlAwad and published by . This book was released on 2022 with total page 0 pages. Available in PDF, EPUB and Kindle. Book excerpt: "Caulobacter crescentus is a well-established model for studying the bacterial cell cycle, a complex process where the stages of growth, chromosome replication, and cell division often overlap, highlighting the presence of a highly coordinated regulatory network that remains partially understood. To search for novel regulators of the cell cycle, specifically of chromosomal replication, we developed a novel molecular screen to isolate dipM-like mutants. DipM is an endopeptidase and a cell division protein that was implicated in the coordination of DNA replication and cell division by our group. We believe that by generating Caulobacter mutants and selecting dipM-like phenotypes, it is possible to target defects in the pathway that regulate the progression from chromosomal replication to cell wall division, where DipM seems to be a key player. Out of nearly a hundred mutants, three dipM-like mutants were selected for genome sequencing, MUT1, MUT2, and MUT3. Bioinformatics analysis of these mutants allowed the identification of six gene candidates that could be linked to the regulation of the bacterial cell cycle, specifically chromosomal replication. We further investigated MUT1 and MUT3 by complementing them with the wildtype (WT) counterparts of the mutated genes to test for WT phenotype restoration. Our findings suggest that the identified gene candidates contribute to the cell cycle progression, specifically to chromosomal replication, by maintaining protein homeostasis. We speculate that DipM works with other regulatory proteins to sense and react to disturbances in protein homeostasis. Overall, our findings provide evidence for the effectiveness of our genetic screening technique and its capacity to detect cell cycle regulators coordinating between chromosome replication and cell wall division"--

Genomic Analysis of the Genetic Network Controlling Cell Cycle Progression in Caulobacter Crescentus

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ISBN 13 :
Total Pages : 292 pages
Book Rating : 4.:/5 (245 download)

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Book Synopsis Genomic Analysis of the Genetic Network Controlling Cell Cycle Progression in Caulobacter Crescentus by : Michael T. Laub

Download or read book Genomic Analysis of the Genetic Network Controlling Cell Cycle Progression in Caulobacter Crescentus written by Michael T. Laub and published by . This book was released on 2002 with total page 292 pages. Available in PDF, EPUB and Kindle. Book excerpt:

Regulation of Polarity and Cell Cycle Progression in Caulobacter Crescentus

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ISBN 13 :
Total Pages : 224 pages
Book Rating : 4.:/5 (63 download)

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Book Synopsis Regulation of Polarity and Cell Cycle Progression in Caulobacter Crescentus by : Hubert Lam

Download or read book Regulation of Polarity and Cell Cycle Progression in Caulobacter Crescentus written by Hubert Lam and published by . This book was released on 2006 with total page 224 pages. Available in PDF, EPUB and Kindle. Book excerpt:

Regulatory Pathways Controlling Cell Division After DNA Damage in Caulobacter Crescentus

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ISBN 13 :
Total Pages : 145 pages
Book Rating : 4.:/5 (864 download)

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Book Synopsis Regulatory Pathways Controlling Cell Division After DNA Damage in Caulobacter Crescentus by : Joshua Wexler Modell

Download or read book Regulatory Pathways Controlling Cell Division After DNA Damage in Caulobacter Crescentus written by Joshua Wexler Modell and published by . This book was released on 2013 with total page 145 pages. Available in PDF, EPUB and Kindle. Book excerpt: All cells must coordinate DNA replication with cell division in order to faithfully propagate whole chromosomes to daughter cells. During episodes of DNA damage, cells often delay division until the lesions have been repaired and replication has completed. The paradigm for the bacterial response to DNA damage is the transcriptional induction of "SOS" genes, and many organisms encode an SOS-induced cell division inhibitor. However, the mechanistic details of division inhibition are understood only in the y-proteobacterium E. coli, and it is unclear whether there are SOS-independent modes of division inhibition. I have studied the DNA damage response in the [alpha]-proteobacterium Caulobacter crescentus and identified two damage-induced cell division inhibitors. sidA is an SOS-induced division inhibitor whereas didA is induced in an SOS-independent fashion. Unlike most division inhibitors, SidA and DidA do not disrupt the localization of the cell division scaffold FtsZ or any other component of the cell division machinery or "divisome". Instead, SidA and DidA target the lateacting division proteins FtsW, FtsI, and FtsN to prevent divisome constriction, demonstrating that divisome components other than FtsZ can serve as regulatory targets. I have characterized mutations infts W andftsI which suppress the activities of both inhibitors, likely by causing cells to divide hyperactively. These results suggest that the FtsW/FtsI/FtsN subcomplex serves as an important regulatory node and may play an unexpected role in triggering divisome constriction in Caulobacter. I show that cells require at least one inhibitor to properly delay division following DNA damage, as cells lacking both inhibitors divide prematurely and suffer a viability defect in the presence of the DNA damaging agent mitomycin C (MMC). This finding suggests that some degree of redundancy exists within the Caulobacter response to MMC. Finally, I describe ongoing experiments which explore the origins of the SOS-independent induction of didA.

Ordered Transcription and DNA Replication Checkpoint Control of Cell Division Genes Mediated by a Cell Cycle Response Regulator in Caulobacter Crescentus

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ISBN 13 :
Total Pages : 114 pages
Book Rating : 4.:/5 (441 download)

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Book Synopsis Ordered Transcription and DNA Replication Checkpoint Control of Cell Division Genes Mediated by a Cell Cycle Response Regulator in Caulobacter Crescentus by : Mark Andrew Wortinger

Download or read book Ordered Transcription and DNA Replication Checkpoint Control of Cell Division Genes Mediated by a Cell Cycle Response Regulator in Caulobacter Crescentus written by Mark Andrew Wortinger and published by . This book was released on 1999 with total page 114 pages. Available in PDF, EPUB and Kindle. Book excerpt:

Molecular Microbiology of Heavy Metals

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Publisher : Springer Science & Business Media
ISBN 13 : 3540697713
Total Pages : 455 pages
Book Rating : 4.5/5 (46 download)

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Book Synopsis Molecular Microbiology of Heavy Metals by : Dietrich H. Nies

Download or read book Molecular Microbiology of Heavy Metals written by Dietrich H. Nies and published by Springer Science & Business Media. This book was released on 2007-03-24 with total page 455 pages. Available in PDF, EPUB and Kindle. Book excerpt: This book covers allocation of metals in cells, metal transporter, storage and metalloregulatory proteins, cellular responses to metal ion stress, transcription of genes involved in metal ion homeostasis, uptake of essential metals, metal efflux and other detoxification mechanisms. The book also discusses metal bioreporters for the nanomolar range of concentration and tools to address the metallome. In addition, coverage details specific metals.

Stress and Environmental Regulation of Gene Expression and Adaptation in Bacteria

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Publisher : John Wiley & Sons
ISBN 13 : 1119004896
Total Pages : 1472 pages
Book Rating : 4.1/5 (19 download)

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Book Synopsis Stress and Environmental Regulation of Gene Expression and Adaptation in Bacteria by : Frans J. de Bruijn

Download or read book Stress and Environmental Regulation of Gene Expression and Adaptation in Bacteria written by Frans J. de Bruijn and published by John Wiley & Sons. This book was released on 2016-07-13 with total page 1472 pages. Available in PDF, EPUB and Kindle. Book excerpt: Bacteria in various habitats are subject to continuously changing environmental conditions, such as nutrient deprivation, heat and cold stress, UV radiation, oxidative stress, dessication, acid stress, nitrosative stress, cell envelope stress, heavy metal exposure, osmotic stress, and others. In order to survive, they have to respond to these conditions by adapting their physiology through sometimes drastic changes in gene expression. In addition they may adapt by changing their morphology, forming biofilms, fruiting bodies or spores, filaments, Viable But Not Culturable (VBNC) cells or moving away from stress compounds via chemotaxis. Changes in gene expression constitute the main component of the bacterial response to stress and environmental changes, and involve a myriad of different mechanisms, including (alternative) sigma factors, bi- or tri-component regulatory systems, small non-coding RNA’s, chaperones, CHRIS-Cas systems, DNA repair, toxin-antitoxin systems, the stringent response, efflux pumps, alarmones, and modulation of the cell envelope or membranes, to name a few. Many regulatory elements are conserved in different bacteria; however there are endless variations on the theme and novel elements of gene regulation in bacteria inhabiting particular environments are constantly being discovered. Especially in (pathogenic) bacteria colonizing the human body a plethora of bacterial responses to innate stresses such as pH, reactive nitrogen and oxygen species and antibiotic stress are being described. An attempt is made to not only cover model systems but give a broad overview of the stress-responsive regulatory systems in a variety of bacteria, including medically important bacteria, where elucidation of certain aspects of these systems could lead to treatment strategies of the pathogens. Many of the regulatory systems being uncovered are specific, but there is also considerable “cross-talk” between different circuits. Stress and Environmental Regulation of Gene Expression and Adaptation in Bacteria is a comprehensive two-volume work bringing together both review and original research articles on key topics in stress and environmental control of gene expression in bacteria. Volume One contains key overview chapters, as well as content on one/two/three component regulatory systems and stress responses, sigma factors and stress responses, small non-coding RNAs and stress responses, toxin-antitoxin systems and stress responses, stringent response to stress, responses to UV irradiation, SOS and double stranded systems repair systems and stress, adaptation to both oxidative and osmotic stress, and desiccation tolerance and drought stress. Volume Two covers heat shock responses, chaperonins and stress, cold shock responses, adaptation to acid stress, nitrosative stress, and envelope stress, as well as iron homeostasis, metal resistance, quorum sensing, chemotaxis and biofilm formation, and viable but not culturable (VBNC) cells. Covering the full breadth of current stress and environmental control of gene expression studies and expanding it towards future advances in the field, these two volumes are a one-stop reference for (non) medical molecular geneticists interested in gene regulation under stress.

Lasso Peptides

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Publisher : Springer
ISBN 13 : 1493910108
Total Pages : 113 pages
Book Rating : 4.4/5 (939 download)

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Book Synopsis Lasso Peptides by : Yanyan Li

Download or read book Lasso Peptides written by Yanyan Li and published by Springer. This book was released on 2014-10-21 with total page 113 pages. Available in PDF, EPUB and Kindle. Book excerpt: Lasso peptides form a growing family of fascinating ribosomally-synthesized and post-translationally modified peptides produced by bacteria. They contain 15 to 24 residues and share a unique interlocked topology that involves an N-terminal 7 to 9-residue macrolactam ring where the C-terminal tail is threaded and irreversibly trapped. The ring results from the condensation of the N-terminal amino group with a side-chain carboxylate of a glutamate at position 8 or 9, or an aspartate at position 7, 8 or 9. The trapping of the tail involves bulky amino acids located in the tail below and above the ring and/or disulfide bridges connecting the ring and the tail. Lasso peptides are subdivided into three subtypes depending on the absence (class II) or presence of one (class III) or two (class I) disulfide bridges. The lasso topology results in highly compact structures that give to lasso peptides an extraordinary stability towards both protease degradation and denaturing conditions. Lasso peptides are generally receptor antagonists, enzyme inhibitors and/or antibacterial or antiviral (anti-HIV) agents. The lasso scaffold and the associated biological activities shown by lasso peptides on different key targets make them promising molecules with high therapeutic potential. Their application in drug design has been exemplified by the development of an integrin antagonist based on a lasso peptide scaffold. The biosynthesis machinery of lasso peptides is therefore of high biotechnological interest, especially since such highly compact and stable structures have to date revealed inaccessible by peptide synthesis. Lasso peptides are produced from a linear precursor LasA, which undergoes a maturation process involving several steps, in particular cleavage of the leader peptide and cyclization. The post-translational modifications are ensured by a dedicated enzymatic machinery, which is composed of an ATP-dependent cysteine protease (LasB) and a lactam synthetase (LasC) that form an enzymatic complex called lasso synthetase. Microcin J25, produced by Escherichia coli AY25, is the archetype of lasso peptides and the most extensively studied. To date only around forty lasso peptides have been isolated, but genome mining approaches have revealed that they are widely distributed among Proteobacteria and Actinobacteria, particularly in Streptomyces, making available a rich resource of novel lasso peptides and enzyme machineries towards lasso topologies.

Prokaryotic Cytoskeletons

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Publisher : Springer
ISBN 13 : 331953047X
Total Pages : 457 pages
Book Rating : 4.3/5 (195 download)

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Book Synopsis Prokaryotic Cytoskeletons by : Jan Löwe

Download or read book Prokaryotic Cytoskeletons written by Jan Löwe and published by Springer. This book was released on 2017-05-11 with total page 457 pages. Available in PDF, EPUB and Kindle. Book excerpt: This book describes the structures and functions of active protein filaments, found in bacteria and archaea, and now known to perform crucial roles in cell division and intra-cellular motility, as well as being essential for controlling cell shape and growth. These roles are possible because the cytoskeletal and cytomotive filaments provide long range order from small subunits. Studies of these filaments are therefore of central importance to understanding prokaryotic cell biology. The wide variation in subunit and polymer structure and its relationship with the range of functions also provide important insights into cell evolution, including the emergence of eukaryotic cells. Individual chapters, written by leading researchers, review the great advances made in the past 20-25 years, and still ongoing, to discover the architectures, dynamics and roles of filaments found in relevant model organisms. Others describe one of the families of dynamic filaments found in many species. The most common types of filament are deeply related to eukaryotic cytoskeletal proteins, notably actin and tubulin that polymerise and depolymerise under the control of nucleotide hydrolysis. Related systems are found to perform a variety of roles, depending on the organisms. Surprisingly, prokaryotes all lack the molecular motors associated with eukaryotic F-actin and microtubules. Archaea, but not bacteria, also have active filaments related to the eukaryotic ESCRT system. Non-dynamic fibres, including intermediate filament-like structures, are known to occur in some bacteria.. Details of known filament structures are discussed and related to what has been established about their molecular mechanisms, including current controversies. The final chapter covers the use of some of these dynamic filaments in Systems Biology research. The level of information in all chapters is suitable both for active researchers and for advanced students in courses involving bacterial or archaeal physiology, molecular microbiology, structural cell biology, molecular motility or evolution. Chapter 3 of this book is open access under a CC BY 4.0 license.

The Prokaryotes

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Publisher : Springer
ISBN 13 : 9780387334882
Total Pages : 959 pages
Book Rating : 4.3/5 (348 download)

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Book Synopsis The Prokaryotes by : Martin Dworkin

Download or read book The Prokaryotes written by Martin Dworkin and published by Springer. This book was released on 2006-12-13 with total page 959 pages. Available in PDF, EPUB and Kindle. Book excerpt: With the launch of its first electronic edition, The Prokaryotes, the definitive reference on the biology of bacteria, enters an exciting new era of information delivery. Subscription-based access is available. The electronic version begins with an online implementation of the content found in the printed reference work, The Prokaryotes, Second Edition. The content is being fully updated over a five-year period until the work is completely revised. Thereafter, material will be continuously added to reflect developments in bacteriology. This online version features information retrieval functions and multimedia components.

RNA Infrastructure and Networks

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Publisher : Springer Science & Business Media
ISBN 13 : 1461403324
Total Pages : 297 pages
Book Rating : 4.4/5 (614 download)

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Book Synopsis RNA Infrastructure and Networks by : Lesley J. Collins

Download or read book RNA Infrastructure and Networks written by Lesley J. Collins and published by Springer Science & Business Media. This book was released on 2011-09-15 with total page 297 pages. Available in PDF, EPUB and Kindle. Book excerpt: RNAs form complexes with proteins and other RNAs. The RNA‐infrastructure represents the spatiotemporal interaction of these proteins and RNAs in a cell‐wide network. RNA Infrastructure and Networks brings together these ideas to illustrate the scope of RNA‐based biology, and how connecting RNA mechanisms is a powerful tool to investigate regulatory pathways. This book is but a taste of the wide range of RNA‐based mechanisms that connect in the RNA infrastructure.

DNA Methyltransferases - Role and Function

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Publisher : Springer
ISBN 13 : 3319436244
Total Pages : 537 pages
Book Rating : 4.3/5 (194 download)

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Book Synopsis DNA Methyltransferases - Role and Function by : Albert Jeltsch

Download or read book DNA Methyltransferases - Role and Function written by Albert Jeltsch and published by Springer. This book was released on 2016-11-08 with total page 537 pages. Available in PDF, EPUB and Kindle. Book excerpt: DNA methyltransferases are important enzymes in a broad range of organisms. Dysfunction of DNA methyltransferases in humans leads to many severe diseases, including cancer. This book focuses on the biochemical properties of these enzymes, describing their structures and mechanisms in bacteria, humans and other species, including plants, and also explains the biological processes of reading of DNA methylation and DNA demethylation. It covers many emerging aspects of the biological roles of DNA methylation functioning as an essential epigenetic mark and describes the role of DNA methylation in diseases. Moreover, the book explains modern technologies, like targeted rewriting of DNA methylation by designed DNA methyltransferases, as well as technological applications of DNA methyltransferases in DNA labelling. Finally, the book summarizes recent methods for the analysis of DNA methylation in human DNA. Overall, this book represents a comprehensive state-of-the-art- work and is a must-have for advanced researchers in the field of DNA methylation and epigenetics.

Bacterial Physiology

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Publisher : Springer Science & Business Media
ISBN 13 : 3540749217
Total Pages : 377 pages
Book Rating : 4.5/5 (47 download)

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Book Synopsis Bacterial Physiology by : Walid El-Sharoud

Download or read book Bacterial Physiology written by Walid El-Sharoud and published by Springer Science & Business Media. This book was released on 2007-12-07 with total page 377 pages. Available in PDF, EPUB and Kindle. Book excerpt: The application of new molecular methodologies in the study of bacterial behavior and cell architecture has enabled new revolutionary insights and discoveries in these areas. This new text presents recent developments in bacterial physiology that are highly relevant to a wide range of readership including those interested in basic and applied knowledge. Its chapters are written by international scientific authorities at the forefront of the subject. The value of this recent knowledge in bacterial physiology is not only restricted to fundamental biology. It also extends to biotechnology and drug-discovery disciplines.

Genome Mapping and Genomics in Animal-Associated Microbes

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Publisher : Springer Science & Business Media
ISBN 13 : 3540740422
Total Pages : 253 pages
Book Rating : 4.5/5 (47 download)

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Book Synopsis Genome Mapping and Genomics in Animal-Associated Microbes by : Vishvanath Nene

Download or read book Genome Mapping and Genomics in Animal-Associated Microbes written by Vishvanath Nene and published by Springer Science & Business Media. This book was released on 2008-11-24 with total page 253 pages. Available in PDF, EPUB and Kindle. Book excerpt: Achievements and progress in genome mapping and the genomics of microbes supersede by far those for higher plants and animals, in part due to their enormous economic implication but also smaller genome size. In the post-genomic era, whole genome sequences of animal-associated microbes are providing clues to depicting the genetic basis of the complex host-pathogen relationships and the evolution of parasitism; and to improving methods of controlling pathogens. This volume focuses on a globally important group of intracellular prokaryotic pathogens which affect livestock animals. These include Brucella, Mycobacterium, Anaplasma and Ehrlichia, as well as the protozoan pathogens Cryptosporidium and Theileria, for which genome sequence data is available. Insights from comparative genomics of the microbes described provide clues to the adaptation involved in host-microbe interactions, as well as resources potentially useful for application in future research and product development.

Chlamydia Biology

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Publisher : Caister Academic Press Limited
ISBN 13 : 9781912530281
Total Pages : 0 pages
Book Rating : 4.5/5 (32 download)

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Book Synopsis Chlamydia Biology by : Ming Tan

Download or read book Chlamydia Biology written by Ming Tan and published by Caister Academic Press Limited. This book was released on 2020-02 with total page 0 pages. Available in PDF, EPUB and Kindle. Book excerpt: Containing nineteen chapters this comprehensive book is essential reading for every Chlamydia researcher.