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Bacteria AND essential genes

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https://www.readbyqxmd.com/read/29161311/expression-and-regulation-of-atl9-an-e3-ubiquitin-ligase-involved-in-plant-defense
#1
Fengyan Deng, Tingwei Guo, Mitchell Lefebvre, Steven Scaglione, Christopher J Antico, Tao Jing, Xin Yang, Weixing Shan, Katrina M Ramonell
Plants are continually exposed to a variety of pathogenic organisms, including bacteria, fungi and viruses. In response to these assaults, plants have developed various defense pathways to protect themselves from pathogen invasion. An understanding of the expression and regulation of genes involved in defense signaling is essential to controlling plant disease. ATL9, an Arabidopsis RING zinc finger protein, is an E3 ubiquitin ligase that is induced by chitin and involved in basal resistance to the biotrophic fungal pathogen, Golovinomyces cichoracearum (G...
2017: PloS One
https://www.readbyqxmd.com/read/29158242/mutations-in-sugar-nucleotide-synthesis-genes-restore-holdfast-polysaccharide-anchoring-to-caulobacter-crescentus-holdfast-anchor-mutants
#2
Gail G Hardy, Evelyn Toh, Cécile Berne, Yves V Brun
Attachment is essential for microorganisms to establish interactions with both biotic and abiotic surfaces. Stable attachment of Caulobacter crescentus to surfaces requires an adhesive polysaccharide holdfast, but the exact composition of holdfast is unknown. The holdfast is anchored to the cell envelope by outer membrane proteins HfaA, HfaB and HfaD. Holdfast anchor gene mutations result in holdfast shedding and reduced cell adherence. Translocation of HfaA and HfaD to the cell surface requires HfaB. The Wzx homolog, HfsF, is predicted to be a bacterial polysaccharide flippase...
November 20, 2017: Journal of Bacteriology
https://www.readbyqxmd.com/read/29150636/a-genetic-system-for-targeted-mutations-to-disrupt-and-restore-genes-in-the-obligate-bacterium-ehrlichia-chaffeensis
#3
Ying Wang, Lanjing Wei, Huitao Liu, Chuanmin Cheng, Roman R Ganta
Obligate intracellular bacteria (obligates) belonging to Rickettsiales and Chlamydiales cause diseases in hundreds of millions of people worldwide and in many animal species. Lack of an efficient system for targeted mutagenesis in obligates remains a major impediment in understanding microbial pathogenesis. Challenges in creating targeted mutations may be attributed to essential nature of majority of the genes and intracellular replication dependence. Despite success in generating random mutations, a method that works well in creating mutations in specific genes of interest followed by complementation remains problematic for obligates and is a highly sought-after goal...
November 17, 2017: Scientific Reports
https://www.readbyqxmd.com/read/29150501/glna-truncation-in-salmonella-enterica-results-in-a-small-colony-variant-phenotype-attenuated-host-cell-entry-and-reduced-expression-of-flagellin-and-spi-1-associated-effector-genes
#4
Philipp Aurass, Juliane Düvel, Susanne Karste, Ulrich Nübel, Wolfgang Rabsch, Antje Flieger
Many pathogenic bacteria use sophisticated survival strategies to overcome harsh environmental conditions. One is the formation of slow-growing subpopulations termed small colony variants (SCVs). Here we characterize an SCV, which spontaneously emerged from an axenic Salmonella enterica serovar Typhimurium water culture. We found that the SCV harbors a frameshift mutation in the glutamine synthetase gene glnA leading to a ∼90% truncation of the corresponding protein. Glutamine synthetase, a central enzyme in nitrogen assimilation, converts glutamate and ammonia to glutamine...
November 17, 2017: Applied and Environmental Microbiology
https://www.readbyqxmd.com/read/29149017/the-ms6-mycolyl-arabinogalactan-esterase-lysb-is-essential-for-an-efficient-mycobacteriophage-induced-lysis
#5
Adriano M Gigante, Cheri M Hampton, Rebecca S Dillard, Filipa Gil, Maria João Catalão, José Moniz-Pereira, Elizabeth R Wright, Madalena Pimentel
All dsDNA phages encode two proteins involved in host lysis, an endolysin and a holin that target the peptidoglycan and cytoplasmic membrane, respectively. Bacteriophages that infect Gram-negative bacteria encode additional proteins, the spanins, involved in disruption of the outer membrane. Recently, a gene located in the lytic cassette was identified in the genomes of mycobacteriophages, which encodes a protein (LysB) with mycolyl-arabinogalactan esterase activity. Taking in consideration the complex mycobacterial cell envelope that mycobacteriophages encounter during their life cycle, it is valuable to evaluate the role of these proteins in lysis...
November 17, 2017: Viruses
https://www.readbyqxmd.com/read/29146596/structure-and-function-of-the-leptospira-interrogans-peroxide-stress-regulator-perr-an-atypical-perr-devoid-of-a-structural-metal-binding-site
#6
Mounira Kebouchi, Frederick Saul, Raleb Taher, Annie Landier, Benedicte Beaudeau, Sarah Dubrac, Patrick Weber, Ahmed Haouz, Mathieu Picardeau, Nadia Benaroudj
Peroxide sensing is essential for bacteria survival during aerobic metabolism and host infection. Peroxide stress regulators (PerRs) are homodimeric transcriptional repressors with each monomer typically containing both structural and regulatory metal-binding sites. PerR binding to gene promoters is controlled by the presence of iron in the regulatory site, and iron-catalyzed oxidation of PerR by H2O2 leads to the dissociation of PerR from DNA. In addition to a regulatory metal, most PerRs require a structural metal for proper dimeric assembly...
November 16, 2017: Journal of Biological Chemistry
https://www.readbyqxmd.com/read/29143902/a-new-aerobic-chemolithoautotrophic-arsenic-oxidizing-microorganism-isolated-from-a-high-andean-watershed
#7
Javiera M Anguita, Claudia Rojas, Pablo A Pastén, Ignacio T Vargas
Biological arsenic oxidation has been suggested as a key biogeochemical process that controls the mobilization and fate of this metalloid in aqueous environments. To the best of our knowledge, only four aerobic chemolithoautotrophic arsenite-oxidizing (CAO) bacteria have been shown to grow via direct arsenic oxidation and to have the essential genes for chemolithoautotrophic arsenite oxidation. In this study, a new CAO bacterium was isolated from a high Andean watershed evidencing natural dissolved arsenic attenuation...
November 16, 2017: Biodegradation
https://www.readbyqxmd.com/read/29141156/plasmid-azobr_p1-borne-fabg-gene-for-putative-3-oxoacyl-acyl-carrier-protein-reductase-is-essential-for-proper-assembly-and-work-of-the-dual-flagellar-system-in-the-alphaproteobacterium-azospirillum-brasilense-sp245
#8
Yulia A Filip'echeva, Andrei V Shelud'ko, Alexei G Prilipov, Gennady L Burygin, Elizaveta M Telesheva, Stella S Yevstigneyeva, Marina P Chernyshova, Lilia P Petrova, Elena I Katsy
Azospirillum brasilense can swim and swarm owing to the activity of a constitutive polar flagellum (Fla) and inducible lateral flagella (Laf), respectively. Experimental data on the regulation of the Fla and Laf assembly in azospirilla are scarce. Here, the coding sequence (CDS) AZOBR_p1160043 (fabG1) for a putative 3-oxoacyl-[acyl-carrier protein (ACP)] reductase was found essential for the construction of both types of flagella. In an immotile leaky Fla- Laf- fabG1::Omegon-Km mutant, Sp245.1610, defects in flagellation and motility were fully complemented by expressing the CDS AZOBR_p1160043 from plasmid pRK415...
November 15, 2017: Canadian Journal of Microbiology
https://www.readbyqxmd.com/read/29138485/evaluating-the-impact-of-domestication-and-captivity-on-the-horse-gut-microbiome
#9
Jessica L Metcalf, Se Jin Song, James T Morton, Sophie Weiss, Andaine Seguin-Orlando, Frédéric Joly, Claudia Feh, Pierre Taberlet, Eric Coissac, Amnon Amir, Eske Willerslev, Rob Knight, Valerie McKenzie, Ludovic Orlando
The mammal gut microbiome, which includes host microbes and their respective genes, is now recognized as an essential second genome that provides critical functions to the host. In humans, studies have revealed that lifestyle strongly influences the composition and diversity of the gastrointestinal microbiome. We hypothesized that these trends in humans may be paralleled in mammals subjected to anthropogenic forces such as domestication and captivity, in which diets and natural life histories are often greatly modified...
November 14, 2017: Scientific Reports
https://www.readbyqxmd.com/read/29138303/cxc-chemokines-exhibit-bactericidal-activity-against-multidrug-resistant-gram-negative-pathogens
#10
Matthew A Crawford, Debra J Fisher, Lisa M Leung, Sara Lomonaco, Christine Lascols, Antonio Cannatelli, Tommaso Giani, Gian Maria Rossolini, Yohei Doi, David R Goodlett, Marc W Allard, Shashi K Sharma, Erum Khan, Robert K Ernst, Molly A Hughes
The continued rise and spread of antimicrobial resistance among bacterial pathogens pose a serious challenge to global health. Countering antimicrobial-resistant pathogens requires a multifaceted effort that includes the discovery of novel therapeutic approaches. Here, we establish the capacity of the human CXC chemokines CXCL9 and CXCL10 to kill multidrug-resistant Gram-negative bacteria, including New Delhi metallo-beta-lactamase-1-producing Klebsiella pneumoniae and colistin-resistant members of the family Enterobacteriaceae that harbor the mobile colistin resistance protein MCR-1 and thus possess phosphoethanolamine-modified lipid A...
November 14, 2017: MBio
https://www.readbyqxmd.com/read/29134939/the-nursing-home-elder-microbiome-stability-and-associations-with-age-frailty-nutrition-and-physical-location
#11
John P Haran, Vanni Bucci, Protiva Dutta, Doyle Ward, Beth McCormick
PURPOSE: The microbiome from nursing home (NH) residents is marked by a loss in diversity that is associated with increased frailty. Our objective was to explore the associations of NH environment, frailty, nutritional status and residents' age to microbiome composition and potential metabolic function. METHODOLOGY: We conducted a prospective longitudinal cohort study of 23 residents, 65 years or older, from one NH that had four floors: two separate medical intensive floors and two floors with active elders...
November 14, 2017: Journal of Medical Microbiology
https://www.readbyqxmd.com/read/29134332/type-iv-pilus-biogenesis-genes-and-their-roles-in-biofilm-formation-in-the-biological-control-agent-lysobacter-enzymogenes-oh11
#12
Jing Xia, Jiaojiao Chen, Yuan Chen, Guoliang Qian, Fengquan Liu
Type IV pilus (T4P) is widespread in bacteria, yet its biogenesis mechanism and functionality is only partially elucidated in a limited number of bacterial species. Here, by using strain OH11 as the model organism, we reported the identification of 26 T4P structural or functional component (SFC) proteins in the Gram-negative Lysobacter enzymogenes, which is a biocontrol agent potentially exploiting T4P-mediated twitching motility for antifungal activity. Twenty such SFC coding genes were individually knocked-out in-frame to create a T4P SFC deletion library...
November 13, 2017: Applied Microbiology and Biotechnology
https://www.readbyqxmd.com/read/29126241/lactobacillus-backii-and-pediococcus-damnosus-isolated-from-170-year-old-beer-recovered-from-a-shipwreck-lack-the-metabolic-activities-required-to-grow-in-modern-lager-beer
#13
Ilkka Kajala, Jordyn Bergsveinson, Vanessa Friesen, Anna Redekop, Riikka Juvonen, Erna Storgårds, Barry Ziola
In 2010, bottles of beer containing viable bacteria of the common beer-spoilage species Lactobacillus backii and Pediococcus damnosus were recovered from a shipwreck near the Åland Islands, Finland. The 170-year quiescent state maintained by the shipwreck bacteria presented a unique opportunity to study lactic acid bacteria (LAB) evolution vis a vis growth and survival in the beer environment. Three shipwreck bacteria (one L. backii strain and two P. damnosus strains) and modern-day beer-spoilage isolates of the same two species were genome sequenced, characterized for hop iso-α-acid tolerance, and growth in degassed lager and wheat beer...
November 8, 2017: FEMS Microbiology Ecology
https://www.readbyqxmd.com/read/29123253/the-gene-fmt-encoding-trna-fmet-formyl-transferase-is-essential-for-normal-growth-of-m-bovis-but-not-for-viability
#14
Miriam Vanunu, Ziv Lang, Daniel Barkan
Mycobacterium tuberculosis is a major health threat, necessitating novel drug targets. Protein synthesis in bacteria uses initiator tRNAi charged with formylated methionine residue. Deletion of the formylase gene, tRNA(fMet)-formyl transferase (fmt), causes severe growth-retardation in E. coli and in S. pneumoniae, but not in P. aeruginosa or S. aureus. fmt was predicted to be essential in M. tuberculosis by transposon library analysis, but this was never formally tested in any mycobacteria. We performed a targeted deletion of fmt in M...
November 9, 2017: Scientific Reports
https://www.readbyqxmd.com/read/29121868/sequence-based-information-theoretic-features-for-gene-essentiality-prediction
#15
Dawit Nigatu, Patrick Sobetzko, Malik Yousef, Werner Henkel
BACKGROUND: Identification of essential genes is not only useful for our understanding of the minimal gene set required for cellular life but also aids the identification of novel drug targets in pathogens. In this work, we present a simple and effective gene essentiality prediction method using information-theoretic features that are derived exclusively from the gene sequences. RESULTS: We developed a Random Forest classifier and performed an extensive model performance evaluation among and within 15 selected bacteria...
November 9, 2017: BMC Bioinformatics
https://www.readbyqxmd.com/read/29119076/are-there-benefits-in-early-diagnosis-of-prosthetic-joint-infection-with-multiplex-polymerase-chain-reaction
#16
Christian Lausmann, Akos Zahar, Mustafa Citak, Julian Brañes, Stefan Schmidl, Lars Frommelt, Thorsten Gehrke, Matthias Gebauer
Purpose Identification of bacteria and susceptibility are fundamental in periprosthetic joint infection (PJI). Especially in the case of systemic inflammatory response syndrome (SIRS) rapid detection of pathogens is essential for proper therapy. Bacterial cultures are time consuming. The polymerase chain reaction (PCR) is a non-culture molecular method and is able to rapidly identify pathogens and their resistance genes. Multiplex PCR (mPCR) can amplify several different DNA sequences simultaneously. The aim of this study was to show the value of mPCR for early diagnosis of PJI...
2017: Journal of bone and joint infection
https://www.readbyqxmd.com/read/29112397/clbs-is-a-cyclopropane-hydrolase-that-confers-colibactin-resistance
#17
Prabhanshu Tripathi, Emilee E Shine, Alan R Healy, Chung Sub Kim, Seth B Herzon, Steven D Bruner, Jason M Crawford
Certain commensal E. coli contain the clb biosynthetic gene cluster that codes for small molecule prodrugs known as precolibactins. Precolibactins are converted to colibactins by N-deacylation; the latter are believed to be genotoxic and to contribute to colorectal cancer formation. While advances toward elucidating (pre)colibactin biosynthesis have been made, the functions and mechanisms of several clb gene products remain poorly understood. Here we re-port the 2.1 Å X-ray structure and molecular function of ClbS, a gene product that confers resistance to colibactin toxicity in host bacteria and which has been shown to be important for bacterial viability...
November 7, 2017: Journal of the American Chemical Society
https://www.readbyqxmd.com/read/29109188/zinc-acquisition-mechanisms-differ-between-environmental-and-virulent-francisella-species
#18
G Brett Moreau, Aiping Qin, Barbara J Mann
Zinc is an essential nutrient for bacterial growth. Because host cells can restrict pathogen access to zinc as an antimicrobial defense mechanism, intracellular pathogens such as Francisella must sense their environment and acquire zinc in response. In many bacteria, the conserved transcription factor Zur is a key regulator of zinc acquisition. To identify mechanisms of zinc uptake in Francisella novicida U112, RNA sequencing was performed on wild-type and putative zur mutant bacteria. Only three genes were confirmed by quantitative RT-PCR as directly regulated by Zur and zinc limitation...
November 6, 2017: Journal of Bacteriology
https://www.readbyqxmd.com/read/29109184/untangling-flavobacterium-johnsoniae-gliding-motility-and-protein-secretion
#19
Joseph J Johnston, Abhishek Shrivastava, Mark J McBride
Flavobacterium johnsoniae exhibits rapid gliding motility over surfaces. At least twenty genes are involved in this process. Seven of these, gldK, gldL, gldM, gldN, sprA, sprE, and sprT encode proteins of the type IX protein secretion system (T9SS). The T9SS is required for surface localization of the motility adhesins SprB and RemA, and for secretion of the soluble chitinase ChiA. Here we demonstrate that the gliding motility proteins GldA, GldB, GldD, GldF, GldH, GldI and GldJ are also essential for secretion...
November 6, 2017: Journal of Bacteriology
https://www.readbyqxmd.com/read/29093754/a-seven-gene-cluster-in-ruminiclostridium-cellulolyticum-is-essential-for-signalization-uptake-and-catabolism-of-the-degradation-products-of-cellulose-hydrolysis
#20
Aurélie Fosses, Maria Maté, Nathalie Franche, Nian Liu, Yann Denis, Romain Borne, Pascale de Philip, Henri-Pierre Fierobe, Stéphanie Perret
Background: Like a number of anaerobic and cellulolytic Gram-positive bacteria, the model microorganism Ruminiclostridium cellulolyticum produces extracellular multi-enzymatic complexes called cellulosomes, which efficiently degrade the crystalline cellulose. Action of the complexes on cellulose releases cellobiose and longer cellodextrins but to date, little is known about the transport and utilization of the produced cellodextrins in the bacterium. A better understanding of the uptake systems and fermentation of sugars derived from cellulose could have a major impact in the field of biofuels production...
2017: Biotechnology for Biofuels
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