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Journal of Bacteriology

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https://www.readbyqxmd.com/read/28630130/how-a-genetically-stable-extremophile-evolves-modes-of-genome-diversification-in-the-archaeon-sulfolobus-acidocaldarius
#1
Dominic Mao, Dennis W Grogan
In order to analyze in molecular terms how Sulfolobus genomes diverge, damage-induced mutations and natural polymorphisms (PMs) were identified in laboratory constructs and wild-type isolates, respectively, of Sulfolobus acidocaldarius Among wild-type isolates drawn from one local population, pairwise nucleotide divergence averaged 4 x 10(-6), which is about 0.15% of the corresponding divergence reported for Sulfolobus islandicus The most variable features of wild-type S. acidocaldarius genomes were homopolymer (mononucleotide) tracts and longer tandem repeats, consistent with the spontaneous mutations that occur under laboratory conditions...
June 19, 2017: Journal of Bacteriology
https://www.readbyqxmd.com/read/28630129/the-polar-organizing-protein-popz-is-required-for-chromosome-segregation-in-agrobacterium-tumefaciens
#2
Haley M Ehrle, Jacob T Guidry, Rebecca Iacovetto, Anne K Salisbury, D J Sandidge, Grant Bowman
Despite being perceived as relatively simple organisms, many bacteria exhibit an impressive degree of sub-cellular organization. In Caulobacter crescentus, the evolutionarily conserved polar organizing protein PopZ facilitates cytoplasmic organization by recruiting chromosome centromeres and regulatory proteins to the cell poles. Here, we characterize the localization and function of PopZ in Agrobacterium tumefaciens, a genetically related species with distinct anatomy. In this species, we find that PopZ molecules are relocated from the old pole to the new pole in the minutes following cell division...
June 19, 2017: Journal of Bacteriology
https://www.readbyqxmd.com/read/28630128/identification-of-a-d-arabinose-5-phosphate-isomerase-in-the-gram-positive-clostridium-tetani
#3
David L Cech, Katherine Markin, Ronald W Woodard
d-Arabinose-5-phosphate isomerases (APIs) catalyze the interconversion of d-ribulose-5-phosphate and d-arabinose-5-phosphate. Various Gram-negative bacteria, such as the uropathogenic E. coli strain CFT073, contain multiple API paralogs (KdsD, GutQ, KpsF and c3406) that have been assigned various cellular functions. The d-arabinose-5-phosphate formed by these enzymes seems to play important roles in the biosynthesis of lipopolysaccharide and group 2 K-antigen capsules, as well as in the regulation of the cellular d-glucitol uptake and uropathogenic infectivity/virulence...
June 19, 2017: Journal of Bacteriology
https://www.readbyqxmd.com/read/28630127/deciphering-function-of-new-gonococcal-vaccine-antigens-using-phenotypic-microarrays
#4
Benjamin I Baarda, Sarah Emerson, Philip J Proteau, Aleksandra E Sikora
The function and extracellular location of cell envelope proteins make them attractive candidates for developing vaccines against bacterial diseases, including challenging, drug-resistant pathogens such as Neisseria gonorrhoeae Proteomics-driven reverse vaccinology delivered multiple gonorrhea vaccine candidates; however, the biological functions of many of them remain to be elucidated. Herein, the functions of six gonorrhea vaccine candidates - NGO2121, NGO1985, NGO2054, NGO2111, NGO1205, and NGO1344 - in cell envelope homeostasis were probed using phenotype microarrays with 1,056 conditions and a ΔbamE mutant (Δngo1780) as a reference of perturbed outer membrane integrity...
June 19, 2017: Journal of Bacteriology
https://www.readbyqxmd.com/read/28630126/a-key-enzyme-of-the-nad-salvage-pathway-in-thermus-thermophilus-characterization-of-nicotinamidase-and-the-impact-of-its-gene-deletion-at-high-temperatures
#5
Hironori Taniguchi, Sathidaphorn Sungwallek, Phatcharin Chotchuang, Kenji Okano, Kohsuke Honda
Nicotinamide adenine dinucleotide (NAD(+)) is a cofactor related to many cellular processes. This cofactor is known to be unstable, especially at high temperatures, where it chemically decomposes to nicotinamide and ADP-ribose. Bacteria, yeast, and higher organisms possess the salvage pathway for reconstructing NAD(+) from these decomposition products; however, the importance of the salvage pathway for survival is not well elucidated, except for in pathogens lacking the NAD(+)de novo synthesis pathway. Herein, we report the importance of the NAD(+) salvage pathway in the thermophilic bacterium Thermus thermophilus HB8 at high temperatures...
June 19, 2017: Journal of Bacteriology
https://www.readbyqxmd.com/read/28630125/communal-metabolism-of-methane-and-the-rare-earth-element-switch
#6
Zheng Yu, Ludmila Chistoserdova
Metabolism of methane is an important part of biogeochemical cycling of carbon. Methane is also a major contributor to climate change. A specialized group of microbes that consume methane, the methanotrophs, represent a natural filter preventing an even faster accumulation of methane in the atmosphere. Methanotrophy can proceed via both anaerobic and aerobic modes. The anaerobic methanotrophs, represented by both archaea and bacteria, all appear to be engaged in syntrophic interdependencies with other species, to overcome the energetic barriers of methane metabolism in the absence of oxygen...
June 19, 2017: Journal of Bacteriology
https://www.readbyqxmd.com/read/28630124/the-dna-repair-repertoire-of-mycobacterium-smegmatis-fena-includes-the-incision-of-dna-5-flaps-and-the-removal-of-5-adenylylated-products-of-aborted-nick-ligation
#7
Maria Loressa Uson, Shreya Ghosh, Stewart Shuman
We characterize Mycobacterium smegmatis FenA as a manganese-dependent 5' -flap endonuclease homologous to the 5' -exonuclease of DNA polymerase I. FenA incises a nicked 5' flap between the first and second nucleotides of the duplex segment to yield a 1-nucleotide gapped DNA, which is then further resected in dinucleotide steps. Initial FenA cleavage at a Y-flap or nick occurs between the first and second nucleotides of the duplex. However, when the template 3' -single-strand is eliminated to create a 5' -tailed duplex, FenA incision shifts to between the second and third nucleotides...
June 19, 2017: Journal of Bacteriology
https://www.readbyqxmd.com/read/28630123/absence-of-the-polar-organizing-protein-popz-causes-aberrant-cell-division-in-agrobacterium-tumefaciens
#8
Matthew Howell, Alena Aliashkevich, Anne K Salisbury, Felipe Cava, Grant R Bowman, Pamela J B Brown
Agrobacterium tumefaciens is a rod-shaped bacterium that grows by polar insertion of new peptidoglycan during cell elongation. As the cell cycle progresses, peptidoglycan synthesis at the pole ceases prior to insertion of new peptidoglycan at mid-cell to enable cell division. The A. tumefaciens homolog of the Caulobacter crescentus polar organelle development protein PopZ has been identified as a growth pole marker and a candidate polar growth promoting factor. Here, we characterize the function of PopZ in cell growth and division of A...
June 19, 2017: Journal of Bacteriology
https://www.readbyqxmd.com/read/28607161/uncharacterized-bacterial-structures-revealed-by-electron-cryotomography
#9
Megan J Dobro, Catherine M Oikonomou, Aidan Piper, John Cohen, Kylie Guo, Taylor Jensen, Jahan Tadayon, Joseph Donermeyer, Yeram Park, Benjamin A Solis, Andreas Kjær, Andrew I Jewett, Alasdair W McDowall, Songye Chen, Yi-Wei Chang, Jian Shi, Poorna Subramanian, Cristina V Iancu, Zhuo Li, Ariane Briegel, Elitza I Tocheva, Martin Pilhofer, Grant J Jensen
Electron cryotomography (ECT) can reveal the native structure and arrangement of macromolecular complexes inside intact cells. This technique has greatly advanced our understanding of the ultrastructure of bacterial cells. Rather than undifferentiated bags of enzymes, we now view bacteria as structurally complex assemblies of macromolecular machines. To date, our group has applied ECT to nearly 90 different bacterial species, collecting more than 15,000 cryotomograms. In addition to known structures, we have observed several, to our knowledge, uncharacterized features in these tomograms...
June 12, 2017: Journal of Bacteriology
https://www.readbyqxmd.com/read/28607160/a-pria-mutant-expressed-in-two-pieces-has-almost-full-activity-in-e-coli-k-12
#10
Maxime Leroux, Niketa Jani, Steven J Sandler
The ability to restart broken DNA replication forks is essential across all domains of life. In Escherichia coli, the priA, priB, priC and dnaT genes encode the Replication Restart Proteins (RRPs) to accomplish this task. PriA plays a critical role in Replication Restart such that its absence reveals a dramatic phenotype: poor growth, high basal levels of SOS expression, poorly partitioned nucleoids (Par(-)), UV sensitivity and recombination deficiency. PriA has 733 amino acids and its structure is composed of six domains that enable it to bind to DNA replication fork-like structures, re-model the strands of DNA, interact with SSB (single-stranded DNA binding protein), PriB and DnaT, and display ATPase, helicase and translocase activities...
June 12, 2017: Journal of Bacteriology
https://www.readbyqxmd.com/read/28607159/mechanisms-of-pyocyanin-toxicity-and-genetic-determinants-of-resistance-in-staphylococcus-aureus
#11
Michael J Noto, William J Burns, William N Beavers, Eric P Skaar
Pseudomonas aeruginosa and Staphylococcus aureus are commonly isolated from polymicrobial infections, such as wound infections and chronic respiratory infections of persons with cystic fibrosis. Despite their co-isolation, P. aeruginosa produces substances toxic to S. aureus, including pyocyanin, a blue pigmented molecule that functions in P. aeruginosa virulence. Pyocyanin inhibits S. aureus respiration, forcing it to derive energy from fermentation and adopt a small colony variant (SCV) phenotype. The mechanisms by which S...
June 12, 2017: Journal of Bacteriology
https://www.readbyqxmd.com/read/28607158/the-two-component-signal-transduction-system-vxrab-positively-regulates-vibrio-cholerae-biofilm-formation
#12
Jennifer K Teschler, Andrew T Cheng, Fitnat H Yildiz
Two-component signal transduction systems (TCSs), typically composed of a sensor histidine kinase (HK) and a response regulator (RR), are the primary mechanism by which pathogenic bacteria sense and respond to extracellular signals. The pathogenic bacterium Vibrio cholerae is no exception and encodes for 52 RR genes. Using in frame deletion mutants of each RR gene, we performed a systematic analysis of their role in V. cholerae biofilm formation. We determined that 7 RRs impacted expression of an essential biofilm gene and found that the recently characterized RR, VxrB, regulates expression of key structural and regulatory biofilm-genes in V...
June 12, 2017: Journal of Bacteriology
https://www.readbyqxmd.com/read/28607157/anaerobic-cysteine-degradation-and-potential-metabolic-coordination-in-salmonella-enterica-and-escherichia-coli
#13
Melissa Loddeke, Barbara Schneider, Tamiko Oguri, Iti Mehta, Zhenyu Xuan, Larry Reitzer
Salmonella enterica has two CutR-activated enzymes that degrade cysteine: the aerobic CdsH and an unidentified anaerobic enzyme; E. coli only has the latter. To identify the anaerobic enzyme, transcript profiling was performed from E. coli without cutR and with overexpressed cutR 37 genes showed at least a five-fold change in expression, and the cutPA (formerly yhaOM) operon had the greatest differential. Homology suggested that CutP and CutA are a cysteine transporter and an iron-sulfur-containing cysteine desulfidase, respectively...
June 12, 2017: Journal of Bacteriology
https://www.readbyqxmd.com/read/28583949/bosr-is-a-novel-fur-family-member-responsive-to-copper-and-regulating-copper-homeostasis-in-borrelia-burgdorferi
#14
Peng Wang, Zhuoteng Yu, Thomas J Santangelo, John Olesik, Yufeng Wang, Ekaterina Heldwein, Xin Li
The ferric uptake regulator (Fur) family of DNA-binding proteins represses and/or activates gene transcription via divalent metal ion-dependent signal sensing. The Borrelia burgdorferi Fur homologue, also known as Borrelia oxidative stress regulator (BosR), promotes spirochetal adaptation to the mammalian host by directly repressing the lipoproteins required for tick colonization and indirectly activating those required for establishing infection in the mammal. Here, we examined whether the DNA-binding activity of BosR was regulated by any of the four most prevalent transition metal ions in B...
June 5, 2017: Journal of Bacteriology
https://www.readbyqxmd.com/read/28583948/lysinibacillus-fusiformis-m5-induces-increased-complexity-in-bacillus-subtilis-168-colony-biofilms-via-hypoxanthine
#15
Ramses Gallegos-Monterrosa, Stefanie Kankel, Sebastian Götze, Robert Barnett, Pierre Stallforth, Ákos T Kovács
In recent years, biofilms have become a central subject of research in the fields of microbiology, medicine, agriculture, or systems biology amongst others. The sociomicrobiology of multispecies biofilms, however, is still poorly understood. Here, we report a screening system that allowed us to identify soil bacteria, which induce architectural changes in biofilm colonies when cocultured with B. subtilis We identified the soil bacterium Lysinibacillus fusiformis M5 as inducer of wrinkle-formation in B. subtilis colonies mediated by a diffusible signaling molecule...
June 5, 2017: Journal of Bacteriology
https://www.readbyqxmd.com/read/28583947/camp-independent-control-of-twitching-motility-in-pseudomonas-aeruginosa
#16
Ryan N C Buensuceso, Martin Daniel-Ivad, Sara L N Kilmury, Tiffany L Leighton, Hanjeong Harvey, P Lynne Howell, Lori L Burrows
FimV is a Pseudomonas aeruginosa inner membrane hub protein that modulates levels of the second messenger, cyclic AMP (cAMP), through activation of the adenylate cyclase, CyaB. Although type IVa pilus (T4aP)-dependent twitching motility is modulated by cAMP levels, mutants lacking FimV are twitching impaired, even when exogenous cAMP is provided. Here we further define FimV's cAMP-dependent and -independent regulation of twitching. We confirmed that the response regulator of the T4aP-associated Chp chemotaxis system, PilG, requires both FimV and the CyaB regulator, FimL, to activate CyaB...
June 5, 2017: Journal of Bacteriology
https://www.readbyqxmd.com/read/28559301/functional-interaction-between-the-n-and-c-termini-of-nhad-antiporters-from-halomonas-sp-y2
#17
Yiwei Meng, Zhou Yang, Bin Cheng, Xinyu Nie, Shannan Li, Huijia Yin, Ping Xu, Chunyu Yang
Two NhaD-type antiporters, NhaD1 and NhaD2 from the halotolerant and alkaliphilic Halomonas sp. Y2, exhibit different physiological functions in Na(+) and Li(+) resistance, although they have high sequence identity. In the present study, the truncation of an additional four C-terminal residues from NhaD2 or an exchange of 39 N-terminal residues between these proteins, resulted in the complete loss of antiport activity. Interestingly, combining 39 N-terminal residues and 7 C-terminal residues of NhaD2 (N39D2-C7) partially recovered the activity for Na(+) and Li(+) expulsion, as well as the complementary growth following exposure to 300 mM Na(+) and 100 mM Li(+) stress...
May 30, 2017: Journal of Bacteriology
https://www.readbyqxmd.com/read/28559300/rv3852-h-ns-of-mycobacterium-tuberculosis-is-not-involved-in-nucleoid-compaction-and-virulence-regulation
#18
Nina T Odermatt, Claudia Sala, Andrej Benjak, Gaëlle S Kolly, Anthony Vocat, Andréanne Lupien, Stewart T Cole
A handful of nucleoid-associated proteins (NAPs) regulate the vast majority of genes in a bacterial cell. H-NS, the Histone-like Nucleoid-Structuring protein, is one of these NAPs and protects Escherichia coli from foreign gene expression. Though lacking any sequence similarity with E. coli H-NS, Rv3852 was annotated as the H-NS ortholog in Mycobacterium tuberculosis, as it resembles human histone H1. The role of Rv3852 was thoroughly investigated by immunoblotting, subcellular localization, construction of an unmarked rv3852 deletion in the M...
May 30, 2017: Journal of Bacteriology
https://www.readbyqxmd.com/read/28559299/the-disulfide-bond-formation-pathway-is-essential-for-anaerobic-growth-of-escherichia-coli
#19
Brian M Meehan, Cristina Landeta, Dana Boyd, Jonathan Beckwith
Disulfide bonds are critical to the stability and function of many bacterial proteins. In the periplasm of Escherichia coli, intramolecular disulfide bond formation is catalyzed by the two-component Dsb system. Inactivation of the Dsb pathway has been shown to lead to a number of pleotropic effects, though cells remain viable under standard laboratory conditions. However, we show here that dsb strains of E. coli reversibly filament under aerobic conditions and fail to grow anaerobically unless a strong oxidant is provided in the growth medium...
May 30, 2017: Journal of Bacteriology
https://www.readbyqxmd.com/read/28559298/phylogenetic-and-structural-comparisons-of-the-three-types-of-methyl-coenzyme-m-reductase-from-methanococcales-and-methanobacteriales
#20
Tristan Wagner, Carl-Eric Wegner, Jörg Kahnt, Ulrich Ermler, Seigo Shima
The phylogenetically diverse family of methanogenic archaea universally use methyl-coenzyme M reductase (MCR) for catalyzing the final methane-forming reaction step of the methanogenic energy metabolism. Some methanogens of the orders Methanobacteriales and Methanococcales contain two isoenzymes. Comprehensive phylogenetic analyses on the basis of all three subunits grouped MCRs from Methanobacteriales, Methanococcales and Methanopyrales into three distinct types: (1) MCRs from Methanobacteriales, (2) MCRs from Methanobacteriales and Methanococcales and (3) MCRs from Methanococcales...
May 30, 2017: Journal of Bacteriology
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