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https://www.readbyqxmd.com/read/28453818/downstream-element-determines-rnase-y-cleavage-of-the-saepqrs-operon-in-staphylococcus-aureus
#1
Gabriella Marincola, Christiane Wolz
In gram-positive bacteria, RNase J1, RNase J2 and RNase Y are thought to be major contributors to mRNA degradation and maturation. In Staphylococcus aureus, RNase Y activity is restricted to regulating the mRNA decay of only certain transcripts. Here the saePQRS operon was used as a model to analyze RNase Y specificity in living cells. A RNase Y cleavage site is located in an intergenic region between saeP and saeQ. This cleavage resulted in rapid degradation of the upstream fragment and stabilization of the downstream fragment...
April 27, 2017: Nucleic Acids Research
https://www.readbyqxmd.com/read/28453782/sempi-a-genome-based-secondary-metabolite-prediction-and-identification-web-server
#2
Paul F Zierep, Natàlia Padilla, Dimitar G Yonchev, Kiran K Telukunta, Dennis Klementz, Stefan Günther
The secondary metabolism of bacteria, fungi and plants yields a vast number of bioactive substances. The constantly increasing amount of published genomic data provides the opportunity for an efficient identification of gene clusters by genome mining. Conversely, for many natural products with resolved structures, the encoding gene clusters have not been identified yet. Even though genome mining tools have become significantly more efficient in the identification of biosynthetic gene clusters, structural elucidation of the actual secondary metabolite is still challenging, especially due to as yet unpredictable post-modifications...
April 27, 2017: Nucleic Acids Research
https://www.readbyqxmd.com/read/28448629/structure-and-function-of-a-novel-gh8-endoglucanase-from-the-bacterial-cellulose-synthase-complex-of-raoultella-ornithinolytica
#3
Sandra Mara Naressi Scapin, Flavio Henrique Moreira Souza, Leticia Maria Zanphorlin, Thamyres Silva de Almeida, Youssef Bacila Sade, Alexander Machado Cardoso, Guilherme Luiz Pinheiro, Mario Tyago Murakami
Cellulose synthesis in bacteria is a complex process involving the concerted action of several enzymes whose genes are often organized in operons. This process influences many fundamental physiological aspects such as bacteria and host interaction, biofilm formation, among others. Although it might sound contradictory, the participation of cellulose-degrading enzymes is critical to this process. The presence of endoglucanases from family 8 of glycosyl hydrolases (GH8) in bacterial cellulose synthase (Bcs) complex has been described in different bacteria, including the model organism Komagataeibacter xylinus; however, their role in this process is not completely understood...
2017: PloS One
https://www.readbyqxmd.com/read/28448491/relevant-units-of-analysis-for-applied-and-basic-research-dealing-with-neglected-transmissible-diseases-the-predominant-clonal-evolution-model-of-pathogenic-microorganisms
#4
REVIEW
Michel Tibayrenc, Francisco J Ayala
The predominant clonal evolution (PCE) model seeks to formulate a common population genetics framework for all micropathogens (namely, parasitic protozoa, fungi and yeasts, bacteria, and viruses). It relies on a definition of clonality that is only based on population structure features (namely, strongly restrained genetic recombination). Its clear-cut properties make it of strong interest for applied and basic research, since it permits the definition of stable, clearly delimited units of analysis below the species level: clonal genotypes and discrete genetic subdivisions ("near-clades")...
April 2017: PLoS Neglected Tropical Diseases
https://www.readbyqxmd.com/read/28448436/role-of-archaeal-hera-protein-in-the-biology-of-the-bacterium-thermus-thermophilus
#5
Alba Blesa, Nieves G Quintans, Ignacio Baquedano, Carlos P Mata, José R Castón, José Berenguer
Intense gene flux between prokaryotes result in high percentage of archaeal genes in the genome of the thermophilic bacteria Thermus spp. Among these archaeal genes a homolog to the Sulfolobus spp. HerA protein appears in all of the Thermus spp. strains so far sequenced (HepA). The role of HepA in Thermus thermophilus HB27 has been analyzed using deletion mutants, and its structure resolved at low resolution by electron microscopy. Recombinant HepA shows DNA-dependent ATPase activity and its structure revealed a double ring, conically-shaped hexamer with an upper diameter of 150 Å and a bottom module of 95 Å...
April 27, 2017: Genes
https://www.readbyqxmd.com/read/28448296/the-use-of-the-moleculight-i-x-in-managing-burns-a-pilot-study
#6
Emily Blumenthal, Steven L A Jeffery
The MolecuLight i:X Imaging Device is a portable, noninvasive, real-time camera used to visualize the bacterial load in a wound. It uses violet light illumination and a dual bandpass optical filter to capture the fluorescence of endogenous structures in the tissue matrix and harmful bacteria. The MolecuLight i:X captures images of wounds and highlights potentially detrimental levels of bacteria. This is an initial evaluation of using the MolecuLight i:X camera in the management of burns to demonstrate the following: the ability of the device to guide clinicians in their management of the burn (ie, detect, identify, and specify swabbing locations)...
April 21, 2017: Journal of Burn Care & Research: Official Publication of the American Burn Association
https://www.readbyqxmd.com/read/28448066/structural-basis-of-crispr-spycas9-inhibition-by-an-anti-crispr-protein
#7
De Dong, Minghui Guo, Sihan Wang, Yuwei Zhu, Shuo Wang, Zhi Xiong, Jianzheng Yang, Zengliang Xu, Zhiwei Huang
The CRISPR-Cas9 systems are bacterial encoded adaptive immune systems to defend against phages infection, through RNA-guided endonuclease activity of Cas9 to degrade double-stranded DNA bearing a protospacer adjacent motif (PAM) and complementary sequences to the guide RNA1,2,3,4,5. Recently, two anti-CRISPR proteins AcrIIA2 and AcrIIA4 from Listeria monocytogenes (Lmo) prophages have been identified, both of which potently inhibit Streptococcus pyogenes Cas9 (SpyCas9) and LmoCas9 activity in bacteria and human cells6...
April 27, 2017: Nature
https://www.readbyqxmd.com/read/28447266/in-depth-characterization-of-bacterial-and-archaeal-communities-present-in-the-abandoned-kettara-pyrrhotite-mine-tailings-morocco
#8
Odile Bruneel, N Mghazli, R Hakkou, I Dahmani, A Filali Maltouf, L Sbabou
In Morocco, pollution caused by closed mines continues to be a serious threat to the environment, like the generation of acid mine drainage. Mine drainage is produced by environmental and microbial oxidation of sulfur minerals originating from mine wastes. The fundamental role of microbial communities is well known, like implication of Fe-oxidizing and to a lesser extent S-oxidizing microorganism in bioleaching. However, the structure of the microbial communities varies a lot from one site to another, like diversity depends on many factors such as mineralogy, concentration of metals and metalloids or pH, etc...
April 26, 2017: Extremophiles: Life Under Extreme Conditions
https://www.readbyqxmd.com/read/28447092/the-co-dehydrogenase-accessory-protein-coot-is-a-novel-nickel-binding-protein
#9
J Timm, C Brochier-Armanet, J Perard, B Zambelli, S Ollagnier-de-Choudens, S Ciurli, C Cavazza
In Rhodospirillum rubrum, maturation of Carbon Monoxide Dehydrogenase (CODH) requires three accessory proteins, CooC, CooT and CooJ, dedicated to nickel insertion into the active site, which is constituted by a distorted [NiFe3S4] cubane coordinated with a mononuclear Fe site. CooC is an ATPase proposed to provide the energy required for the maturation process, while CooJ is described as a metallochaperone with 16 histidines and 2 cysteines at the C-terminus, likely involved in metal binding and/or storage...
April 27, 2017: Metallomics: Integrated Biometal Science
https://www.readbyqxmd.com/read/28446169/the-relative-importance-of-large-problems-far-away-versus-small-problems-closer-to-home-insights-into-limiting-the-spread-of-antimicrobial-resistance-in-england
#10
Tjibbe Donker, Katherine L Henderson, Katie L Hopkins, Andrew R Dodgson, Stephanie Thomas, Derrick W Crook, Tim E A Peto, Alan P Johnson, Neil Woodford, A Sarah Walker, Julie V Robotham
BACKGROUND: To combat the spread of antimicrobial resistance (AMR), hospitals are advised to screen high-risk patients for carriage of antibiotic-resistant bacteria on admission. This often includes patients previously admitted to hospitals with a high AMR prevalence. However, the ability of such a strategy to identify introductions (and hence prevent onward transmission) is unclear, as it depends on AMR prevalence in each hospital, the number of patients moving between hospitals, and the number of hospitals considered 'high risk'...
April 27, 2017: BMC Medicine
https://www.readbyqxmd.com/read/28446158/parameter-inference-for-stochastic-single-cell-dynamics-from-lineage-tree-data
#11
Irena Kuzmanovska, Andreas Milias-Argeitis, Jan Mikelson, Christoph Zechner, Mustafa Khammash
BACKGROUND: With the advance of experimental techniques such as time-lapse fluorescence microscopy, the availability of single-cell trajectory data has vastly increased, and so has the demand for computational methods suitable for parameter inference with this type of data. Most of currently available methods treat single-cell trajectories independently, ignoring the mother-daughter relationships and the information provided by the population structure. However, this information is essential if a process of interest happens at cell division, or if it evolves slowly compared to the duration of the cell cycle...
April 26, 2017: BMC Systems Biology
https://www.readbyqxmd.com/read/28444923/anaerobic-respiration-on-self-doped-conjugated-polyelectrolytes-impact-of-chemical-structure
#12
Nathan D Kirchhofer, Samantha R McCuskey, Cheng-Kang Mai, Guillermo C Bazan
We probe anaerobic respiration of bacteria in the presence of conjugated polyelectrolytes (CPEs). Three different CPEs were used to probe how structural variations impact biocurrent generation from Shewanella oneidensis MR-1. For the self-doped anionic CPE only, absorption spectroscopy shows that the addition of S. oneidensis MR-1 leads to the disappearance of the polaron (radical cation) band at >900 nm and an increase in the band at 735 nm due to the neutral species, consistent with electron transfer from microbe to polymer...
April 26, 2017: Angewandte Chemie
https://www.readbyqxmd.com/read/28443288/rubisco-activases-aaa-chaperones-adapted-to-enzyme-repair
#13
REVIEW
Javaid Y Bhat, Gabriel Thieulin-Pardo, F Ulrich Hartl, Manajit Hayer-Hartl
Ribulose-1,5-bisphosphate carboxylase/oxygenase (Rubisco), the key enzyme of the Calvin-Benson-Bassham cycle of photosynthesis, requires conformational repair by Rubisco activase for efficient function. Rubisco mediates the fixation of atmospheric CO2 by catalyzing the carboxylation of the five-carbon sugar ribulose-1,5-bisphosphate (RuBP). It is a remarkably inefficient enzyme, and efforts to increase crop yields by bioengineering Rubisco remain unsuccessful. This is due in part to the complex cellular machinery required for Rubisco biogenesis and metabolic maintenance...
2017: Frontiers in Molecular Biosciences
https://www.readbyqxmd.com/read/28443079/pleomorphism-and-viability-of-the-lyme-disease-pathogen-borrelia-burgdorferi-exposed-to-physiological-stress-conditions-a-correlative-cryo-fluorescence-and-cryo-scanning-electron-microscopy-study
#14
Marie Vancová, Nataliia Rudenko, Jiří Vaněček, Maryna Golovchenko, Martin Strnad, Ryan O M Rego, Lucie Tichá, Libor Grubhoffer, Jana Nebesářová
To understand the response of the Lyme disease spirochete Borrelia burgdorferi exposed to stress conditions and assess the viability of this spirochete, we used a correlative cryo-fluorescence and cryo-scanning microscopy approach. This approach enables simple exposition of bacteria to various experimental conditions that can be stopped at certain time intervals by cryo-immobilization, examination of cell viability without necessity to maintain suitable culture conditions during viability assays, and visualization of structures in their native state at high magnification...
2017: Frontiers in Microbiology
https://www.readbyqxmd.com/read/28443071/deletion-of-lipoteichoic-acid-synthase-impacts-expression-of-genes-encoding-cell-surface-proteins-in-lactobacillus-acidophilus
#15
Kurt Selle, Yong J Goh, Brant R Johnson, Sarah O'Flaherty, Joakim M Andersen, Rodolphe Barrangou, Todd R Klaenhammer
Lactobacillus acidophilus NCFM is a well-characterized probiotic microorganism, supported by a decade of genomic and functional phenotypic investigations. L. acidophilus deficient in lipoteichoic acid (LTA), a major immunostimulant in Gram-positive bacteria, has been shown to shift immune system responses in animal disease models. However, the pleiotropic effects of removing LTA from the cell surface in lactobacilli are unknown. In this study, we surveyed the global transcriptional and extracellular protein profiles of two strains of L...
2017: Frontiers in Microbiology
https://www.readbyqxmd.com/read/28443069/long-term-enrichment-of-stress-tolerant-cellulolytic-soil-populations-following-timber-harvesting-evidenced-by-multi-omic-stable-isotope-probing
#16
Roland C Wilhelm, Erick Cardenas, Hilary Leung, András Szeitz, Lionel D Jensen, William W Mohn
Soil management is vital for maintaining the productivity of commercial forests, yet the long-term impact of timber harvesting on soil microbial communities remains largely a matter of conjecture. Decomposition of plant biomass, comprised mainly of lignocellulose, has a broad impact on nutrient cycling, microbial activity and physicochemical characteristics of soil. At "Long-term Soil Productivity Study" sites in California dominated by Ponderosa pine, we tested whether clear-cut timber harvesting, accompanied by varying degrees of organic matter (OM) removal, affected the activity and structure of the cellulose-degrading microbial populations 16 years after harvesting...
2017: Frontiers in Microbiology
https://www.readbyqxmd.com/read/28442397/molecular-cloning-characterization-and-expression-analysis-of-heat-shock-protein-90-in-albino-northern-snakehead-channa-argus
#17
Aiguo Zhou, Shaolin Xie, Zhenlu Wang, Muhammad Junaid, Lanfen Fan, Chao Wang, Qiao Ye, Yanfeng Chen, De-Sheng Pei, Jixing Zou
The great albino northern snakehead Channa argus is habitual to only the Sichuan Jialing Rivers System in China, making its introduction difficult to other riverine systems. Here, we characterized heat shock protein 90 (AcaHSP90) and probed its molecular responses toward the environmental stressors that C. argus can face during its introduction and breeding in the other southern latitudes of China. To serve the purpose, cDNA encoding of AcaHSP90 were cloned and characterized in albino C. argus. The cDNA was 2752bps that contained an open reading frame (ORF), encoding a 726-amino-acid polypeptide of 83...
April 22, 2017: Gene
https://www.readbyqxmd.com/read/28441606/growth-inhibition-and-antibiofilm-potential-of-ag-nanoparticles-coated-with-lectin-an-arthropod-immune-molecule
#18
Sangily Jayanthi, Sathappan Shanthi, Baskaralingam Vaseeharan, Narayanan Gopi, Marimuthu Govindarajan, Naiyf S Alharbi, Shine Kadaikunnan, Jamal M Khaled, Giovanni Benelli
Lectins from the haemolymph of arthropods, including crustaceans, are molecules potentially involved in the immune recognition and phagocytosis. Here, lectin was purified from the haemolymph of blue swimmer crab Portunus pelagicus, using mannose-coupled sepharose CL-4B affinity column chromatography. In SDS-PAGE analysis, lectin showed a molecular mass of approximately 155kDa. The synthesis of lectin-coated silver nanoparticles (lectin-coated AgNPs) was confirmed by UV-Vis spectroscopy, XRD, FTIR, SEM, TEM, SAED, and EDX analysis...
April 13, 2017: Journal of Photochemistry and Photobiology. B, Biology
https://www.readbyqxmd.com/read/28441562/bacterial-division-ftsz-treadmills-to-build-a-beautiful-wall
#19
Kara M Schoenemann, William Margolin
The tubulin-like FtsZ protein polymerizes into a contractile ring structure required for cytokinesis in most bacteria. Two new studies report that FtsZ polymers move around the ring by treadmilling, which guides and regulates the inward growth of the septal wall.
April 24, 2017: Current Biology: CB
https://www.readbyqxmd.com/read/28441516/epoxynemanione-a-nemanifuranones-a-f-and-nemanilactones-a-c-from-nemania-serpens-an-endophytic-fungus-isolated-from-riesling-grapevines
#20
Ashraf Ibrahim, Dan Sørensen, Hilary A Jenkins, Linda Ejim, Alfredo Capretta, Mark W Sumarah
Ten polyketide specialized metabolites, epoxynemanione A, nemanifuranones A-F, and nemanilactones A-C, were isolated from the culture filtrate of Nemania serpens (Pers.) Grey (1821), an endophytic fungus from a Riesling grapevine (Vitis vinifera) found in Canada's Niagara region. Additionally, four known metabolites 2-(hydroxymethyl)-3-methoxy-benzoic acid, phyllostine, 5-methylmellein and a nordammarane triterpenoid were isolated. A related known metabolite 2,3-dihydro-2-hydroxy-2,4-dimethyl-5-trans-propenylfuran-3-one has also been included for structural and biological comparison to the nemanifuranones...
April 22, 2017: Phytochemistry
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