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https://www.readbyqxmd.com/read/29321722/distinct-virulent-network-between-healthcare-and-community-associated-staphylococcus-aureus-based-on-proteomic-analysis
#1
Lei He, Hongwei Meng, Qian Liu, Mo Hu, Yanan Wang, Xiaoying Chen, Xiaoyun Liu, Min Li
Background: Staphylococcus aureus (S. aureus or SA) is a leading cause of healthcare-associated (HA-) and community-associated (CA) infection. HA-SA isolates usually cause nosocomial pneumonia, bloodstream infections, catheter-related urinary tract infections, etc. On the other hand, CA-SA isolates usually cause highly fatal diseases, such as SSTIs as well as post influenza necrotic hemorrhagic pneumonia. The differences of the infection types are partially due to the unique characteristics between HA-SA and CA-SA isolates...
2018: Clinical Proteomics
https://www.readbyqxmd.com/read/29291484/impacts-of-design-configuration-and-plants-on-the-functionality-of-the-microbial-community-of-mesocosm-scale-constructed-wetlands-treating-ibuprofen
#2
Liang Zhang, Tao Lyu, Yang Zhang, Mark Button, Carlos A Arias, Kela P Weber, Hans Brix, Pedro N Carvalho
Microbial degradation is an important pathway during the removal of pharmaceuticals in constructed wetlands (CWs). However, the effects of CW design, plant presence, and different plant species on the microbial community in CWs have not been fully explored. This study aims to investigate the microbial community metabolic function of different types of CWs used to treat ibuprofen via community-level physiological profiling (CLPP) analysis. We studied the interactions between three CW designs (unsaturated, saturated and aerated) and six types of mesocosms (one unplanted and five planted, with Juncus, Typha, Berula, Phragmites and Iris) treating synthetic wastewater...
December 23, 2017: Water Research
https://www.readbyqxmd.com/read/29240891/primary-ovarian-insufficiency-and-azospermia-in-carriers-of-a-homozygous-psmc3ip-stop-gain-mutation
#3
Abdulmoein Eid Al-Agha, Ihab Abdulhamed Ahmed, Esther Nuebel, Mika Moriwaki, Barry Moore, Katherine A Peacock, Tim Mosbruger, Deborah W Neklason, Lynn B Jorde, Mark Yandell, Corrine K Welt
Context: The etiology of primary ovarian insufficiency (POI) remains unknown in a majority of cases. Objective: We sought to identify genes causing POI. Design: The study was a familial genetic study. Setting: The study was performed in two academic institutions. Patients: We identified a consanguineous Yemeni family in which 4 daughters had POI. A brother had azoospermia. Intervention: DNA was subjected to whole genome sequencing...
December 12, 2017: Journal of Clinical Endocrinology and Metabolism
https://www.readbyqxmd.com/read/29205794/biallelic-mutations-in-lars2-can-cause-perrault-syndrome-type-2-with-neurologic-symptoms
#4
Rika Kosaki, Reiko Horikawa, Eriko Fujii, Kenjiro Kosaki
Perrault syndrome represents a genetically heterogeneous disorder characterized by sensorineural hearing loss in males and females and ovarian dysfunction in females. Causative genes include HARS2, HSD17B4, CLPP, C10orf2, and LARS2. Some patients with Perrault syndrome exhibit neurologic features including learning disability, cerebellar ataxia, and peripheral neuropathy and are classified as type 2 and are clinically separate from those without neurological symptoms other than a hearing loss (type 1). To date, all reported patients with LARS2 mutations (15 patients in 8 families) have been classified as type 1...
December 3, 2017: American Journal of Medical Genetics. Part A
https://www.readbyqxmd.com/read/29186773/metabolic-perturbations-in-a-bacillus-subtilis-clpp-mutant-during-glucose-starvation
#5
(no author information available yet)
Proteolysis is essential for all living organisms to maintain the protein homeostasis and to adapt to changing environmental conditions. ClpP is the main protease in Bacillus subtilis, and forms complexes with different Clp ATPases. These complexes play crucial roles during heat stress, but also in sporulation or cell morphology. Especially enzymes of cell wall-, amino acid-, and nucleic acid biosynthesis are known substrates of the protease ClpP during glucose starvation. The aim of this study was to analyze the influence of a clpP mutation on the metabolism in different growth phases and to search for putative new ClpP substrates...
November 24, 2017: Metabolites
https://www.readbyqxmd.com/read/29183996/structural-characterization-of-the-bacterial-proteasome-homolog-bph-reveals-a-tetradecameric-double-ring-complex-with-unique-inner-cavity-properties
#6
Adrian C D Fuchs, Lorena Maldoner, Katharina Hipp, Marcus D Hartmann, Jörg Martin
Eukaryotic and archaeal proteasomes are paradigms for self-compartmentalizing proteases. To a large extent, their function requires the interplay with hexameric ATPases associated with diverse cellular activities (AAA+) that act as substrate unfoldases. Bacteria have various types of self-compartmentalizing proteases; in addition to the proteasome itself, these include the proteasome homolog HslV, which functions together with the AAA+ ATPase HslU; the ClpP protease with its partner AAA+ ATPase ClpX; and Anbu, a recently characterized ancestral proteasome variant...
November 28, 2017: Journal of Biological Chemistry
https://www.readbyqxmd.com/read/29166177/kinetic-behavior-of-campylobacter-jejuni-in-beef-tartare-at-cold-temperatures-and-transcriptomes-related-to-its-survival
#7
Sejeong Kim, Jiyeon Jeong, Heeyoung Lee, Jeeyeon Lee, Soomin Lee, Jimyeong Ha, Yukyoung Choi, Yohan Yoon, Kyoung-Hee Choi
This study was conducted to examine the kinetic behavior of Campylobacter jejuni in raw beef tartare by using mathematical models and to identify genes related to C. jejuni survival at cold temperatures. C. jejuni was inoculated onto beef tartare samples, stored at 4, 10, 15, 25, and 30°C, plated on modified charcoal-cefoperazone-deoxycholate agar, and enumerated. The survival data was fitted to the Weibull model to calculate delta (δ), which is the time required for the first 1-log reduction of the cells...
November 22, 2017: Journal of Food Protection
https://www.readbyqxmd.com/read/29165246/regulatory-coiled-coil-domains-promote-head-to-head-assemblies-of-aaa-chaperones-essential-for-tunable-activity-control
#8
Marta Carroni, Kamila B Franke, Michael Maurer, Jasmin Jäger, Ingo Hantke, Felix Gloge, Daniela Linder, Sebastian Gremer, Kürşad Turgay, Bernd Bukau, Axel Mogk
Ring-forming AAA+ chaperones exert ATP-fueled substrate unfolding by threading through a central pore. This activity is potentially harmful requiring mechanisms for tight repression and substrate-specific activation. The AAA+ chaperone ClpC with the peptidase ClpP forms a bacterial protease essential to virulence and stress resistance. The adaptor MecA activates ClpC by targeting substrates and stimulating ClpC ATPase activity. We show how ClpC is repressed in its ground state by determining ClpC cryo-EM structures with and without MecA...
November 22, 2017: ELife
https://www.readbyqxmd.com/read/29152050/consequences-of-depsipeptide-substitution-on-the-clpp-activation-activity-of-antibacterial-acyldepsipeptides
#9
Yangxiong Li, Nathan P Lavey, Jesse A Coker, Jessica E Knobbe, Dat C Truong, Hongtao Yu, Yu-Shan Lin, Susan L Nimmo, Adam S Duerfeldt
The acyldepsipeptide (ADEP) antibiotics operate through a clinically unexploited mechanism of action and thus have attracted attention from several antibacterial development groups. The ADEP scaffold is synthetically tractable, and deep-seated modifications have produced extremely potent antibacterial leads against Gram-positive pathogens. Although newly identified ADEP analogs demonstrate remarkable antibacterial activity against bacterial isolates and in mouse models of bacterial infections, stability issues pertaining to the depsipeptide core remain...
November 9, 2017: ACS Medicinal Chemistry Letters
https://www.readbyqxmd.com/read/29129755/phylogenetic-analysis-predicts-structural-divergence-for-proteobacterial-clpc-proteins
#10
Justin M Miller, Hamza Chaudhary, Justin D Marsee
Regulated proteolysis is required in all organisms for the removal of misfolded or degradation-tagged protein substrates in cellular quality control pathways. The molecular machines that catalyze this process are known as ATP-dependent proteases with examples that include ClpAP and ClpCP. Clp/Hsp100 subunits form ring-structures that couple the energy of ATP binding and hydrolysis to protein unfolding and subsequent translocation of denatured protein into the compartmentalized ClpP protease for degradation...
November 9, 2017: Journal of Structural Biology
https://www.readbyqxmd.com/read/29117582/rational-dose-of-insecticide-chlorantraniliprole-displays-a-transient-impact-on-the-microbial-metabolic-functions-and-bacterial-community-in-a-silty-loam-paddy-soil
#11
Meng Wu, Guilong Li, Xiaofen Chen, Jia Liu, Ming Liu, Chunyu Jiang, Zhongpei Li
Chlorantraniliprole (CAP) is a newly developed insecticide widely used in rice fields in China. There have been few studies regarding its effects on soil microbial functional diversity and bacterial community composition. An 85-day microcosm experiment was performed to reveal the dissipation dynamics of CAP under different application doses in a silty-loam paddy soil in subtropical China. The half-life of CAP was 51.3 and 62.5d for low (1mgkg(-1)) and high (10mgkg(-1)) application dose, respectively. We used a combination of community level physiological profile (CLPP) and 16S rRNA gene sequencing analysis to get insights into the soil microbial features responded to CAP during the experiment...
November 5, 2017: Science of the Total Environment
https://www.readbyqxmd.com/read/29095905/the-complete-chloroplast-genome-sequence-of-the-cam-epiphyte-spanish-moss-tillandsia-usneoides-bromeliaceae-and-its-comparative-analysis
#12
Péter Poczai, Jaakko Hyvönen
Spanish moss (Tillandsia usneoides) is an epiphytic bromeliad widely distributed throughout tropical and warm temperate America. This plant is highly adapted to extreme environmental conditions. Striking features of this species include specialized trichomes (scales) covering the surface of its shoots aiding the absorption of water and nutrients directly from the atmosphere and a specific photosynthesis using crassulacean acid metabolism (CAM). Here we report the plastid genome of Spanish moss and present the comparison of genome organization and sequence evolution within Poales...
2017: PloS One
https://www.readbyqxmd.com/read/29053825/pdm3-a-pentatricopeptide-repeat-containing-protein-affects-chloroplast-development
#13
Jian Zhang, Jianwei Xiao, Yuqian Li, Bodan Su, Huimin Xu, Xiaoyi Shan, Chengwei Song, Jianbo Xie, Ruili Li
The chloroplast, as the photosynthetic organelle of plants, plays a crucial role in plant development. Extensive studies have been conducted on chloroplast development; however, the related regulatory mechanism still remains elusive. Here, we characterized a mutant with defective chloroplasts in Arabidopsis, termed pigment-defective mutant3 (pdm3), which exhibits a distinct albino phenotype in leaves, eventually leading to pdm3 seedling lethality under autotrophic growth conditions. Electron microscopy demonstrated that the number of thylakoids was reduced and the structure of those thylakoids was disrupted in the pdm3 mutant, which eventually led to the breakdown of chloroplasts...
October 19, 2017: Journal of Experimental Botany
https://www.readbyqxmd.com/read/29046685/comparative-analysis-of-the-complete-plastomes-of-apostasia-wallichii-and-neuwiedia-singapureana-apostasioideae-reveals-different-evolutionary-dynamics-of-ir-ssc-boundary-among-photosynthetic-orchids
#14
Zhitao Niu, Jiajia Pan, Shuying Zhu, Ludan Li, Qingyun Xue, Wei Liu, Xiaoyu Ding
Apostasioideae, consists of only two genera, Apostasia and Neuwiedia, which are mainly distributed in Southeast Asia and northern Australia. The floral structure, taxonomy, biogeography, and genome variation of Apostasioideae have been intensively studied. However, detailed analyses of plastome composition and structure and comparisons with those of other orchid subfamilies have not yet been conducted. Here, the complete plastome sequences of Apostasia wallichii and Neuwiedia singapureana were sequenced and compared with 43 previously published photosynthetic orchid plastomes to characterize the plastome structure and evolution in the orchids...
2017: Frontiers in Plant Science
https://www.readbyqxmd.com/read/29031699/a-genetic-tool-to-quantify-trans-translation-activity-in-vivo
#15
Kevin Macé, Fanny Demay, Charlotte Guyomar, Sylvie Georgeault, Emmanuel Giudice, Renan Goude, Annie Trautwetter, Gwennola Ermel, Carlos Blanco, Reynald Gillet
In bacteria, trans-translation is the main quality control mechanism for rescuing ribosomes arrested during translation. This key process is universally conserved and plays a critical role in the viability and virulence of many pathogens. We developed a reliable in vivo double-fluorescence reporter system for the simultaneous quantification of both trans-translation and the associated proteolysis activities in bacteria. The assay was validated using mutant bacteria lacking tmRNA, SmpB, and the ClpP protease...
October 13, 2017: Journal of Molecular Biology
https://www.readbyqxmd.com/read/28924169/the-clpxp-protease-is-dispensable-for-degradation-of-unfolded-proteins-in-staphylococcus-aureus
#16
Steen G Stahlhut, Abdulelah A Alqarzaee, Camilla Jensen, Niclas S Fisker, Ana R Pereira, Mariana G Pinho, Vinai Chittezham Thomas, Dorte Frees
In living cells intracellular proteolysis is crucial for protein homeostasis, and ClpP proteases are conserved between eubacteria and the organelles of eukaryotic cells. In Staphylococcus aureus, ClpP associates to the substrate specificity factors, ClpX and ClpC forming two ClpP proteases, ClpXP and ClpCP. To address how individual ClpP proteases impact cell physiology, we constructed a S. aureus mutant expressing ClpX with an I265E substitution in the ClpP recognition tripeptide of ClpX. This mutant cannot degrade established ClpXP substrates confirming that the introduced amino acid substitution abolishes ClpXP activity...
September 18, 2017: Scientific Reports
https://www.readbyqxmd.com/read/28922556/structure-and-mechanism-of-the-monoterpene-cyclolavandulyl-diphosphate-synthase-that-catalyzes-consecutive-condensation-and-cyclization
#17
Takeo Tomita, Masaya Kobayashi, Yuma Karita, Yoko Yasuno, Tetsuro Shinada, Makoto Nishiyama, Tomohisa Kuzuyama
We report the three-dimensional structure of cyclolavandulyl diphosphate (CLPP) synthase (CLDS), which consecutively catalyzes the condensation of two molecules of dimethylallyl diphosphate (DMAPP) followed by cyclization to form a cyclic monoterpene, CLPP. The structures of apo-CLDS and CLDS in complex with Tris, pyrophosphate, and Mg(2+) ion were refined at 2.00 Å resolution and 1.73 Å resolution, respectively. CLDS adopts a typical fold for cis-prenyl synthases and forms a homo-dimeric structure. An in vitro reaction using a regiospecifically (2) H-substituted DMAPP substrate revealed the intramolecular proton transfer mechanism of the CLDS reaction...
September 18, 2017: Angewandte Chemie
https://www.readbyqxmd.com/read/28917450/a-novel-class-of-plasmodial-clpp-protease-inhibitors-as-potential-antimalarial-agents
#18
Sourabh Mundra, Vandana Thakur, Angelica M Bello, Sumit Rathore, Mohd Asad, Lianhu Wei, Jane Yang, Sai Kumar Chakka, Radhakrishnan Mahesh, Pawan Malhotra, Asif Mohmmed, Lakshmi P Kotra
The prokaryotic ATP-dependent ClpP protease, localized in the relict plastid of malaria parasite, represents a potential drug target. In the present study, we utilized in silico structure-based screening and medicinal chemistry approaches to identify a novel pyrimidine series of compounds inhibiting P. falciparum ClpP protease activity and evaluated their antiparasitic activities. Structure-activity relationship indicated that morpholine moiety at C2, an aromatic substitution at N3 and a 4-oxo moiety on the pyrimidine are important for potent inhibition of ClpP enzyme along with antiparasiticidal activity...
September 5, 2017: Bioorganic & Medicinal Chemistry
https://www.readbyqxmd.com/read/28910721/an-amino-acid-domino-effect-orchestrates-clpp-s-conformational-states
#19
REVIEW
Matthias Stahl, Stephan A Sieber
Maintaining the cellular protein homeostasis means managing life on the brink of death. This balance is largely based on precise fine-tuning of enzyme activities. For instance, the ClpP protease possesses several conformational switches which are fundamental to regulating its activity. Efforts have focused on revealing the structural basis of ClpP's conformational control. In the last decade, several amino acid clusters have been identified and functionally linked to specific activation states. Researchers have now begun to couple these hotspots to one another, uncovering a global network of residues that switch in response to internal and external stimuli...
October 2017: Current Opinion in Chemical Biology
https://www.readbyqxmd.com/read/28882736/gene-centric-metegenome-analysis-reveals-diversity-of-pseudomonas-aeruginosa-biofilm-gene-orthologs-in-fresh-water-ecosystem
#20
Rani Anupama, Amitava Mukherjee, Subramanian Babu
Metagenomic analysis of biofilm forming bacteria in environmental samples remains challenging due to the non-availability of gene sequences of most of the uncultivable bacteria. Sequences of Pseudomonas aeruginosa PAO1-UW genes involved either directly or indirectly in biofilm formation were analyzed using BLASTn to obtain matching sequences from different strain, species and genus. Conserved regions in the functional domain of the amino acid sequences were used to design common primers for direct PCR analysis of freshwater metagenomes...
September 4, 2017: Genomics
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