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    Isolation and characterization of HepP: a virulence-related Pseudomonas aeruginosa heparinase.
    BMC Microbiol 2017 Dec 16;17(1):233. Epub 2017 Dec 16.
    Department of Immunology and Molecular Microbiology, Texas Tech University Health Sciences Center, 3601 4th St. Mail Stop 6591, Lubbock, TX, 79430, USA.
    Background: Pseudomonas aeruginosa is an opportunistic pathogen that causes serious infections in immunocompromised hosts including severely burned patients. In burn patients, P. aeruginosa infection often leads to septic shock and death. Read More

    The distinctive cell division interactome of Neisseria gonorrhoeae.
    BMC Microbiol 2017 Dec 12;17(1):232. Epub 2017 Dec 12.
    Department of Microbiology and Immunology, College of Medicine, Saskatoon, SK, S7N 5E5, Canada.
    Background: Bacterial cell division is an essential process driven by the formation of a Z-ring structure, as a cytoskeletal scaffold at the mid-cell, followed by the recruitment of various proteins which form the divisome. The cell division interactome reflects the complement of different interactions between all divisome proteins. To date, only two cell division interactomes have been characterized, in Escherichia coli and in Streptococcus pneumoniae. Read More

    The relation between Blastocystis and the intestinal microbiota in Swedish travellers.
    BMC Microbiol 2017 Dec 11;17(1):231. Epub 2017 Dec 11.
    Department of Clinical Microbiology, Umeå University, -901 87, Umeå, SE, Sweden.
    Background: Blastocystis sp. is a unicellular eukaryote that is commonly found in the human intestine. Its ability to cause disease is debated and a subject for ongoing research. Read More

    6S RNA plays a role in recovery from nitrogen depletion in Synechocystis sp. PCC 6803.
    BMC Microbiol 2017 Dec 8;17(1):229. Epub 2017 Dec 8.
    Institute for Synthetic Microbiology, Cluster of Excellence on Plant Sciences (CEPLAS), Heinrich Heine University Düsseldorf, Universitätsstrasse 1, 40225, Düsseldorf, Germany.
    Background: The 6S RNA is a global transcriptional riboregulator, which is exceptionally widespread among most bacterial phyla. While its role is well-characterized in some heterotrophic bacteria, we subjected a cyanobacterial homolog to functional analysis, thereby extending the scope of 6S RNA action to the special challenges of photoautotrophic lifestyles.

    Results: Physiological characterization of a 6S RNA deletion strain (ΔssaA) demonstrates a delay in the recovery from nitrogen starvation. Read More

    Use of a mixed culture strategy to isolate halophilic bacteria with antibacterial and cytotoxic activity from the Manaure solar saltern in Colombia.
    BMC Microbiol 2017 Dec 8;17(1):230. Epub 2017 Dec 8.
    Bioscience Doctoral Program, Grupo de Investigación en Bioprospección, Faculty of Engineering, Universidad de La Sabana, Campus Puente del Común, Km 7, Autopista Norte de Bogotá, Chía, Colombia.
    Background: Water evaporation in solar salterns creates salinity gradients that promote the adaptation of microbial species to different salinities. This competitive habitat challenges the metabolic capabilities of microorganisms and promotes alterations in their production of secondary metabolites. Thus, solar salterns are a potentially important source of new natural products. Read More

    Investigation on the differentiation of two Ustilago esculenta strains - implications of a relationship with the host phenotypes appearing in the fields.
    BMC Microbiol 2017 Dec 6;17(1):228. Epub 2017 Dec 6.
    Zhejiang Provincial Key Laboratory of Biometrology and Inspection & Quarantine, College of Life Sciences, China Jiliang University, Hangzhou, Zhejiang, 310018, China.
    Background: Ustilago esculenta, a pathogenic basidiomycete fungus, infects Zizania latifolia to form edible galls named Jiaobai in China. The distinct growth conditions of U. esculenta induced Z. Read More

    Characterization of lpaH2 gene corresponding to lipopeptide synthesis in Bacillus amyloliquefaciens HAB-2.
    BMC Microbiol 2017 Dec 4;17(1):227. Epub 2017 Dec 4.
    Institute of Tropical Agriculture and Foresty, Hainan University, Hainan, China.
    Background: Bacillus spp. have prominent ability to suppress plant pathogens and corresponding diseases. Previous analyses of Bacillus spp. Read More

    Comparison of lipopolysaccharides composition of two different strains of Helicobacter pylori.
    BMC Microbiol 2017 Dec 4;17(1):226. Epub 2017 Dec 4.
    Division of Infectious Diseases, Department of Medicine, University of California San Diego, 9500 Gilman Drive, La Jolla, San Diego, California, 92093, USA.
    Background: Helicobacter pylori (H. pylori) is a Gram-negative, microaerophilic bacterium that is recognized as a major cause of chronic gastritis, peptic ulcers, and gastric cancer. Comparable to other Gram-negative bacteria, lipopolysaccharides (LPS) are an important cellular component of the outer membrane of H. Read More

    Expression and evolutionary patterns of mycobacteriophage D29 and its temperate close relatives.
    BMC Microbiol 2017 Dec 2;17(1):225. Epub 2017 Dec 2.
    Department of Biological Sciences, University of Pittsburgh, Pittsburgh, PA, 15260, USA.
    Background: Mycobacteriophages are viruses that infect Mycobacterium hosts. A large collection of phages known to infect the same bacterial host strain - Mycobacterium smegmatis mc2155 - exhibit substantial diversity and characteristically mosaic architectures. The well-studied lytic mycobacteriophage D29 appears to be a deletion derivative of a putative temperate parent, although its parent has yet to be identified. Read More

    Genome-wide motif predictions of BCARR-box in the amino-acid repressed genes of Lactobacillus helveticus CM4.
    BMC Microbiol 2017 Dec 2;17(1):224. Epub 2017 Dec 2.
    Core Technology laboratories, Asahi Group Holdings Ltd., 11-10, 5-chome, Fuchinobe, Chuo-ku, Sagamihara-shi, Kanagawa, 252-0206, Japan.
    Background: A BCARR (branched-chain amino acid responsive repressor) identified in proteolytic gene expressions in Lactobacillus helveticus is considered to negatively control transcriptions by binding to operator sites at the promoter regions in the presence of BCAAs. However, the distributions and regulatory potential of the BCARR in all genes repressed by BCAAs in CM4 remains unclear.

    Results: A genome-wide search for the BCARR-box was conducted to clarify the contribution of BCARR in the regulation of amino acid metabolism in L. Read More

    Antibiotic-resistant bacteria in the guts of insects feeding on plants: prospects for discovering plant-derived antibiotics.
    BMC Microbiol 2017 Dec 1;17(1):223. Epub 2017 Dec 1.
    Department Biological Chemistry, John Innes Centre, Norwich Research Park, Norwich, NR4 7UH, UK.
    Background: Although plants produce many secondary metabolites, currently none of these are commercial antibiotics. Insects feeding on specific plants can harbour bacterial strains resistant to known antibiotics suggesting that compounds in the plant have stimulated resistance development. We sought to determine whether the occurrence of antibiotic-resistant bacteria in insect guts was a widespread phenomenon, and whether this could be used as a part of a strategy to identify antibacterial compounds from plants. Read More

    First gene-ontology enrichment analysis based on bacterial coregenome variants: insights into adaptations of Salmonella serovars to mammalian- and avian-hosts.
    BMC Microbiol 2017 Nov 28;17(1):222. Epub 2017 Nov 28.
    Université PARIS-EST, Anses, Laboratory for food safety, Maisons-Alfort, France.
    Background: Many of the bacterial genomic studies exploring evolution processes of the host adaptation focus on the accessory genome describing how the gains and losses of genes can explain the colonization of new habitats. Consequently, we developed a new approach focusing on the coregenome in order to describe the host adaptation of Salmonella serovars.

    Methods: In the present work, we propose bioinformatic tools allowing (i) robust phylogenetic inference based on SNPs and recombination events, (ii) identification of fixed SNPs and InDels distinguishing homoplastic and non-homoplastic coregenome variants, and (iii) gene-ontology enrichment analyses to describe metabolic processes involved in adaptation of Salmonella enterica subsp. Read More

    Classification of a new phytoplasmas subgroup 16SrII-W associated with Crotalaria witches' broom diseases in Oman based on multigene sequence analysis.
    BMC Microbiol 2017 Nov 25;17(1):221. Epub 2017 Nov 25.
    Department of Crop Sciences, College of Agricultural and Marine Sciences, Sultan Qaboos University, Al Khod 123, PO Box 34, Seeb, Oman.
    Background: Crotalaria aegyptiaca, a low shrub is commonly observed in the sandy soils of wadis desert and is found throughout all regions in Oman. A survey for phytoplasma diseases was conducted. During a survey in a wild area in the northern regions of Oman in 2015, typical symptoms of phytoplasma infection were observed on C. Read More

    LBJMR medium: a new polyvalent culture medium for isolating and selecting vancomycin and colistin-resistant bacteria.
    BMC Microbiol 2017 Nov 23;17(1):220. Epub 2017 Nov 23.
    URMITE, Aix Marseille Université UM63, CNRS 7278, IRD 198, INSERM 1095 IHU - Méditerranée Infection, 19-21 Boulevard Jean Moulin, 13385, Marseille Cedex 05, France.
    Background: Multi-drug resistant bacteria are a phenomenon which is on the increase around the world, particularly with the emergence of colistin-resistant Enterobacteriaceae and vancomycin-resistant enterococci strains. The recent discovery of a plasmid-mediated colistin resistance with the description of the transferable mcr-1 gene raised concerns about the need for an efficient detection method for these pathogens, to isolate infected patients as early as possible. The LBJMR medium was developed to screen for all polymyxin-resistant Gram-negative bacteria, including mcr-1 positive isolates, and vancomycin-resistant Gram-positive bacteria. Read More

    Characterization of the inner membrane protein BB0173 from Borrelia burgdorferi.
    BMC Microbiol 2017 Nov 22;17(1):219. Epub 2017 Nov 22.
    Department of Veterinary Pathobiology, College of Veterinary Medicine and Biomedical Sciences, Texas A&M University, TAMU-4467, College Station, TX, 77843, USA.
    Background: The bacterial spirochete Borrelia burgdorferi is the causative agent of the most commonly reported arthropod-borne illness in the United States, Lyme disease. A family of proteins containing von Willebrand Factor A (VWFA) domains adjacent to a MoxR AAA+ ATPase have been found to be highly conserved in the genus Borrelia. Previously, a VWFA domain containing protein of B. Read More

    msaABCR operon is involved in persister cell formation in Staphylococcus aureus.
    BMC Microbiol 2017 Nov 22;17(1):218. Epub 2017 Nov 22.
    Department of Biological Sciences, The University of Southern Mississippi, 118 College Drive # 5018, Hattiesburg, MS, 39406-0001, USA.
    Background: Persister cells comprise a phenotypic variant that shows extreme antibiotic tolerance resulting in treatment failures of bacterial infections. While this phenomenon has posed a great threat in public health, mechanisms underlying their formation in Staphylococcus aureus remain largely unknown. Increasing evidences of the presence of persister cells in recalcitrant infections underscores the great urgency to unravel the mechanism by which these cells develop. Read More

    Isocitrate dehydrogenase mutation in Vibrio anguillarum results in virulence attenuation and immunoprotection in rainbow trout (Oncorhynchus mykiss).
    BMC Microbiol 2017 Nov 14;17(1):217. Epub 2017 Nov 14.
    Department of Cell and Molecular Biology, University of Rhode Island, Kingston, RI, 02881, USA.
    Background: Vibrio anguillarum is an extracellular bacterial pathogen that is a causative agent of vibriosis in finfish and crustaceans with mortality rates ranging from 30% to 100%. Mutations in central metabolism (glycolysis and the TCA cycle) of intracellular pathogens often result in attenuated virulence due to depletion of required metabolic intermediates; however, it was not known whether mutations in central metabolism would affect virulence in an extracellular pathogen such as V. anguillarum. Read More

    Immunomodulatory role for membrane vesicles released by THP-1 macrophages and respiratory pathogens during macrophage infection.
    BMC Microbiol 2017 Nov 13;17(1):216. Epub 2017 Nov 13.
    Department of Medical Microbiology, School of Nutrition and Translational Research in Metabolism (NUTRIM), Maastricht University Medical Centre, P. Debyelaan 25, 6229, HZ, Maastricht, The Netherlands.
    Background: During infection, inflammation is partially driven by the release of mediators which facilitate intercellular communication. Amongst these mediators are small membrane vesicles (MVs) that can be released by both host cells and Gram-negative and -positive bacteria. Bacterial membrane vesicles are known to exert immuno-modulatory and -stimulatory actions. Read More

    Multiplex real-time PCR assay for detection of Escherichia coli O157:H7 and screening for non-O157 Shiga toxin-producing E. coli.
    BMC Microbiol 2017 Nov 9;17(1):215. Epub 2017 Nov 9.
    Division of Molecular Biology, Center for Food Safety and Applied Nutrition, Food and Drug Administration, Laurel, MD, 20708, USA.
    Background: Shiga toxin-producing Escherichia coli (STEC), including E. coli O157:H7, are responsible for numerous foodborne outbreaks annually worldwide. E. Read More

    In vivo functional analysis of L-rhamnose metabolic pathway in Aspergillus niger: a tool to identify the potential inducer of RhaR.
    BMC Microbiol 2017 Nov 6;17(1):214. Epub 2017 Nov 6.
    Fungal Physiology, Westerdijk Fungal Biodiversity Institute & Fungal Molecular Physiology, Utrecht University, Uppsalalaan 8, 3584, CT, Utrecht, The Netherlands.
    Background: The genes of the non-phosphorylative L-rhamnose catabolic pathway have been identified for several yeast species. In Schefferomyces stipitis, all L-rhamnose pathway genes are organized in a cluster, which is conserved in Aspergillus niger, except for the lra-4 ortholog (lraD). The A. Read More

    Genome-level comparisons provide insight into the phylogeny and metabolic diversity of species within the genus Lactococcus.
    BMC Microbiol 2017 Nov 3;17(1):213. Epub 2017 Nov 3.
    Key Laboratory of Dairy Biotechnology and Engineering, Ministry of Education, Key Laboratory of Dairy Products Processing, Ministry of Agriculture, Inner Mongolia Agricultural University, Hohhot, China.
    Background: The genomic diversity of different species within the genus Lactococcus and the relationships between genomic differentiation and environmental factors remain unclear. In this study, type isolates of ten Lactococcus species/subspecies were sequenced to assess their genomic characteristics, metabolic diversity, and phylogenetic relationships.

    Results: The total genome sizes varied between 1. Read More

    Molecular detection of Porcine circovirus type 2 in swine herds of Eastern Cape Province South Africa.
    BMC Microbiol 2017 Nov 2;17(1):212. Epub 2017 Nov 2.
    Applied and Environmental Microbiology Research Group (AEMREG), Department of Biochemistry and Microbiology, University of Fort Hare, Private Bag X1314, Alice, Eastern Cape Province, 5700, South Africa.
    Background: Porcine circovirus type 2 (PCV2) remains the main causative viral pathogen of porcine circovirus-associated diseases (PCVAD) of great economic importance in pig industry globally. This present study aims at determining the occurrence of the viral pathogen in swine herds of the Province.

    Results: The data obtained revealed that 15. Read More

    Cupriavidus pinatubonensis AEO106 deals with copper-induced oxidative stress before engaging in biodegradation of the herbicide 4-chloro-2-methylphenoxyacetic acid.
    BMC Microbiol 2017 Oct 30;17(1):211. Epub 2017 Oct 30.
    Section for Microbial Ecology and Biotechnology, Department of Plant and Environmental Sciences, University of Copenhagen, Thorvaldsensvej 40, Frederiksberg C, Denmark.
    Background: Microbial degradation of phenoxy acid (PA) herbicides in agricultural soils is important to minimize herbicide leaching to groundwater reservoirs. Degradation may, however, be hampered by exposure of the degrader bacteria to toxic metals as copper (Cu) in the soil environment. Exposure to Cu leads to accumulation of intracellular reactive oxygen species (ROS) in some bacteria, but it is not known how Cu-derived ROS and an ensuing oxidative stress affect the degradation of PA herbicides. Read More

    Strain-dependent interactions of Streptococcus gallolyticus subsp. gallolyticus with human blood cells.
    BMC Microbiol 2017 Oct 27;17(1):210. Epub 2017 Oct 27.
    Institut für Laboratoriums- und Transfusionsmedizin, Herz- und Diabeteszentrum Nordrhein-Westfalen, Universitätsklinikum der Ruhr-Universität Bochum, Bad Oeynhausen, Germany.
    Background: Streptococcus gallolyticus subsp. gallolyticus (S. gallolyticus) is the causative pathogen in up to 20% of streptococcal-induced infective endocarditis (IE) cases. Read More

    Characterizing endophytic competence and plant growth promotion of bacterial endophytes inhabiting the seed endosphere of Rice.
    BMC Microbiol 2017 Oct 26;17(1):209. Epub 2017 Oct 26.
    Department of Environmental and Biological Chemistry, College of Agriculture, Life and Environmental Sciences, Chungbuk National University, Cheongju, Chungbuk, 28644, Republic of Korea.
    Background: Rice (Oryza sativa L. ssp. indica) seeds as plant microbiome present both an opportunity and a challenge to colonizing bacterial community living in close association with plants. Read More

    Electrochemical performance and microbial community profiles in microbial fuel cells in relation to electron transfer mechanisms.
    BMC Microbiol 2017 Oct 18;17(1):208. Epub 2017 Oct 18.
    Departament de Genètica i Microbiologia, Universitat Autònoma de Barcelona, Bellaterra, Spain.
    Background: Microbial fuel cells (MFCs) operating with complex microbial communities have been extensively reported in the past, and are commonly used in applications such as wastewater treatment, bioremediation or in-situ powering of environmental sensors. However, our knowledge on how the composition of the microbial community and the different types of electron transfer to the anode affect the performance of these bioelectrochemical systems is far from complete. To fill this gap of knowledge, we designed a set of three MFCs with different constrains limiting direct and mediated electron transfer to the anode. Read More

    Identification of nucleoid associated proteins (NAPs) under oxidative stress in Staphylococcus aureus.
    BMC Microbiol 2017 Oct 2;17(1):207. Epub 2017 Oct 2.
    Faculty of Medicine, University of Tsukuba, 1-1-1 Tennodai, Tsukuba, 305-8575, Japan.
    Background: Bacterial nucleoid consists of genome DNA, RNA, and hundreds of nucleoid-associated proteins (NAPs). Escherichia coli nucleoid is compacted towards the stationary phase, replacing most log-phase NAPs with the major stationary-phase nucleoid protein, Dps. In contrast, Staphylococcus aureus nucleoid sustains the fiber structures throughout the growth. Read More

    Temporal dynamics in microbial soil communities at anthrax carcass sites.
    BMC Microbiol 2017 Sep 26;17(1):206. Epub 2017 Sep 26.
    Department of Biosciences, Centre for Ecological and Evolutionary Synthesis (CEES), University of Oslo, The Kristine Bonnevie Building, UiO, campus Blindern, Blindern, Oslo, Norway.
    Background: Anthrax is a globally distributed disease affecting primarily herbivorous mammals. It is caused by the soil-dwelling and spore-forming bacterium Bacillus anthracis. The dormant B. Read More

    Impact of delivery mode on the colostrum microbiota composition.
    BMC Microbiol 2017 Sep 25;17(1):205. Epub 2017 Sep 25.
    Laboratory of Clinical Microbiology, Department of Biomedical Sciences for Health, University of Milan, Via Mangiagalli 31, Milan, 20133, Italy.
    Background: Breast milk is a rich nutrient with a temporally dynamic nature. In particular, numerous alterations in the nutritional, immunological and microbiological content occur during the transition from colostrum to mature milk. The objective of our study was to evaluate the potential impact of delivery mode on the microbiota of colostrum, at both the quantitative and qualitative levels (bacterial abundance and microbiota network). Read More

    A modified multilocus sequence typing protocol to genotype Kingella kingae from oropharyngeal swabs without bacterial isolation.
    BMC Microbiol 2017 Sep 21;17(1):200. Epub 2017 Sep 21.
    Aix-Marseille Univ, UM63, CNRS 7278, IRD 198, Inserm 1095, Assistance Publique - Hôpitaux de Marseille, URMITE, Institut Hospitalo-Universitaire Méditerranée Infection, 19-21 Boulevard Jean Moulin, 13385, Marseille, France.
    Background: Outbreaks of Kingella kingae infection are an emerging public health concern among daycare attendees carrying epidemic clones in the oropharynx. However, genotyping of such epidemic clones from affected cases is limited by the low performance of current methods to detect K. kingae from blood samples and lack of specimens available from infected sites. Read More

    Effect of vitamin A supplementation on gut microbiota in children with autism spectrum disorders - a pilot study.
    BMC Microbiol 2017 Sep 22;17(1):204. Epub 2017 Sep 22.
    Department of Child Health Care, Children's Hospital of Chongqing Medical University, Chongqing, China.
    Background: Dysbiosis of gut microbiota are commonly reported in autism spectrum disorder (ASD) and may contribute to behavioral impairment. Vitamin A (VA) plays a role in regulation of gut microbiota. This study was performed to investigate the role of VA in the changes of gut microbiota and changes of autism functions in children with ASD. Read More

    Evaluation of prokaryotic diversity of five hot springs in Eritrea.
    BMC Microbiol 2017 Sep 22;17(1):203. Epub 2017 Sep 22.
    Taita Taveta University, P.O. Box 635-80300, Voi, Kenya.
    Background: Total community rDNA was used to determine the diversity of bacteria and archaea from water, wet sediment and microbial mats samples of hot springs in the Eastern lowlands of Eritrea. The temperatures of the springs range from 49.5 °C to 100 °C while pH levels varied from 6. Read More

    1H NMR spectroscopy-based metabolomics analysis for the diagnosis of symptomatic E. coli-associated urinary tract infection (UTI).
    BMC Microbiol 2017 Sep 21;17(1):201. Epub 2017 Sep 21.
    Department of Biomedical Sciences, Microbiology and Virology Unit, University of Cagliari, S.S. 554, Bivio per Sestu, I-09042, Monserrato, Cagliari, Italy.
    Background: Urinary tract infection (UTI) is one of the most common diagnoses in girls and women, and to a lesser extent in boys and men younger than 50 years. Escherichia coli, followed by Klebsiella spp. and Proteus spp. Read More

    Identification of new Corynebacterium pseudotuberculosis antigens by immunoscreening of gene expression library.
    BMC Microbiol 2017 Sep 21;17(1):202. Epub 2017 Sep 21.
    Embrapa Beef Cattle, Animal Health - Animal Genetic Engineering Laboratory, Campo Grande, MS, Brazil.
    Background: Caseous lymphadenitis (CLA) is a disease that affects sheep, goats and occasionally humans. The etiologic agent is the Corynebacterium pseudotuberculosis bacillus. The objective of this study was to build a gene expression library from C. Read More

    A rapid seamless method for gene knockout in Pseudomonas aeruginosa.
    BMC Microbiol 2017 Sep 19;17(1):199. Epub 2017 Sep 19.
    Department of Pharmaceutical Sciences, School of Pharmacy, University of Maryland, Baltimore, MD, USA.
    Background: Pseudomonas aeruginosa is a model organism for the study of quorum sensing, biofilm formation, and also leading cause of nosocomial infections in immune compromised patients. As such P. aeruginosa is one of the most well studied organisms in terms of its genetics. Read More

    Regulation of bacteria population behaviors by AI-2 "consumer cells" and "supplier cells".
    BMC Microbiol 2017 Sep 19;17(1):198. Epub 2017 Sep 19.
    Key Laboratory of Molecular Microbiology and Technology for Ministry of Education, Nankai University, Tianjin, 300071, China.
    Background: Autoinducer-2 (AI-2) is a universal signal molecule and enables an individual bacteria to communicate with each other and ultimately control behaviors of the population. Harnessing the character of AI-2, two kinds of AI-2 "controller cells" ("consumer cells" and "supplier cells") were designed to "reprogram" the behaviors of entire population.

    Results: For the consumer cells, genes associated with the uptake and processing of AI-2, which includes LsrACDB, LsrFG, LsrK, were overexpressed in varying combinations. Read More

    The role of the two-component systems Cpx and Arc in protein alterations upon gentamicin treatment in Escherichia coli.
    BMC Microbiol 2017 Sep 18;17(1):197. Epub 2017 Sep 18.
    FB 5 Microbiology, Department of Biology/Chemistry, University Osnabrück, Barbarastraße 11, 49076, Osnabrück, Germany.
    Background: The aminoglycoside antibiotic gentamicin was supposed to induce a crosstalk between the Cpx- and the Arc-two-component systems (TCS). Here, we investigated the physical interaction of the respective TCS components and compared the results with their respective gene expression and protein abundance. The findings were interpreted in relation to the global proteome profile upon gentamicin treatment. Read More

    The process-related dynamics of microbial community during a simulated fermentation of Chinese strong-flavored liquor.
    BMC Microbiol 2017 Sep 15;17(1):196. Epub 2017 Sep 15.
    Key Laboratory of Environmental and Applied Microbiology, Chinese Academy of Sciences & Environmental Microbiology Key Laboratory of Sichuan Province, Chengdu Institute of Biology, Chinese Academy of Sciences, Chengdu, 610041, People's Republic of China.
    Background: Famous Chinese strong-flavored liquor (CSFL) is brewed by microbial consortia in a special fermentation pit (FT). However, the fermentation process was not fully understood owing to the complicate community structure and metabolism. In this study, the process-related dynamics of microbial communities and main flavor compounds during the 70-day fermentation process were investigated in a simulated fermentation system. Read More

    A comparison of sequencing platforms and bioinformatics pipelines for compositional analysis of the gut microbiome.
    BMC Microbiol 2017 Sep 13;17(1):194. Epub 2017 Sep 13.
    Department of Medicine, Division of Gastroenterology and Hepatology, and Microbiome Core Facility, Center for Gastrointestinal Biology and Disease, School of Medicine, University of North Carolina, Campus Box 7555, 332 Isaac Taylor Hall, Chapel Hill, NC, 27599-7545, USA.
    Background: Advancements in Next Generation Sequencing (NGS) technologies regarding throughput, read length and accuracy had a major impact on microbiome research by significantly improving 16S rRNA amplicon sequencing. As rapid improvements in sequencing platforms and new data analysis pipelines are introduced, it is essential to evaluate their capabilities in specific applications. The aim of this study was to assess whether the same project-specific biological conclusions regarding microbiome composition could be reached using different sequencing platforms and bioinformatics pipelines. Read More

    Increased survival and proliferation of the epidemic strain Mycobacterium abscessus subsp. massiliense CRM0019 in alveolar epithelial cells.
    BMC Microbiol 2017 Sep 13;17(1):195. Epub 2017 Sep 13.
    Departamento de Microbiologia, Imunologia e Parasitologia, Escola Paulista de Medicina, Universidade Federal de São Paulo, São Paulo, SP, Brazil.
    Background: Outbreaks of infections caused by rapidly growing mycobacteria have been reported worldwide generally associated with medical procedures. Mycobacterium abscessus subsp. massiliense CRM0019 was obtained during an epidemic of postsurgical infections and was characterized by increased persistence in vivo. Read More

    Transcript profiling of the immunological interactions between Actinobacillus pleuropneumoniae serotype 7 and the host by dual RNA-seq.
    BMC Microbiol 2017 Sep 12;17(1):193. Epub 2017 Sep 12.
    College of Veterinary Medicine, Sichuan Agricultural University, Huimin Road 211, Weenjiang District, Chengdu, Sichuan, China.
    Background: The complexity of the pathogenic mechanism underlying the host immune response to Actinobacillus pleuropneumonia (App) makes the use of preventive measures difficult, and a more global view of the host-pathogen interactions and new insights into this process are urgently needed to reveal the pathogenic and immune mechanisms underlying App infection. Here, we infected specific pathogen-free Mus musculus with App serotype 7 by intranasal inoculation to construct an acute hemorrhagic pneumonia infection model and isolated the infected lungs for analysis of the interactions by dual RNA-seq.

    Results: Four cDNA libraries were constructed, and 2428 differentially expressed genes (DEGs) of the host and 333 DEGs of App were detected. Read More

    Ciliate diversity and distribution patterns in the sediments of a seamount and adjacent abyssal plains in the tropical Western Pacific Ocean.
    BMC Microbiol 2017 Sep 12;17(1):192. Epub 2017 Sep 12.
    Department of Marine Organism Taxonomy and Phylogeny, Institute of Oceanology, Chinese Academy of Sciences, 7 Nanhai Road, Qingdao, 266071, People's Republic of China.
    Background: Benthic ciliates and the environmental factors shaping their distribution are far from being completely understood. Likewise, deep-sea systems are amongst the least understood ecosystems on Earth. In this study, using high-throughput DNA sequencing, we investigated the diversity and community composition of benthic ciliates in different sediment layers of a seamount and an adjacent abyssal plain in the tropical Western Pacific Ocean with water depths ranging between 813 m and 4566 m. Read More

    Annexin A2 (ANXA2) interacts with nonstructural protein 1 and promotes the replication of highly pathogenic H5N1 avian influenza virus.
    BMC Microbiol 2017 Sep 11;17(1):191. Epub 2017 Sep 11.
    State Avian Influenza Reference Laboratory, State Key Laboratory of Veterinary Biotechnology, Harbin Veterinary Research Institute, Chinese Academy of Agricultural Sciences, Harbin, 150001, China.
    Background: Non-structural protein 1 (NS1) is a multifunctional protein and a crucial regulatory factor in the replication and pathogenesis of avian influenza virus (AIV). Studies have shown that NS1 can interact with a variety of host proteins to modulate the viral life cycle. We previously generated a monoclonal antibody against NS1 protein; In the current research study, using this antibody, we immunoprecipitated host proteins that interact with NS1 to better understand the roles played by NS1 in communications between virus and host. Read More

    Comparison of rumen bacterial communities in dairy herds of different production.
    BMC Microbiol 2017 Aug 30;17(1):190. Epub 2017 Aug 30.
    Department of Clinical Studies, School of Veterinary Medicine, New Bolton Center, University of Pennsylvania, Kennett Square, PA, 19348, USA.
    Background: The purpose of this study was to compare the rumen bacterial composition in high and low yielding dairy cows within and between two dairy herds. Eighty five Holstein dairy cows in mid-lactation (79-179 days in milk) were selected from two farms: Farm 12 (M305 = 12,300 kg; n = 47; 24 primiparous cows, 23 multiparous cows) and Farm 9 (M305 = 9700 kg; n = 38; 19 primiparous cows, 19 multiparous cows). Each study cow was sampled once using the stomach tube method and processed for 16S rRNA gene amplicon sequencing using the Ion Torrent (PGM) platform. Read More

    Evaluation of microplate immunocapture method for detection of Vibrio cholerae, Salmonella Typhi and Shigella flexneri from food.
    BMC Microbiol 2017 Aug 29;17(1):189. Epub 2017 Aug 29.
    Industrial Microbiology Laboratory, Institute of Food Science and Technology (IFST), Bangladesh Council of Scientific and Industrial Research (BCSIR), Dhaka, 1205, Bangladesh.
    Background: Improved methods with better separation and concentration ability for detection of foodborne pathogens are in constant need. The aim of this study was to evaluate microplate immunocapture (IC) method for detection of Salmonella Typhi, Shigella flexneri and Vibrio cholerae from food samples to provide a better alternative to conventional culture based methods.

    Results: The IC method was optimized for incubation time, bacterial concentration, and capture efficiency. Read More

    Growth phase-dependent expression profiles of three vital H-NS family proteins encoded on the chromosome of Pseudomonas putida KT2440 and on the pCAR1 plasmid.
    BMC Microbiol 2017 Aug 29;17(1):188. Epub 2017 Aug 29.
    Research Center of Bioenergy & Bioremediation, College of Resources and Environment, Southwest University, No.2 Tiansheng Road, BeiBei District, Chongqing, 400715, China.
    Background: H-NS family proteins are nucleoid-associated proteins that form oligomers on DNA and function as global regulators. They are found in both bacterial chromosomes and plasmids, and were suggested to be candidate effectors of the interaction between them. TurA and TurB are the predominantly expressed H-NS family proteins encoded on the chromosome of Pseudomonas putida KT2440, while Pmr is encoded on the carbazole-degradative incompatibility group P-7 plasmid pCAR1. Read More

    IL-8 and IP-10 expression from human bronchial epithelial cells BEAS-2B are promoted by Streptococcus pneumoniae endopeptidase O (PepO).
    BMC Microbiol 2017 Aug 24;17(1):187. Epub 2017 Aug 24.
    Department of Laboratory Medicine, The Affiliated Hospital of North Sichuan Medical College, 63 Wenhua Road, Shunqing District, Nanchong, Sichuan, 637000, China.
    Background: The bronchial epithelium serves as the first defendant line of host against respiratory inhaled pathogens, mainly through releasing chemokines (e.g. interleukin-8 (IL-8), interferon-induced protein 10 (IP-10) etc. Read More

    Upper and lower respiratory tract microbiota in horses: bacterial communities associated with health and mild asthma (inflammatory airway disease) and effects of dexamethasone.
    BMC Microbiol 2017 Aug 23;17(1):184. Epub 2017 Aug 23.
    Faculty of Veterinary Medicine, University of Calgary, Calgary, AB, Canada.
    Background: The microbial composition of the equine respiratory tract, and differences due to mild equine asthma (also called Inflammatory Airway Disease (IAD)) have not been reported. The primary treatment for control of IAD in horses are corticosteroids. The objectives were to characterize the upper and lower respiratory tract microbiota associated with respiratory health and IAD, and to investigate the effects of dexamethasone on these bacterial communities using high throughput sequencing. Read More

    IRAK-M alters the polarity of macrophages to facilitate the survival of Mycobacterium tuberculosis.
    BMC Microbiol 2017 Aug 23;17(1):185. Epub 2017 Aug 23.
    Department of Pathogen Biology, School of Basic Medicine, Tongji Medical College, Huazhong University of Science and Technology, Wuhan, 430030, People's Republic of China.
    Background: Intracellular bacterium, Mycobacterium tuberculosis (M. tb), infects specifically macrophages as host cells. IRAK-M, a member of IRAK family, is a negative regulator in TLR signaling and specifically expresses in monocytes and macrophages. Read More

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