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Applied and Environmental Microbiology

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https://www.readbyqxmd.com/read/28432102/two-distinct-%C3%AE-l-arabinofuranosidases-in-caldicellulosiruptor-species-drive-degradation-of-arabinose-based-polysaccharides
#1
Md Abu Saleh, Wen-Jie Han, Ming Lu, Bing Wang, Huayue Li, Robert M Kelly, Fu-Li Li
Species in the extremely thermophilic genus Caldicellulosiruptor can degrade unpretreated plant biomass through the action of multi-modular glycoside hydrolases. To date, most focus with these bacteria has been on hydrolysis of glucans and xylans, while biodegradation mechanism for arabinose-based polysaccharides remains unclear. Here, putative α-L-arabinofuranosidases (AbFs) were identified in Caldicellulosiruptor species by homology to less thermophilic versions of these enzymes. From this screen, an extracellular XynF was determined to be a key factor in hydrolyzing α-1,2-, α-1,3-, and α-1,5-L-arabinofuranosyl residues of arabinose-based polysaccharides...
April 21, 2017: Applied and Environmental Microbiology
https://www.readbyqxmd.com/read/28432101/polio-and-measles-down-the-drain-environmental-enterovirus-surveillance-in-the-netherlands-2005-2015
#2
Kimberley S M Benschop, Harrie G van der Avoort, Edin Jusic, Harry Vennema, Rob van Binnendijk, Erwin Duizer
Polioviruses (PV) are members of the genus Enterovirus (EV). In the Netherlands, the exclusion of PVcirculation is based on Clinical EV Surveillance (CEVS) of EV positive cases and routine Environmental EV Surveillance (EEVS) conducted on sewage samples collected in the region of the Netherlands where vaccination coverage is low due to religious reason.We compared the EEVS data to those of the CEVS to gain insight in the relevance of EEVS for poliovirus and non-polio enterovirus surveillance. Following the polio outbreak in Syria, EEVS was performed at the Primary Refugee Center Ter Apel in the Netherlands and data were compared to CEVS and EEVS...
April 21, 2017: Applied and Environmental Microbiology
https://www.readbyqxmd.com/read/28432100/casein-kinase-i-isoform-hrr25-is-a-negative-regulator-of-haa1-in-the-weak-acid-stress-response-pathway-in-saccharomyces-cerevisiae
#3
Morgan E Collins, Joshua J Black, Zhengchang Liu
Haa1 is a transcription factor that adapts Saccharomyces cerevisiae cells to weak organic acid stresses by activating the expression of various genes. Many of these genes encode membrane proteins such as TPO2 and YRO2 How Haa1 is activated by weak acids is not clear. Here, we show that casein kinase I isoform Hrr25 is an important negative regulator of Haa1. Haa1 is known to be multiply phosphorylated. We found that mutations in HRR25 lead to reduced Haa1 phosphorylation and increased expression of Haa1-target genes, and that Hrr25 interacts with Haa1...
April 21, 2017: Applied and Environmental Microbiology
https://www.readbyqxmd.com/read/28432099/acute-hepatopancreatic-necrosis-disease-ahpnd-causing-vibrio-parahaemolyticus-strains-maintain-an-antibacterial-type-vi-secretion-system-with-versatile-effector-repertoires
#4
Peng Li, Lisa N Kinch, Ann Ray, Ankur B Dalia, Qian Cong, Linda M Nunan, Andrew Camilli, Nick V Grishin, Dor Salomon, Kim Orth
Acute hepatopancreatic necrosis disease (AHPND) is a newly emerging shrimp disease that has severely damaged the global shrimp industry. AHPND is caused by toxic strains of Vibrio parahaemolyticus (V. parahaemolyticus) that have acquired a "selfish plasmid" encoding the deadly binary toxins PirA(vp)/PirB(vp) To better understand the repertoire of virulence factors in AHPND-causing V. parahaemolyticus, we conducted a comparative analysis using genome sequences of the clinical strain RIMD2210633, environmental non-AHPND and toxic AHPND isolates of V...
April 21, 2017: Applied and Environmental Microbiology
https://www.readbyqxmd.com/read/28432098/inhibitory-effect-of-coumarin-on-syntrophic-fatty-acid-oxidizing-and-methanogenic-cultures-and-biogas-reactor-microbiomes
#5
Denny Popp, Caroline M Plugge, Sabine Kleinsteuber, Hauke Harms, Heike Sträuber
Coumarins are widely found in plants as natural constituents having antimicrobial activity. When considering plants rich in coumarins for biogas production, adverse effects on microorganisms driving the anaerobic digestion process are expected. Furthermore, coumarin derivatives like warfarin, which are used as anti-coagulating medicine, are found in wastewater affecting its treatment. Coumarin as the structure common to all coumarins inhibits the anaerobic digestion process. However, details of this inhibition are still elusive...
April 21, 2017: Applied and Environmental Microbiology
https://www.readbyqxmd.com/read/28432097/diazotrophy-overcomes-the-deleterious-growth-phenotype-of-glne-deletion-in-azotobacter-vinelandii
#6
Florence Mus, Alex Tseng, Ray Dixon, John W Peters
Overcoming the inhibitory effects of excess environmental ammonium on nitrogenase synthesis or activity, or preventing ammonium assimilation, have both been considered as strategies to increase the amount of fixed nitrogen transferred from bacterial to plant partners in associative or symbiotic plant-diazotroph relationships. The GlnE adenylyltransferase/adenylyl-removing enzyme catalyzes reversible adenylylation of glutamine synthetase (GS), thereby affecting the post translational regulation of ammonium assimilation critical for appropriate coordination of carbon and nitrogen assimilation...
April 21, 2017: Applied and Environmental Microbiology
https://www.readbyqxmd.com/read/28432096/interaction-between-dapg-and-hcn-producing-pseudomonas-brassicacearum-lbum300-and-clavibacter-michiganensis-subsp-michiganensis-in-the-rhizosphere-of-tomato
#7
Mélanie M Paulin, Amy Novinscak, Carine Lanteigne, Vijay J Gadkar, Martin Filion
We have previously demonstrated that inoculation of tomato plants with 2,4-diacetylphloroglucinol (DAPG) and hydrogen cyanide (HCN) producing Pseudomonas brassicacearum LBUM300 could significantly reduce bacterial canker symptoms caused by Clavibacter michiganensis subsp. michiganensis (Cmm). In this study, in order to better characterize the population dynamics of LBUM300 in the rhizosphere of tomato plants, we characterized the role played by DAPG and HCN production by LBUM300 on rhizosphere colonization of healthy and Cmm-infected tomato plants...
April 21, 2017: Applied and Environmental Microbiology
https://www.readbyqxmd.com/read/28432095/mushroom-emergence-detected-by-combining-spore-trapping-with-molecular-techniques
#8
Carles Castaño, Jonàs Oliva, Juan Martínez de Aragón, Josu G Alday, Javier Parladé, Joan Pera, José Antonio Bonet
Obtaining reliable and representative mushroom production data requires time-consuming sampling schemes. In this paper, we assessed a simple methodology to detect mushroom emergence by trapping the fungal spores of the fruiting body community in plots where mushroom production was determined weekly. We compared the performance of filter paper traps with that of funnel traps and combined these spore trapping methods with species-specific quantitative real-time PCR and Illumina MiSeq to determine the spore abundance...
April 21, 2017: Applied and Environmental Microbiology
https://www.readbyqxmd.com/read/28432094/the-use-of-synthetic-hybrid-strains-to-determine-the-role-of-replicon-3-in-virulence-of-the-burkholderia-cepacia-complex
#9
Kirsty Agnoli, Roman Freitag, Margarida C Gomes, Christian Jenul, Angela Suppiger, Olga Mannweiler, Carmen Frauenknecht, Daniel Janser, Annette C Vergunst, Leo Eberl
The Burkholderia cepacia complex (Bcc) displays a wealth of metabolic diversity with great biotechnological potential, but the utilisation of these bacteria is limited by their opportunistic pathogenicity to humans. The third replicon of the Bcc, megaplasmid pC3 (0.5 to 1.4 Mb, previously chromosome 3), is important for various phenotypes, including virulence, antifungal and proteolytic activities, and the utilization of certain substrates. Approximately half of plasmid pC3 is well-conserved throughout sequenced Bcc members, while the other half is not...
April 21, 2017: Applied and Environmental Microbiology
https://www.readbyqxmd.com/read/28432093/diversity-of-integrative-and-conjugative-elements-of-streptococcus-salivarius-and-their-intra-and-interspecies-transfer
#10
Narimane Dahmane, Virginie Libante, Florence Charron-Bourgoin, Eric Guédon, Gérard Guédon, Nathalie Leblond-Bourget, Sophie Payot
Integrative and Conjugative Elements (ICEs) are widespread chromosomal mobile genetic elements, which can transfer autonomously by conjugation in bacteria. Thirteen ICEs with a conjugation module closely related to that of ICESt3 of Streptococcus thermophilus were characterized in Streptococcus salivarius by whole genome sequencing. Sequence comparison highlighted ICE evolution by shuffling of 3 different integration/excision modules (for integration in the 3' end of fda, rpsI or rpmG genes) with the conjugation module of the ICESt3 subfamily...
April 21, 2017: Applied and Environmental Microbiology
https://www.readbyqxmd.com/read/28432092/a-genome-wide-investigation-on-biofilm-formation-in-bacillus-cereus
#11
Fang Yan, Yiyang Yu, Kevin Gozzi, Yun Chen, Jian-Hua Guo, Yunrong Chai
Bacillus cereus is a soil-dwelling Gram-positive bacterium capable of forming structured multicellular communities, or biofilms. However, the regulatory pathways controlling biofilm formation are less well understood in B. cereus In this work, we developed a method to study B. cereus biofilms formed at the air-liquid interface. We applied two genome-wide approaches, random transposon insertion mutagenesis to identify genes that are potentially important for biofilm formation, and transcriptome analyses by RNA-seq to characterize genes that are differentially expressed in B...
April 21, 2017: Applied and Environmental Microbiology
https://www.readbyqxmd.com/read/28411228/day-to-day-dynamics-of-commensal-escherichia-coli-in-zimbabwean-cows-evidence-temporal-fluctuations-within-a-host-specific-population-structure
#12
Méril Massot, Camille Couffignal, Olivier Clermont, Camille D'Humières, Jérémie Chatel, Nicolas Plault, Antoine Andremont, Alexandre Caron, France Mentré, Erick Denamur
To get insights in the temporal pattern of commensal Escherichia coli populations, we daily sampled feces of four healthy cows from the same herd over 25 days, in the Hwange district of Zimbabwe. The cows did not receive antibiotic treatment during the 3 previous months. We performed viable E. coli counts, and characterized at a clonal level, screened for stx and eae genes, and tested for antibiotic susceptibilities the 326 isolates originating from the 98 sampled stools. We observed that E. coli counts and dominant clones were different among cows, and very few clones were shared...
April 14, 2017: Applied and Environmental Microbiology
https://www.readbyqxmd.com/read/28411227/fate-and-persistence-of-a-pathogenic-ndm-1-positive-escherichia-coli-strain-in-anaerobic-and-aerobic-sludge-microcosms
#13
David Mantilla-Calderon, Pei-Ying Hong
The presence of emerging biological pollutants in treated wastewater effluents has gained attention due to increased interest in water reuse. To evaluate the effectiveness of the removal of such contaminants by the conventional wastewater treatment process, the fate and decay kinetics of NDM-1-positive Escherichia coli strain PI7 and its plasmid-encoded antibiotic resistance genes (ARGs) were assessed in microcosms of anaerobic and aerobic sludge. Results showed that E. coli PI7 decayed at a significantly slower rate under anaerobic conditions...
April 14, 2017: Applied and Environmental Microbiology
https://www.readbyqxmd.com/read/28411226/the-current-state-of-macrolide-resistance-in-campylobacter-a-review-of-trends-and-impacts-of-resistance-mechanisms
#14
Hannah Bolinger, Sophia Kathariou
Campylobacter spp., especially Campylobacter jejuni and C. coli, are leading bacterial foodborne pathogens worldwide. In the United States, an estimated 0.8 million cases of campylobacteriosis occur annually, mostly involving C. jejuni. Campylobacteriosis is generally self-limiting but in severe cases treatment with antibiotics may be mandated. Increasing incidence of fluoroquinolone resistance in Campylobacter has rendered macrolides like erythromycin and azithromycin the drugs of choice for human campylobacteriosis...
April 14, 2017: Applied and Environmental Microbiology
https://www.readbyqxmd.com/read/28411225/genome-wide-search-for-ionizing-radiation-responsive-elements-in-deinococcus-radiodurans-reveals-regulatory-role-of-the-dna-gyrase-subunit-a-5-utr-in-the-radiation-and-desiccation-response-rdr
#15
Jordan K Villa, Paul Amador, Justin Janovsky, Arijit Bhuyan, Roland Saldanha, Thomas J Lamkin, Lydia M Contreras
Tight regulation of gene expression is important for Deinococcus radiodurans survival, a model bacterium of extreme stress resistance. Few studies have examined the use of regulatory RNAs as a possible contributing mechanism to ionizing radiation (IR) resistance, despite their proffered efficient and dynamic gene expression regulation under IR stress. This work presents a transcriptome-based approach for identification of stress-responsive regulatory 5' UTR elements in D. radiodurans R1 that can be broadly applied to other bacteria...
April 14, 2017: Applied and Environmental Microbiology
https://www.readbyqxmd.com/read/28411224/concurrent-haloalkanoate-degradation-and-chlorate-reduction-by-pseudomonas-chloritidismutans-aw-1-t
#16
Peng Peng, Ying Zheng, Jasper J Koehorst, Peter J Schaap, Alfons J M Stams, Hauke Smidt, Siavash Atashgahi
Haloalkanoates are environmental pollutants that can be degraded aerobically by microorganisms producing hydrolytic dehalogenases. However, there is lack of information about anaerobic degradation of haloalkanoates. Genome analysis of Pseudomonas chloritidismutans AW-1(T), a facultative anaerobic chlorate-reducing bacterium, showed presence of two putative haloacid dehalogenase genes, l-dex and dehI, encoding an L-2-haloacid dehalogenase (L-DEX) and a halocarboxylic acid dehydrogenase (DehI). Hence, we studied concurrent degradation of haloalkanoates and chlorate as a yet unexplored trait of strain AW-1(T) The deduced amino acid sequences of L-DEX and DehI revealed 33-37% and 26-86% identities with biochemically/structurally characterized L-DEX and D-, DL-2-haloacid dehalogenase enzymes, respectively...
April 14, 2017: Applied and Environmental Microbiology
https://www.readbyqxmd.com/read/28411223/modified-bacteriophage-s16-long-tail-fiber-proteins-for-rapid-and-specific-immobilization-and-detection-of-salmonella-cells
#17
Jenna M Denyes, Matthew Dunne, Stanislava Steiner, Maximilian Mittelviefhaus, Agnes Weiss, Herbert Schmidt, Jochen Klumpp, Martin J Loessner
Bacteriophage-based assays and biosensors rival traditional antibody-based immunoassays for detection of low-level Salmonella contaminations. In this study, we harnessed the binding specificity of the long tail fiber (LTF) from bacteriophage S16 as an affinity molecule for immobilization, enrichment, and detection of Salmonella We demonstrate that paramagnetic beads (MBs) coated with recombinant gp37-gp38 LTF complexes (LTF-MBs) are highly effective tools for rapid affinity magnetic separation and enrichment of Salmonella Within 45 minutes, the LTF-MBs consistently captured over 95% of Salmonella Typhimurium cells from suspensions containing 10-10(5) CFU...
April 14, 2017: Applied and Environmental Microbiology
https://www.readbyqxmd.com/read/28411222/effect-of-antimicrobial-and-physical-treatments-on-growth-of-multispecies-staphylococcal-biofilms
#18
Elizabeth J Stewart, David E Payne, Tianhui Maria Ma, J Scott VanEpps, Blaise R Boles, John G Younger, Michael J Solomon
The prevalence and structure of Staphylococcus aureus and Staphylococcus epidermidis within multispecies biofilms was found to depend sensitively on physical environment and antibiotic dosage. Although these species commonly infect similar sites, such as orthopedic implants, little is known about their behavior in multispecies communities, particularly in response to treatment. This research establishes that S. aureus is much more prevalent than S. epidermidis when simultaneously seeded and grown in unstressed conditions (pH = 7, 37°C) in both laboratory and clinical strains...
April 14, 2017: Applied and Environmental Microbiology
https://www.readbyqxmd.com/read/28411221/an-extracellular-cell-attached-pullulanase-confers-branched-%C3%AE-glucan-utilization-in-human-gut-lactobacillus-acidophilus
#19
Marie S Møller, Yong Jun Goh, Kasper Bøwig Rasmussen, Wojciech Cypryk, Hasan Ufuk Celebioglu, Todd R Klaenhammer, Birte Svensson, Maher Abou Hachem
Of the few predicted extracellular glycan-active enzymes, glycoside hydrolase family 13 subfamily 14 (GH13_14) pullulanases are the most common in human gut lactobacilli. These enzymes share a unique modular organization, not observed in other bacteria, featuring a catalytic module, two starch binding modules, a domain of unknown function, and a C-terminal surface layer association protein (SLAP) domain. Here we explore the specificity of a representative of this group of pullulanases, LaPul13_14 and its role in branched α-glucans metabolism in the well characterized Lactobacillus acidophilus NCFM that is widely used as a probiotic...
April 14, 2017: Applied and Environmental Microbiology
https://www.readbyqxmd.com/read/28411220/the-global-transcription-factor-lrp-is-both-essential-for-and-inhibitory-to-xenorhabdus-nematophila-insecticidal-activity
#20
Ángel M Casanova-Torres, Upasana Shokal, Neta Morag, Ioannis Eleftherianos, Heidi Goodrich-Blair
In the entomopathogenic bacterium Xenorhabdus nematophila, cell-to-cell variation in the abundance of the Lrp transcription factor leads to virulence modulation: low Lrp levels are associated with a virulent phenotype and suppression of antimicrobial peptides (AMPs) in Manduca sexta insects, while cells that lack lrp or express high Lrp levels are virulence attenuated and elicit AMP expression. To better understand the basis of these phenotypes we examined X. nematophila expressing fixed Lrp levels. Unlike the lrp null mutant, the high-lrp strain is fully virulent in Drosophila melanogaster suggesting that these two strains have distinct underlying causes of virulence attenuation in M...
April 14, 2017: Applied and Environmental Microbiology
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