32,568 results match your criteria Applied and Environmental Microbiology[Journal]


Key physiology of a nitrite-dependent methane-oxidizing enrichment culture.

Appl Environ Microbiol 2019 Feb 15. Epub 2019 Feb 15.

Department of Microbiology, IWWR, Radboud University, Heyendaalseweg 135, 6525AJ Nijmegen, the Netherlands

Nitrite-dependent methane-oxidizing bacteria couple the reduction of nitrite to the oxidation of methane via a unique oxygen-producing pathway. This process is carried out by genus bacteria that belong to the NC10 phylum. Contrary to other known anaerobic methane oxidizers, they do not employ the reverse methanogenesis pathway for methane activation, but a canonical particulate methane monooxygenase similar to those used by aerobic methanotrophs. Read More

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http://dx.doi.org/10.1128/AEM.00124-19DOI Listing
February 2019

Structure-function analysis indicates that an active site water participates in dimethylsulfoniopropionate cleavage by DddK.

Appl Environ Microbiol 2019 Feb 15. Epub 2019 Feb 15.

Marine Biotechnology Research Center, State Key Laboratory of Microbial Technology, Shandong University, Qingdao 266237, China

The osmolyte dimethylsulfoniopropionate (DMSP) is produced in petagram quantities in marine environments and has important roles in global sulfur and carbon cycling. Many marine microorganisms catabolize DMSP via DMSP lyases generating the climate-active gas dimethyl sulfide (DMS). DMS oxidation products participate in forming cloud condensation nuclei, and thus may influence weather and climate. Read More

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http://aem.asm.org/lookup/doi/10.1128/AEM.03127-18
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http://dx.doi.org/10.1128/AEM.03127-18DOI Listing
February 2019
5 Reads

Antimicrobial Particle Based Novel Sanitizer for Enhanced Decontamination of Fresh Produce.

Appl Environ Microbiol 2019 Feb 15. Epub 2019 Feb 15.

Department of Food Science and Technology, University of California - Davis, Davis, CA 95616, USA

Microbial food safety of raw or minimally processed fresh produce is a significant challenge. The current sanitation processes are effective for inactivation of bacteria in wash water but have limited efficacy (less than 2 log/g reduction) for inactivation of microbes on the surface of fresh produce. This study demonstrates a novel concept to enhance effectiveness of chlorine using a particle based sanitizer to improve decontamination of fresh produce. Read More

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http://dx.doi.org/10.1128/AEM.02599-18DOI Listing
February 2019
1 Read

Disruption of quorum sensing and virulence in by a structural analogue of the -2-dodecenoic acid signal.

Appl Environ Microbiol 2019 Feb 15. Epub 2019 Feb 15.

School of Pharmaceutical Sciences (Shenzhen), Sun Yat-sen University, Guangzhou 510275, China

Quorum sensing (QS) signals are widely used by bacterial pathogens to control biological functions and virulence in response to changes in cell population densities. employs a molecular mechanism in which the -2-dodecenoic acid (named iffusible ignal actor, abbreviated as BDSF) QS system regulates -acyl homoserine lactone (AHL) signal production and virulence by modulating intracellular levels of cyclic diguanosine monophosphate (c-di-GMP). Thus, inhibition of BDSF signaling may offer a non-antibiotic-based therapeutic strategy against BDSF-regulated bacterial infections. Read More

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http://dx.doi.org/10.1128/AEM.00105-19DOI Listing
February 2019
1 Read

Multilocus sequence analysis reveals three distinct populations of ' Phytoplasma palmicola' with a specific geographical distribution on the African continent.

Appl Environ Microbiol 2019 Feb 15. Epub 2019 Feb 15.

UMR1332 Biologie du Fruit et Pathologie, INRA, Université de Bordeaux, CS20032, Villenave d'Ornon CEDEX, France.

To sustain epidemiological studies on coconut lethal yellowing disease (CLYD), a devastating disease in Africa caused by a phytoplasma, we developed a multilocus sequence typing (MLST) scheme for ' Phytoplasma palmicola' based on 8 housekeeping genes. At the continental level, eight different sequence types were identified among 132 ' Phytoplasma palmicola-' infected coconuts collected in Ghana, Nigeria and Mozambique where CLYD epidemics are still very active.' Phytoplasma palmicola' appeared to be a bacterium submitted to strong bottlenecks, reducing the fixation of positively selected beneficial mutations into the bacterial population. Read More

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http://dx.doi.org/10.1128/AEM.02716-18DOI Listing
February 2019
1 Read

The type III translocon protein EseC inhibits biofilm formation through sequestering EseE.

Appl Environ Microbiol 2019 Feb 15. Epub 2019 Feb 15.

State Key Laboratory of Freshwater Ecology and Biotechnology, and Key Laboratory of Aquaculture Disease Control, Ministry of Agriculture, Institute of Hydrobiology, Chinese Academy of Sciences, Wuhan, Hubei Province, 430072, China

The type III secretion system (T3SS) is one of the most important virulence factors of the fish pathogen It contains three translocon proteins, EseB, EseC and EseD, required for translocation of effector proteins into host cells. We have previously shown that EseB forms filamentous appendages on 's surface, and these filamentous structures mediate bacterial cell-cell interactions promoting autoaggregation and biofilm formation. In the present study, we show that EseC, but not EseD, inhibits 's autoaggregation and biofilm formation. Read More

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http://dx.doi.org/10.1128/AEM.02133-18DOI Listing
February 2019

The bHLH transcription factor DevR significantly affects polysaccharide metabolism in .

Appl Environ Microbiol 2019 Feb 8. Epub 2019 Feb 8.

Co-Innovation Center for Sustainable Forestry in Southern China, College of Biology and the Environment, Nanjing Forestry University, 159 Longpan Road, Nanjing 210037, China

basic-region helix-loop-helix (bHLH) proteins are a superfamily of transcription factors that are often involved in the control of growth and differentiation. Recently, it has been reported that the bHLH transcription factor DevR is involved in both asexual and sexual development in and regulates the conidial melanin production in In this study, we identified and characterized an gene, which showed high similarity with of and In the -disrupted strain, growth was delayed and the number of conidia was decreased on CD minimal agar plates, but the conidiation could be partially recovered by adding 0.6 M KCl. Read More

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http://dx.doi.org/10.1128/AEM.00089-19DOI Listing
February 2019

Historical-nitrogen deposition and straw addition facilitate the resistance of soil multifunctionality to drying-wetting cycles.

Appl Environ Microbiol 2019 Feb 8. Epub 2019 Feb 8.

Jiangsu Provincial Key Lab for Solid Organic Waste Utilization, Jiangsu Collaborative Innovation Center for Solid Organic Waste Resource Utilization, Nanjing Agricultural University, Nanjing 210095, Jiangsu, China.

Climate change is predicted to alter precipitation and drought patterns, which has become a global concern as evidence accumulates that it will affect ecosystem services. Disentangling the ability of soil multiple-functions to withstand this stress (multifunctionality resistance) is a crucial topic for assessing the stability and adaptability of agroecosystems. Presently, we explored the effects of nutrient-addition on multifunctionality resistance to drying-wetting cycles, and evaluated the importance of microbial functional capacity (characterized by the abundances of genes involved in carbon, nitrogen and phosphorus cycles) for this resistance. Read More

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http://dx.doi.org/10.1128/AEM.02251-18DOI Listing
February 2019
1 Read

Phosphorothioated DNA is shielded from oxidative damage.

Appl Environ Microbiol 2019 Feb 8. Epub 2019 Feb 8.

State Key Laboratory of Microbial Metabolism, School of Life Science and Biotechnology, Shanghai Jiao Tong University, Shanghai, People's Republic of China

DNA is the carrier of genetic information. DNA modifications play a central role in essential physiological processes. Phosphorothioation (PT) modification involves the replacement of an oxygen atom on the DNA backbone with a sulfur atom. Read More

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http://dx.doi.org/10.1128/AEM.00104-19DOI Listing
February 2019
1 Read
3.668 Impact Factor

Artificial Fusion of mCherry Enhanced Solubility and Stability of Trehalose Transferase.

Appl Environ Microbiol 2019 Feb 8. Epub 2019 Feb 8.

Biocatalysis, Department of Biotechnology, Delft University of Technology, The Netherlands.

LeLoir glycosyltransferases are important biocatalysts for the production of glycosidic bonds in natural products, chiral building blocks, and pharmaceuticals. Trehalose transferase (TreT) is of particular interest since it catalyzes the stereo- and enantioselective α,α-(1→1)-coupling of a nucleotide sugar donor and monosaccharide acceptor for the synthesis of disaccharide derivatives. Heterologously expressed thermophilic trehalose transferases were found to be intrinsically aggregation-prone and are mainly expressed as catalytically active inclusion bodies in To disfavor protein aggregation, the thermostable protein mCherry was explored as a fluorescent protein tag. Read More

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http://dx.doi.org/10.1128/AEM.03084-18DOI Listing
February 2019
1 Read

The Detection of Natural Products and Their Producers in Ocean Sediments.

Appl Environ Microbiol 2019 Feb 8. Epub 2019 Feb 8.

Center for Marine Biotechnology and Biomedicine, Scripps Institution of Oceanography, University of California San Diego, La Jolla, CA, USA

Thousands of natural products have been identified from cultured microorganisms yet evidence of their production in the environment has proven elusive. Technological advances in mass spectrometry combined with public databases now make it possible to address this disparity by detecting compounds directly from environmental samples. Here we used adsorbent resins, tandem mass spectrometry, and next generation sequencing to assess the metabolome of marine sediments and its relationship to bacterial community structure. Read More

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http://dx.doi.org/10.1128/AEM.02830-18DOI Listing
February 2019

ATCC 35704: integration of nutritional requirements, the complete genome sequence, and global transcriptional responses to bile acids.

Appl Environ Microbiol 2019 Feb 8. Epub 2019 Feb 8.

Microbiome Metabolic Engineering Theme, Carl R. Woese Institute for Genomic Biology

In the human gut, ATCC 35704 is a predominant bacterium and one of the major bile acid 7α-dehydroxylating anaerobes. While this organism is well-studied relative to bile acid metabolism, little is known about the basic nutrition and physiology of ATCC 35704. To determine the amino acid and vitamin requirements of , the "leave one [lsqb]amino acid group or vitamin[rsqb] out" technique was used to eliminate the non-essential amino acids and vitamins. Read More

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http://dx.doi.org/10.1128/AEM.00052-19DOI Listing
February 2019
3.668 Impact Factor

Unveiling genomic diversity among members of the species, a widely distributed gut commensal of the animal kingdom.

Appl Environ Microbiol 2019 Feb 8. Epub 2019 Feb 8.

Laboratory of Probiogenomics, Department of Chemistry, Life Sciences, and Environmental Sustainability, University of Parma, Parma, Italy.

Bifidobacteria are commensals of the animal gut, and are commonly found in mammals, birds, and social insects. Specifically, strains of , , and are widely distributed in the mammalian gut. In this context, we investigated the genetic variability and metabolic abilities of the taxon, whose genomic characterization has so far not received much attention. Read More

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http://dx.doi.org/10.1128/AEM.03065-18DOI Listing
February 2019

Characterizing the key agents in a disease-suppressed soil managed by reductive soil disinfestation.

Appl Environ Microbiol 2019 Feb 8. Epub 2019 Feb 8.

School of Geography Science, Nanjing Normal University, Nanjing 210023, China.

Many agricultural soil management strategies have been shown to be effective in preventing soil-borne diseases. However, their underlying mechanisms of action remain unknown. Here, we used reductive soil disinfestation (RSD), also named anaerobic soil disinfestation (ASD) and biological soil disinfestation (BSD), as a representative method for disease management and cucumber damping-off diseased soil as a model system to identify the disease suppressive agents in artificially managed soil. Read More

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http://dx.doi.org/10.1128/AEM.02992-18DOI Listing
February 2019

The algicidal bacterium shapes a natural plankton community.

Appl Environ Microbiol 2019 Feb 8. Epub 2019 Feb 8.

Institute for Inorganic and Analytical Chemistry, Bioorganic Analytics, Friedrich Schiller University Jena, Lessingstrasse 8, D-07743 Jena, Germany

Plankton communities consist of complex microbial consortia which change over time with. These fluctuations can only be partially explained by limiting resources. Biotic factors such as herbivores and pathogens also contribute to the control of algal blooms. Read More

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http://dx.doi.org/10.1128/AEM.02779-18DOI Listing
February 2019

Environmental sources of bacteria and genetic variation in behavior influence host-associated microbiota.

Appl Environ Microbiol 2019 Feb 8. Epub 2019 Feb 8.

Department of Environmental Sciences, Zoology, Universität Basel, Switzerland.

In many organisms, host-associated microbial communities are acquired horizontally after birth. This process is believed to be shaped by a combination of environmental and host genetic factors. We examined whether genetic variation in animal behavior could affect the composition of the animal's microbiota in different environments. Read More

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http://dx.doi.org/10.1128/AEM.01547-18DOI Listing
February 2019

Mitochondrial citrate transporters CtpA and YhmA are required for extracellular citric acid accumulation and contribute to cytosolic acetyl-CoA generation in mut. .

Appl Environ Microbiol 2019 Feb 8. Epub 2019 Feb 8.

United Graduate School of Agricultural Sciences, Kagoshima University, 1-21-24 Korimoto, Kagoshima, 890-0065, Japan

mut produces a large amount of citric acid during the process of fermenting shochu, a traditional Japanese distilled spirit. In this study, we characterized CtpA and YhmA, which are homologous to the yeast mitochondrial citrate transporters Ctp1 and Yhm2, respectively. CtpA and YhmA were purified from and reconstituted into liposomes. Read More

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http://dx.doi.org/10.1128/AEM.03136-18DOI Listing
February 2019

Axenic Biofilm Formation and Aggregation by PCC 6803 is Induced by Changes in Nutrient Concentration, and Requires Cell Surface Structures.

Appl Environ Microbiol 2019 Feb 1. Epub 2019 Feb 1.

College of Veterinary Medicine, Department of Infectious Diseases and Pathology, University of Florida, Gainsville, FL, USA.

Phototrophic biofilms are key to nutrient cycling in natural environments and bioremediation technologies, but few studies describe biofilm formation by pure (axenic) cultures of a phototrophic microbe. The cyanobacterium sp. PCC 6803 (hereafter ) is a model micro-organism for the study of oxygenic photosynthesis and biofuel production. Read More

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http://dx.doi.org/10.1128/AEM.02192-18DOI Listing
February 2019

Primer design for an accurate view of picocyanobacterial community structure using high-throughput sequencing.

Appl Environ Microbiol 2019 Feb 1. Epub 2019 Feb 1.

Instituto de Investigaciones Biotecnológicas-Instituto Tecnológico de Chascomús, UNSAM-CONICET, Chascomús, Buenos Aires, Argentina.

High-throughput sequencing (HTS) of the 16S rRNA gene has been used successfully to describe the structure and dynamics of microbial communities. Picocyanobacteria are important members of bacterioplankton communities, and so far, they have predominantly been targeted using universal bacterial primers providing a limited resolution of the picocyanobacterial community structure and dynamics. To increase such resolution, the study of a particular target group is best approached with the use of specific primers. Read More

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http://dx.doi.org/10.1128/AEM.02659-18DOI Listing
February 2019

Interspecies chemical signaling in a methane-oxidizing bacterial community.

Appl Environ Microbiol 2019 Feb 1. Epub 2019 Feb 1.

Departments of Chemical Engineering and Microbiology, University of Washington, Seattle, WA 98105.

Multiple species of bacteria oxidize methane in the environment after it is produced by anaerobic ecosystems. These organisms provide reduced carbon substrates for species that cannot oxidize methane themselves, thereby serving a key role in these niches while also sequestering this potent greenhouse gas before it enters the atmosphere. Deciphering the molecular details of how methane-oxidizing bacteria interact in the environment enables us to understand an important aspect that shapes the structure and function of these communities. Read More

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http://dx.doi.org/10.1128/AEM.02702-18DOI Listing
February 2019
1 Read

Genome-wide Mutagenesis Links Multiple Metabolic Pathways with Actinorhodin Production in .

Appl Environ Microbiol 2019 Feb 1. Epub 2019 Feb 1.

State Key Laboratory of Microbial Metabolism, Joint International Research Laboratory of Metabolic & Developmental Sciences, and School of Life Sciences and Biotechnology, Shanghai Jiao Tong University, Shanghai, China

species are important antibiotic-producing organisms that tightly regulate their antibiotic production. Actinorhodin is a typical antibiotic produced by the model actinomycete To discover the regulators of actinorhodin production, we constructed a library of 50,000 independent mutants with a hyperactive Tn transposase-based transposition system. Five hundred and fifty-one genes were found to influence actinorhodin production in 988 individual mutants. Read More

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http://dx.doi.org/10.1128/AEM.03005-18DOI Listing
February 2019

Longitudinal Study on Shiga Toxin-producing and on Finnish Dairy Farms and in Raw Milk.

Appl Environ Microbiol 2019 Feb 1. Epub 2019 Feb 1.

Microbiology Research Unit, Finnish Food Safety Authority Evira, Helsinki, Finland

Shiga toxin-producing (STEC) and are notable health hazards associated with the consumption of raw milk. These bacteria may colonize the intestines of asymptomatic cattle and enter bulk tank milk via fecal contamination during milking.We studied the frequency of STEC O157:H7 and contamination in tank milk (n=785) and the in-line milk filters of milking machines (n=631) versus isolation from cattle feces (n=257) on three Finnish dairy farms for one year. Read More

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http://dx.doi.org/10.1128/AEM.02910-18DOI Listing
February 2019
1 Read

Using a Fluorescent Analog of Glucose (2-NBDG) to Identify Which Uncultured Rumen Bacteria Take Up Glucose.

Appl Environ Microbiol 2019 Feb 1. Epub 2019 Feb 1.

Department of Animal Sciences, University of Florida, Gainesville, Florida, USA

Few characteristics are more important to a bacterium than the substrates it consumes. It is hard to identify what substrates are consumed by bacteria in natural communities, however, because most bacteria have not been cultured. Here we develop a method that uses fluorescent substrate analogs, cell sorting, and DNA sequencing to identify substrates taken up by bacteria. Read More

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http://dx.doi.org/10.1128/AEM.03018-18DOI Listing
February 2019

Role of RpoN from LZB033 () in flagellar formation, motility, biofilm formation and environmental adaptation.

Appl Environ Microbiol 2019 Feb 1. Epub 2019 Feb 1.

College of Marine Life Sciences, Ocean University of China, 5 Yushan Road, Qingdao 266003, P. R. China

LZB033 (), which produces dimethylsulfoniopropionate (DMSP) and reduces nitrate to nitrogen, was isolated from seawater of the East China Sea. Its genome encodes a large number of transcriptional regulators, which may be important for its adaptation to diverse marine environments. The alternative σ factor (RpoN) is a central regulator of many bacteria, regulating the transcription of multiple genes and controlling important cellular functions. Read More

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http://dx.doi.org/10.1128/AEM.02844-18DOI Listing
February 2019
1 Read

Dissecting the evolutionary development of the species through comparative genomics analyses.

Appl Environ Microbiol 2019 Feb 1. Epub 2019 Feb 1.

Laboratory of Probiogenomics, Department of Chemistry, Life Sciences, and Environmental Sustainability, University of Parma, Parma, Italy

Bifidobacteria are members of the gut microbiota of animals, including mammals, birds and social insects. In this study, we analyzed and determined the pan-genome of species, encompassing subsp. and the subsp. Read More

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http://dx.doi.org/10.1128/AEM.02806-18DOI Listing
February 2019

Following coffee production from cherries to cup: microbiological and metabolomic analysis of wet processing of .

Appl Environ Microbiol 2019 Feb 1. Epub 2019 Feb 1.

Research Group of Industrial Microbiology and Food Biotechnology, Faculty of Sciences and Bioengineering Sciences, Vrije Universiteit Brussel, Pleinlaan 2, B-1050 Brussels, Belgium

A cup of coffee is the final product of a complex chain of operations. Wet post-harvest processing of coffee is one of these operations, which involves a fermentation that inevitably has to be performed on-farm. During wet coffee processing, the interplay between microbial activities and endogenous bean metabolism results in a specific flavor precursor profile of the green coffee beans. Read More

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http://aem.asm.org/lookup/doi/10.1128/AEM.02635-18
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http://dx.doi.org/10.1128/AEM.02635-18DOI Listing
February 2019
11 Reads

Whole Genome Sequencing-Based Serotyping Improves Accuracy for Identification.

Appl Environ Microbiol 2019 Feb 1. Epub 2019 Feb 1.

US Food and Drug Administration, Center for Food Safety and Applied Nutrition, College Park, MD.

The bacteria consisting of 4 species and >50 serotypes, cause shigellosis, a foodborne disease of significant morbidity, mortality, and economic loss worldwide. Classical identification based on selective media and serology is tedious, time-consuming, expensive, and not always accurate. Molecular diagnostic assay does not distinguish at species level or from enteroinvasive (EIEC). Read More

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http://dx.doi.org/10.1128/AEM.00165-19DOI Listing
February 2019

Spatial-temporal pattern of sulfate-dependent anaerobic methane oxidation in an intertidal zone of the East China Sea.

Appl Environ Microbiol 2019 Feb 1. Epub 2019 Feb 1.

Department of Environmental Engineering, Zhejiang University, Hangzhou 310058, China

Methane is a primary greenhouse gas which is responsible for global warming. The sulfate-dependent anaerobic methane oxidation (S-AOM) process catalyzed by ANaerobic MEthanotrophic (ANME) archaea and sulfate-reducing bacteria (SRB) is a vital link connecting the global carbon and sulfur cycles, and it is considered to be the overriding methane sink in marine ecosystem. However, there have been few studies regarding the role of S-AOM process and the distribution of ANME archaea in intertidal ecosystem. Read More

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http://aem.asm.org/lookup/doi/10.1128/AEM.02638-18
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http://dx.doi.org/10.1128/AEM.02638-18DOI Listing
February 2019
2 Reads

Enhanced nitrogen fixation in a deficient strain of sp. ATCC 51142, a unicellular nitrogen-fixing cyanobacterium.

Appl Environ Microbiol 2019 Feb 1. Epub 2019 Feb 1.

Department of Biology, Washington University, St. Louis MO 63130

Cyanobacteria are oxygenic photosynthetic prokaryotes with important roles in the global carbon and nitrogen cycles. Unicellular nitrogen fixing cyanobacteria are known to be ubiquitous, contributing to the nitrogen budget in diverse ecosystems. In the unicellular cyanobacterium sp. Read More

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http://dx.doi.org/10.1128/AEM.02887-18DOI Listing
February 2019

Changes in the Active, Dead, and Dormant Microbial Community Structure Across a Pleistocene Permafrost Chronosequence.

Appl Environ Microbiol 2019 Jan 25. Epub 2019 Jan 25.

Department of Biology, California State University, Northridge, CA 91330, USA

Permafrost hosts a community of microorganisms that survive and reproduce for millennia despite extreme environmental conditions such as water stress, subzero temperatures, high salinity, and low nutrient availability. Many studies focused on permafrost microbial community composition use DNA-based methods such as metagenomic and 16S rRNA gene sequencing. However, these methods do not distinguish between active, dead, and dormant cells. Read More

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http://dx.doi.org/10.1128/AEM.02646-18DOI Listing
January 2019

A novel AdpA homologue negatively regulates morphological differentiation in 318.

Appl Environ Microbiol 2019 Jan 25. Epub 2019 Jan 25.

School of Oceanography, Shanghai Jiao Tong University, Shanghai 200240, P. R. China

The pleiotropic transcriptional regulator AdpA positively controls morphological differentiation and regulates secondary metabolism in most species. 318 has a linear chromosome of 5.96 Mb in size. Read More

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http://dx.doi.org/10.1128/AEM.03107-18DOI Listing
January 2019
1 Read

Primary and secondary metabolic effects of a key gene deletion () on metabolically-engineered terpenoid-producing yeast.

Appl Environ Microbiol 2019 Jan 25. Epub 2019 Jan 25.

Frontier Science Center for Synthetic Biology and Key Laboratory of Systems Bioengineering (Ministry of Education), School of Chemical Engineering and Technology, Tianjin University, Tianjin, PR China.

is an established cell factory for production of terpenoid pharmaceuticals and chemicals. Numerous studies have demonstrated that deletion or overexpression of off-pathway genes in yeast can improve terpenoid production. The gene deletion of in , in particular, has benefitted carotenoid production by channeling carbon towards carotenoid precursors acetyl-CoA and mevalonate. Read More

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http://dx.doi.org/10.1128/AEM.01990-18DOI Listing
January 2019
2 Reads

Higher Temperatures Do Not Always Achieve Better Antibiotic Resistance Genes Removal in Anaerobic Digestion of Swine Manure.

Appl Environ Microbiol 2019 Jan 25. Epub 2019 Jan 25.

Key Lab of Urban Pollutant Conversion, Institute of Urban Environment, Chinese Academy of Sciences, Xiamen, 361021, China.

This study employed high throughput quantitative PCR and 16S rRNA sequencing to evaluate the effect of temperature and residual antibiotics on the dynamics of antibiotic resistance genes (ARGs) and microbial communities during anaerobic digestion of swine manure. The abundances of total ARGs and 16S rRNA gene significantly decreased in all of four treatments (25 °C, 37 °C, 37°C with 50 mg/kg wet weight antibiotics, 55 °C). The abundances of most ARG types were significantly correlated with those of 16S rRNA gene and transposase gene (p < 0. Read More

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http://aem.asm.org/lookup/doi/10.1128/AEM.02878-18
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http://dx.doi.org/10.1128/AEM.02878-18DOI Listing
January 2019
6 Reads

Exploiting Prophage-mediated Lysis for Biotherapeutic Release by .

Appl Environ Microbiol 2019 Jan 25. Epub 2019 Jan 25.

Department of Food Science, 1605 Linden Dr, University of Wisconsin-Madison, Madison, WI, 53706, US

has the potential to be developed as a microbial therapeutic delivery platform because of an established safety profile, health-promoting properties, and available genome editing tools. Here, we showed that VPL1014 exhibits a low mutation rate compared to other gram-positive bacteria, which we expect will contribute to the stability of genetically modified strains. VPL1014 encodes two biologically active prophages, which are induced during GI transit. Read More

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http://aem.asm.org/lookup/doi/10.1128/AEM.02335-18
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http://dx.doi.org/10.1128/AEM.02335-18DOI Listing
January 2019
4 Reads

Chlorine and monochloramine disinfection of colonizing copper and PVC drinking water biofilms.

Appl Environ Microbiol 2019 Jan 25. Epub 2019 Jan 25.

US Environmental Protection Agency, Office of Research and Development, National Homeland Security Research Center, Cincinnati, OH, USA.

Building water systems promote the regrowth and survival of opportunistic pathogens, such as , especially within biofilms, where most drinking water microbes reside. However, compared to their planktonic form, disinfection efficacy for the biofilm-associated forms of water-based pathogens is unclear. The aim of this study was to determine the effectiveness of free chlorine and monochloramine in the inactivation of biofilm-associated strain Philadelphia-1 serogroup 1 (Lp). Read More

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http://dx.doi.org/10.1128/AEM.02956-18DOI Listing
January 2019

Intranasal immunization with the commensal confers protective immunity against pneumococcal lung infection.

Appl Environ Microbiol 2019 Jan 25. Epub 2019 Jan 25.

Institute of Oral Biology, Faculty of Dentistry, University of Oslo, Oslo, Norway

is a bacterial pathogen that causes various diseases of public health concern worldwide. Current pneumococcal vaccines target the capsular polysaccharide surrounding the cells. However, only up to 13 of more than 90 pneumococcal capsular serotypes are represented in the current conjugate vaccines. Read More

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http://aem.asm.org/lookup/doi/10.1128/AEM.02235-18
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http://dx.doi.org/10.1128/AEM.02235-18DOI Listing
January 2019
5 Reads

ATCC 15696 and 24b metabolic interaction based on 2'--fucosyl-lactose studied in steady-state cultures in a Freter-style chemostat.

Appl Environ Microbiol 2019 Jan 25. Epub 2019 Jan 25.

Department of Microbiology and Immunology, University of Otago, Dunedin, New Zealand

Infants fed breast milk harbor a gut microbiota in which bifidobacteria are generally predominant. The metabolic interactions of bifidobacterial species need investigation because they may offer insight into the colonization of the gut in early life. ATCC 15696 hydrolyzes 2'--fucosyl-lactose (2FL; a major fucosylated human milk oligosaccharide) but does not use fucose released into the culture medium. Read More

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http://dx.doi.org/10.1128/AEM.02783-18DOI Listing
January 2019
1 Read

Effect of macrolide- and rifampin-resistance on fitness of .

Appl Environ Microbiol 2019 Jan 25. Epub 2019 Jan 25.

Department of Large Animal Medicine, University of Georgia, Athens, GA, USA.

is a leading cause of severe pneumonia in foals. Standard treatment is dual antimicrobial therapy with a macrolide and rifampin, but the emergence of macrolide- and rifampin-resistant isolates is an increasing problem. The objective of this study was to determine the effect of macrolide and/or rifampin resistance on fitness of Three unique isogenic sets were created, each consisting of four strains: a susceptible parent isolate, strains resistant to macrolides or rifampin, and a dual macrolide- and rifampin-resistant strain. Read More

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http://dx.doi.org/10.1128/AEM.02665-18DOI Listing
January 2019
4 Reads

Yeast cytosolic thioredoxins control glycolysis, lipid metabolism and protein biosynthesis under winemaking conditions.

Appl Environ Microbiol 2019 Jan 25. Epub 2019 Jan 25.

Institute for Integrative Systems Biology,|SysBio, University of Valencia-CSIC, Spain.

Thioredoxins are small proteins that regulate the cellular redox state, prevent oxidative damage and play an active role in its repair. Oxidative stress has proven to be of much relevance in biotechnological processes when metabolism is mainly respiratory. During wine yeast starter production as active dry yeast cytosolic thioredoxin Trx2p is a key player in protecting metabolic enzymes from being oxidized by carbonylation. Read More

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http://dx.doi.org/10.1128/AEM.02953-18DOI Listing
January 2019
3 Reads

Towards a Genome-Based Reclassification of the Genus .

Appl Environ Microbiol 2019 Feb 23;85(3). Epub 2019 Jan 23.

Research Group Environmental Ecology and Applied Microbiology, Department of Bioscience Engineering, University of Antwerp, Antwerp, Belgium

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http://dx.doi.org/10.1128/AEM.02155-18DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC6344627PMC
February 2019

Characterisation and development of aspirin inducible biosensors in and SimCells.

Appl Environ Microbiol 2019 Jan 18. Epub 2019 Jan 18.

Department of Engineering Science, University of Oxford, Parks Road, Oxford, OX1 3PJ, United Kingdom

A simple aspirin-inducible system has been developed and characterised in by employing the promoter and SalR regulation system originally from ADP1. Mutagenesis at the DNA binding domain (DBD) and chemical recognition domain (CRD) of the SalR protein in ADP1 suggests that the effector free form SalR could compete with the effector bound form SalR, binding the promoter and repress gene transcription. The induction of the promoter was compared in two different gene-circuit designs: simple regulation system (SRS) and positive autoregulation (PAR). Read More

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http://aem.asm.org/lookup/doi/10.1128/AEM.02959-18
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http://dx.doi.org/10.1128/AEM.02959-18DOI Listing
January 2019
5 Reads

Resilience and Assemblage of Soil Microbiome in Response to Chemical Contamination Combined with Plant Growth.

Appl Environ Microbiol 2019 Jan 18. Epub 2019 Jan 18.

State Key Laboratory of Crop Stress Biology in Arid Areas, College of Life Sciences, Northwest A&F University, Yangling Shaanxi, P. R. China

Lacking knowledge of the microbial responses to environmental change at the species and functional levels hinders our ability to understand the intrinsic mechanisms underlying the maintenance of microbial ecosystems. Here, we present results from temporal microcosms that introduced inorganic and organic contaminants into agro-soils for 90 days, with three common legume plants. Temporal dynamics and assemblage of soil microbial communities and functions in response to contamination under the influence of different plant growth were explored via sequencing of the 16S rRNA amplicon and shotgun metagenomics. Read More

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http://aem.asm.org/lookup/doi/10.1128/AEM.02523-18
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http://dx.doi.org/10.1128/AEM.02523-18DOI Listing
January 2019
10 Reads
3.668 Impact Factor

Sucrose Metabolism in Haloarchaea: Reassessment Using Genomics, Proteomics and Metagenomics.

Appl Environ Microbiol 2019 Jan 18. Epub 2019 Jan 18.

School of Biotechnology and Biomolecular Sciences, UNSW Sydney, Sydney, New South Wales, Australia.

The canonical pathway for sucrose metabolism in haloarchaea utilizes a modified Embden-Meyerhof-Parnas pathway (EMP), in which ketohexokinase and 1-phosphofructokinase phosphorylate fructose released from sucrose hydrolysis. However, our survey of haloarchaeal genomes determined that ketohexokinase and 1-phosphofructokinase genes were not present in all species known to utilize fructose and sucrose, thereby indicating that alternative mechanisms exist for fructose metabolism. A fructokinase gene was identified in the majority of fructose- and sucrose-utilizing species, whereas only a small number possessed a ketohexokinase gene. Read More

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http://dx.doi.org/10.1128/AEM.02935-18DOI Listing
January 2019
1 Read

Insights into the function of the -acetyltransferase SatA that detoxifies streptothricin in and .

Appl Environ Microbiol 2019 Jan 18. Epub 2019 Jan 18.

Department of Microbiology, University of Georgia, Athens

Acylation of epsilon amino groups of lysyl side chains is a widespread modification of proteins and small molecules in cells of all three domains of life. Recently, we showed that and encode the Gcn5-related -acetyltransferase (GNAT) SatA that can acetylate and inactive streptothricin, which is a broad-spectrum antibiotic produced by actinomycetes in the soil. To determine functionally relevant residues of SatA, a mutational screen was performed, highlighting the importance of a conserved area near the -terminus. Read More

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http://dx.doi.org/10.1128/AEM.03029-18DOI Listing
January 2019
1 Read

Proteogenomics reveals novel reductive dehalogenases and methyltransferases expressed during anaerobic dichloromethane metabolism.

Appl Environ Microbiol 2019 Jan 18. Epub 2019 Jan 18.

Biosciences Division, Oak Ridge National Laboratory, Oak Ridge, TN 37831, USA

Dichloromethane (DCM) is susceptible to microbial degradation under anoxic conditions and is metabolized via the Wood-Ljungdahl Pathway; however, mechanistic understanding of carbon-chlorine bond cleavage is lacking. The microbial consortium RM contains the DCM degrader Dichloromethanomonas elyunquensis strain RM, which strictly requires DCM as a growth substrate. Proteomic workflows applied to DCM-grown consortium RM biomass revealed a total of 1,705 non-redundant proteins, of which 521 could be assigned to strain RM. Read More

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http://dx.doi.org/10.1128/AEM.02768-18DOI Listing
January 2019
2 Reads

Large-scale Analysis of MLST Genotypes Recovered From North American Salmonids Indicates Both Newly Identified and Recurrent Clonal Complexes are Associated with Disease.

Appl Environ Microbiol 2019 Jan 18. Epub 2019 Jan 18.

Department of Fisheries and Wildlife, College of Agriculture and Natural Resources, Michigan State University, East Lansing, MI, 48824, USA

, etiological agent of bacterial coldwater disease (BCWD) and rainbow trout fry syndrome (RTFS), causes significant economic losses in salmonid aquaculture, particularly in rainbow trout (). Prior studies have used multilocus sequence typing (MLST) to examine genetic heterogeneity within At present, however, its population structure in North America is incompletely understood, as only 107 isolates have been genotyped. Herein, MLST was used to investigate the genetic diversity of an additional 314 North American isolates that were recovered from ten fish host species from twenty US states and one Canadian province over nearly four decades. Read More

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http://dx.doi.org/10.1128/AEM.02305-18DOI Listing
January 2019
2 Reads

Population genomics insights into adaptive evolution and ecological differentiation in streptomycetes.

Appl Environ Microbiol 2019 Jan 18. Epub 2019 Jan 18.

State Key Laboratory of Microbial Resources, Institute of Microbiology, Chinese Academy of Sciences, Beijing, China

Deciphering the genomic variation that represents microevolutionary processes towards species divergence is key to understanding microbial speciation, which has long been under debate. Streptomycetes are filamentous bacteria that are ubiquitous in nature and the richest source of antibiotics; however, their speciation processes remain unknown. To tackle this issue, here, we performed a comprehensive population genomics analysis on residing in different habitats and with a worldwide distribution, and identified and characterized the foundational changes within the species. Read More

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http://dx.doi.org/10.1128/AEM.02555-18DOI Listing
January 2019
2 Reads

Molecular hydrogen, a neglected key driver of soil biogeochemical processes.

Appl Environ Microbiol 2019 Jan 18. Epub 2019 Jan 18.

INRS-Institut Armand-Frappier, 531 boulevard des Prairies, Laval (Québec), Canada, H7V 1B7.

The atmosphere of the early Earth is hypothesized to have been rich in reducing gases such as hydrogen (H). H has been proposed as the first electron donor leading to ATP synthesis due to its ubiquity throughout the biosphere as well as its ability to easily diffuse through microbial cells and its low activation energy requirement. Even today, hydrogenase enzymes enabling the production and oxidation of H are found in thousands of genomes spanning the three domains of life across aquatic, terrestrial and even host-associated ecosystems. Read More

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http://aem.asm.org/lookup/doi/10.1128/AEM.02418-18
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http://dx.doi.org/10.1128/AEM.02418-18DOI Listing
January 2019
12 Reads

Bacterial dispersers along preferential flow paths of a clay till depth profile.

Appl Environ Microbiol 2019 Jan 18. Epub 2019 Jan 18.

Geological Survey of Denmark and Greenland, Copenhagen, Denmark

This study assessed the dispersal of five bacterial communities from contrasting compartments along a fractured clay till depth profile comprising plow layer soil, preferential flow paths (biopores and the tectonic fractures below) and matrix sediments, down to 350 cm below the surface. A recently developed expansion of the porous surface model (PSM) was used to capture bacterial communities dispersing under controlled hydration conditions on a soil-like surface. All five communities contained bacteria capable of active dispersal under relatively low hydration conditions (-3. Read More

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http://dx.doi.org/10.1128/AEM.02658-18DOI Listing
January 2019
1 Read

Host range-associated clustering based on multi-locus variable-number tandem-repeat analysis, phylotypes, and virulence genes of atypical enteropathogenic strains.

Appl Environ Microbiol 2019 Jan 18. Epub 2019 Jan 18.

Graduate School of Human Life Science, Osaka City University, 558-8585, Japan

Atypical enteropathogenic (aEPEC) strains (36 Japanese and 50 Bangladeshi) obtained from 649 poultry fecal samples were analyzed by molecular epidemiological methods. Clermont's phylogenetic typing showed that group A was more prevalent (58%, 50/86) than B1 (31%, 27/86). Intimin type β1, which is prevalent among human diarrheal patients, was predominant in both phylogroups B1 (81%, 22/27) and A (70%, 35/50). Read More

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http://aem.asm.org/lookup/doi/10.1128/AEM.02796-18
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http://dx.doi.org/10.1128/AEM.02796-18DOI Listing
January 2019
5 Reads