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https://www.readbyqxmd.com/read/29453264/bacterial-community-shift-and-coexisting-coexcluding-patterns-revealed-by-network-analysis-in-a-bioreduced-uranium-contaminated-site-after-reoxidation
#1
Bing Li, Wei-Min Wu, David B Watson, Erick Cardenas, Yuanqing Chao, D H Phillips, Tonia Mehlhorn, Kenneth Lowe, Shelly D Kelly, Pengsong Li, Huchun Tao, James M Tiedje, Craig S Criddle, Tong Zhang
A site in Oak Ridge, Tennessee, USA, has sediments that contain >3% iron oxides and is contaminated with uranium (U). The U(VI) was bioreduced to U(IV) and immobilized in situ through intermittent injections of ethanol. Then it was allowed to reoxidize via the invasion of low-pH (3.6-4.0), high-nitrate (up to 200 mM) groundwater back into the reduced zone for 1,383 days. To examine the biogeochemical response, high-throughput sequencing and network analysis were applied to characterize bacterial population shifts, as well as co-occurrence and co-exclusion patterns among microbial communities...
February 16, 2018: Applied and Environmental Microbiology
https://www.readbyqxmd.com/read/29453255/endophyte-mediated-modulation-of-defense-responsive-genes-and-systemic-resistance-in-withania-somnifera-l-dunal-under-alternaria-alternata-stress
#2
Aradhana Mishra, Satyendra Pratap Singh, Sahil Mahfooz, Surendra Pratap Singh, Arpita Bhattacharya, Nishtha Mishra, C S Nautiyal
Endophytes have been explored to perform an important role in plant health. However, their effects on the host physiological function and disease management remains elusive. The present study was aimed to assess the potential of endophytes singly as well as in combination on various physiological parameters and systemic defense mechanism against Alternaria alternata in Withania somnifera (L.) Dunal. Seed priming with endophytic Bacillus amyloliquefaciens and Pseudomonas fluorescens individually and in combination demonstrated enhanced vigor index and germination rate...
February 16, 2018: Applied and Environmental Microbiology
https://www.readbyqxmd.com/read/29453253/assembly-of-synthetic-functional-cellulosomal-structures-onto-the-lactobacillus-plantarum-cell-surface-a-potent-member-of-the-gut-microbiome
#3
Johanna Stern, Sarah Moraïs, Yonit Ben-David, Rachel Salama, Melina Shamshoum, Raphael Lamed, Yuval Shoham, Edward A Bayer, Itzhak Mizrahi
Heterologous display of enzymes on microbial cell surfaces is an extremely desirable approach, since it enables the engineered microbe to interact directly with the plant-wall extracellular polysaccharide matrix. In recent years, attempts have been made to endow non-cellulolytic microbes with genetically engineered cellulolytic capabilities for improved hydrolysis of lignocellulosic biomass and for advanced probiotics. Thus far, however, owing to the hurdles of secreting and assembling large, intricate complexes on the bacterial cell wall, only free cellulases or relatively simple cellulosome assemblies have been introduced into live bacteria...
February 16, 2018: Applied and Environmental Microbiology
https://www.readbyqxmd.com/read/29453009/advances-in-concrete-materials-for-sewer-systems-affected-by-microbial-induced-concrete-corrosion-a-review
#4
REVIEW
Cyrill Grengg, Florian Mittermayr, Neven Ukrainczyk, Günther Koraimann, Sabine Kienesberger, Martin Dietzel
Microbial induced concrete corrosion (MICC) is recognized as one of the main degradation mechanisms of subsurface infrastructure worldwide, raising the demand for sustainable construction materials in corrosive environments. This review aims to summarize the key research progress acquired during the last decade regarding the understanding of MICC reaction mechanisms and the development of durable materials from an interdisciplinary perspective. Special focus was laid on aspects governing concrete - micoorganisms interaction since being the central process steering biogenic acid corrosion...
February 6, 2018: Water Research
https://www.readbyqxmd.com/read/29448201/trace-element-dynamics-of-biosolids-derived-microbeads
#5
Hasintha Wijesekara, Nanthi S Bolan, Lauren Bradney, Nadeeka Obadamudalige, Balaji Seshadri, Anitha Kunhikrishnan, Rajarathnam Dharmarajan, Yong Sik Ok, Jörg Rinklebe, M B Kirkham, Meththika Vithanage
This study focused on quantifying and characterising microbeads in biosolids (i.e., treated sewage sludge), and in examining interactions of microbeads with trace elements when biosolids are added to soil. Under laboratory conditions, batch experiments were conducted to investigate the adsorption of Cu onto pure and surface modified microbeads suspended in soil. The ecotoxicity of microbead-metal complexes to soil microbial activities was also investigated by monitoring basal respiration and dehydrogenase activity...
February 1, 2018: Chemosphere
https://www.readbyqxmd.com/read/29448174/extracellular-vesicles-new-players-in-cell-cell-communication-in-aquatic-environments
#6
REVIEW
Daniella Schatz, Assaf Vardi
Communication between microorganisms in aquatic environments can influence ecosystem function and determine the structure and composition of microbial populations. This microbial cross talk can be mediated by excretion of specialized metabolites or extracellular vesicles (EVs). Recently it has become apparent that cells across all domains of life produce EVs that may convey specific targeted signals that can modulate cell fate, morphology and susceptibility to viruses. The vast majority of knowledge about EVs is derived from studies of mammalian tissues, parasitic host-pathogen interactions and model bacterial systems...
February 12, 2018: Current Opinion in Microbiology
https://www.readbyqxmd.com/read/29447695/cervicovaginal-microbiota-and-reproductive-health-the-virtue-of-simplicity
#7
REVIEW
Melis N Anahtar, David B Gootenberg, Caroline M Mitchell, Douglas S Kwon
Cervicovaginal microbiota play a critical role in women's health and reproductive outcomes. Despite being one of the simplest commensal bacterial communities in the human body, we are only beginning to appreciate its complex dynamic nature and important role in host immune modulation. In this review, we discuss the "optimal" cervicovaginal bacterial community composition, the impact of microbiota on gynecologic and obstetric outcomes, and the hurdles to developing a deeper mechanistic understanding of the function of the cervicovaginal microbiome...
February 14, 2018: Cell Host & Microbe
https://www.readbyqxmd.com/read/29447216/genome-mining-of-streptomyces-scabrisporus-nf3-reveals-symbiotic-features-including-genes-related-to-plant-interactions
#8
Corina Diana Ceapă, Melissa Vázquez-Hernández, Stefany Daniela Rodríguez-Luna, Angélica Patricia Cruz Vázquez, Verónica Jiménez Suárez, Romina Rodríguez-Sanoja, Elena R Alvarez-Buylla, Sergio Sánchez
Endophytic bacteria are wide-spread and associated with plant physiological benefits, yet their genomes and secondary metabolites remain largely unidentified. In this study, we explored the genome of the endophyte Streptomyces scabrisporus NF3 for discovery of potential novel molecules as well as genes and metabolites involved in host interactions. The complete genomes of seven Streptomyces and three other more distantly related bacteria were used to define the functional landscape of this unique microbe. The S...
2018: PloS One
https://www.readbyqxmd.com/read/29445367/microbial-communities-and-diversities-in-mudflat-sediments-analyzed-using-a-modified-metatranscriptomic-method
#9
Yong-Wei Yan, Qiu-Yue Jiang, Jian-Gong Wang, Ting Zhu, Bin Zou, Qiong-Fen Qiu, Zhe-Xue Quan
Intertidal mudflats are land-sea interaction areas and play important roles in global nutrient cycles. However, a comprehensive understanding of microbial communities in these mudflats remains elusive. In this study, mudflat sediment samples from the Dongtan wetland of Chongming Island, the largest alluvial island in the world, were collected. Using a modified metatranscriptomic method, the depth-wise distributions of potentially active microbial communities were investigated based on small subunit ribosomal RNA (SSU rRNA) sequences...
2018: Frontiers in Microbiology
https://www.readbyqxmd.com/read/29445181/interactions-between-predation-and-disturbances-shape-prey-communities
#10
Canan Karakoç, Viktoriia Radchuk, Hauke Harms, Antonis Chatzinotas
Ecological disturbances are important drivers of biodiversity patterns. Many biodiversity studies rely on endpoint measurements instead of following the dynamics that lead to those outcomes and testing ecological drivers individually, often considering only a single trophic level. Manipulating multiple factors (biotic and abiotic) in controlled settings and measuring multiple descriptors of multi-trophic communities could enlighten our understanding of the context dependency of ecological disturbances. Using model microbial communities, we experimentally tested the effects of imposed disturbances (i...
February 14, 2018: Scientific Reports
https://www.readbyqxmd.com/read/29445133/photoautotrophic-organisms-control-microbial-abundance-diversity-and-physiology-in-different-types-of-biological-soil-crusts
#11
Stefanie Maier, Alexandra Tamm, Dianming Wu, Jennifer Caesar, Martin Grube, Bettina Weber
Biological soil crusts (biocrusts) cover about 12% of the Earth's land masses, thereby providing ecosystem services and affecting biogeochemical fluxes on a global scale. They comprise photoautotrophic cyanobacteria, algae, lichens and mosses, which grow together with heterotrophic microorganisms, forming a model system to study facilitative interactions and assembly principles in natural communities. Biocrusts can be classified into cyanobacteria-, lichen-, and bryophyte-dominated types, which reflect stages of ecological succession...
February 14, 2018: ISME Journal
https://www.readbyqxmd.com/read/29445020/trade-offs-between-microbial-growth-phases-lead-to-frequency-dependent-and-non-transitive-selection
#12
Michael Manhart, Bharat V Adkar, Eugene I Shakhnovich
Mutations in a microbial population can increase the frequency of a genotype not only by increasing its exponential growth rate, but also by decreasing its lag time or adjusting the yield (resource efficiency). The contribution of multiple life-history traits to selection is a critical question for evolutionary biology as we seek to predict the evolutionary fates of mutations. Here we use a model of microbial growth to show that there are two distinct components of selection corresponding to the growth and lag phases, while the yield modulates their relative importance...
February 14, 2018: Proceedings. Biological Sciences
https://www.readbyqxmd.com/read/29444758/electron-transfer-process-in-microbial-electrochemical-technologies-the-role-of-cell-surface-exposed-conductive-proteins
#13
REVIEW
Nazua L Costa, Thomas A Clarke, Laura-Alina Philipp, Johannes Gescher, Ricardo O Louro, Catarina M Paquete
Electroactive microorganisms have attracted significant interest for the development of novel biotechnological systems of low ecological footprint. These can be used for the sustainable production of energy, bioremediation of metal-contaminated environments and production of added-value products. Currently, almost 100 microorganisms from the Bacterial and Archaeal domains are considered electroactive, given their ability to efficiently interact with electrodes in microbial electrochemical technologies. Cell-surface exposed conductive proteins are key players in the electron transfer between cells and electrodes...
January 31, 2018: Bioresource Technology
https://www.readbyqxmd.com/read/29444757/a-review-on-the-applications-of-microbial-electrolysis-cells-in-anaerobic-digestion
#14
REVIEW
Zhengsheng Yu, Xiaoyun Leng, Shuai Zhao, Jing Ji, Tuoyu Zhou, Aman Khan, Apurva Kakde, Pu Liu, Xiangkai Li
Anaerobic digestion (AD) has been widely used for biogas or biofuel generation from waste treatment. Because a low production rate and instability of AD occur frequently, various technologies have been applied to improvement of AD. Microbial electrolysis cells (MECs), an emerging technology, can convert organic matter into hydrogen, methane, and other value-added products. Recent studies showed that application of MEC to AD (MEC-AD) can accelerate degradation of a substrate (including recalcitrant compounds) and alter AD microbial community by enriching exoelectrogens and methanogens thus increasing biogas production...
February 12, 2018: Bioresource Technology
https://www.readbyqxmd.com/read/29444573/the-optical-properties-of-dissolved-organic-matter-and-their-relation-to-mercury-concentrations-in-water-and-biota-across-a-remote-freshwater-drainage-basin
#15
Gretchen Lescord, Erik Emilson, Tom Johnston, Brian Branfireun, John Gunn
Dissolved organic matter (DOM) includes an array of carbon-based compounds that vary in size and structure and have complex interactions with mercury (Hg) cycling in aquatic systems. While many studies have examined the relationship between dissolved organic carbon concentrations ([DOC]) and methyl Hg bioaccumulation, few studies have considered the effects of DOM composition (e.g., protein-content, aromaticity). The goal of this study was to explore the relationships between total and methyl [Hg] in water, invertebrates, and fish, and optically-derived measures of DOM composition from 47 lake and river sites across a boreal watershed...
February 14, 2018: Environmental Science & Technology
https://www.readbyqxmd.com/read/29442157/distribution-patterns-of-microbial-community-structure-along-a-7000-mile-latitudinal-transect-from-the-mediterranean-sea-across-the-atlantic-ocean-to-the-brazilian-coastal-sea
#16
Jin Zhou, Xiao Song, Chun-Yun Zhang, Guo-Fu Chen, Yong-Min Lao, Hui Jin, Zhong-Hua Cai
A central goal in marine microecology is to understand the ecological factors shaping spatiotemporal microbial patterns and the underlying processes. We hypothesized that abiotic and/or biotic interactions are probably more important for explaining the distribution patterns of marine bacterioplankton than environmental filtering. In this study, surface seawater samples were collected about 7000 miles from the Mediterranean Sea, transecting the North Atlantic Ocean, to the Brazilian marginal sea. In bacterial biosphere, SAR11, SAR86, Rhodobacteraceae, and Rhodospiriaceae were predominant in the Mediterranean Sea; Prochlorococcus was more frequent in Atlantic Ocean; whereas in the Brazilian coastal sea, the main bacterial members were Synechococcus and SAR11...
February 14, 2018: Microbial Ecology
https://www.readbyqxmd.com/read/29441232/detection-of-stable-community-structures-within-gut-microbiota-co-occurrence-networks-from-different-human-populations
#17
Matthew A Jackson, Marc Jan Bonder, Zhana Kuncheva, Jonas Zierer, Jingyuan Fu, Alexander Kurilshikov, Cisca Wijmenga, Alexandra Zhernakova, Jordana T Bell, Tim D Spector, Claire J Steves
Microbes in the gut microbiome form sub-communities based on shared niche specialisations and specific interactions between individual taxa. The inter-microbial relationships that define these communities can be inferred from the co-occurrence of taxa across multiple samples. Here, we present an approach to identify comparable communities within different gut microbiota co-occurrence networks, and demonstrate its use by comparing the gut microbiota community structures of three geographically diverse populations...
2018: PeerJ
https://www.readbyqxmd.com/read/29441043/synergistic-interactions-in-microbial-biofilms-facilitate-the-establishment-of-opportunistic-pathogenic-fungi-in-household-dishwashers
#18
Jerneja Zupančič, Prem K Raghupathi, Kurt Houf, Mette Burmølle, Søren J Sørensen, Nina Gunde-Cimerman
Biofilms formed on rubber seals in dishwashers harbor diverse microbiota. In this study, we focussed on the microbial composition of bacteria and fungi, isolated from a defined area of one square centimeter of rubber from four domestic dishwashers and assessed their abilities to in vitro multispecies biofilm formation. A total of 80 isolates (64 bacterial and 16 fungal) were analyzed. Multiple combinations of bacterial isolates from each dishwasher were screened for synergistic interactions. 32 out of 140 tested (23%) four-species bacterial combinations displayed consistent synergism leading to an overall increase in biomass, in all experimental trails...
2018: Frontiers in Microbiology
https://www.readbyqxmd.com/read/29440265/causal-effects-of-the-microbiota-on-immune-mediated-diseases
#19
REVIEW
June L Round, Noah W Palm
The mammalian immune system has evolved in the presence of a complex community of indigenous microorganisms that constitutively colonize all barrier surfaces. This intimate relationship has resulted in the development of a vast array of reciprocal interactions between the microbiota and the host immune system, particularly in the intestine, where the density and diversity of indigenous microbes are greatest. Alterations in the gut microbiota have been correlated with almost every known immunological disease, but in most cases, it remains unclear whether these changes are a cause or effect of the disease or merely a reflection of epidemiological differences between groups...
February 9, 2018: Science Immunology
https://www.readbyqxmd.com/read/29439264/innate-immunity-of-the-lung-from-basic-mechanisms-to-translational-medicine
#20
Dominik Hartl, Rabindra Tirouvanziam, Julie Laval, Catherine M Greene, David Habiel, Lokesh Sharma, Ali Önder Yildirim, Charles S Dela Cruz, Cory M Hogaboam
The respiratory tract is faced daily with 10,000 L of inhaled air. While the majority of air contains harmless environmental components, the pulmonary immune system also has to cope with harmful microbial or sterile threats and react rapidly to protect the host at this intimate barrier zone. The airways are endowed with a broad armamentarium of cellular and humoral host defense mechanisms, most of which belong to the innate arm of the immune system. The complex interplay between resident and infiltrating immune cells and secreted innate immune proteins shapes the outcome of host-pathogen, host-allergen, and host-particle interactions within the mucosal airway compartment...
February 13, 2018: Journal of Innate Immunity
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