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https://www.readbyqxmd.com/read/27922602/elevated-temperature-increases-carbon-and-nitrogen-fluxes-between-phytoplankton-and-heterotrophic-bacteria-through-physical-attachment
#1
Nestor Arandia-Gorostidi, Peter K Weber, Laura Alonso-Sáez, Xosé Anxelu G Morán, Xavier Mayali
Quantifying the contribution of marine microorganisms to carbon and nitrogen cycles and their response to predicted ocean warming is one of the main challenges of microbial oceanography. Here we present a single-cell NanoSIMS isotope analysis to quantify C and N uptake by free-living and attached phytoplankton and heterotrophic bacteria, and their response to short-term experimental warming of 4 °C. Elevated temperature increased total C fixation by over 50%, a small but significant fraction of which was transferred to heterotrophs within 12 h...
December 6, 2016: ISME Journal
https://www.readbyqxmd.com/read/27921008/age-related-differences-in-the-luminal-and-mucosa-associated-gut-microbiome-of-broiler-chickens-and-shifts-associated-with-campylobacter-jejuni-infection
#2
Wageha A Awad, Evelyne Mann, Monika Dzieciol, Claudia Hess, Stephan Schmitz-Esser, Martin Wagner, Michael Hess
Despite the importance of gut microbiota for broiler performance and health little is known about the composition of this ecosystem, its development and response towards bacterial infections. Therefore, the current study was conducted to address the composition and structure of the microbial community in broiler chickens in a longitudinal study from day 1 to day 28 of age in the gut content and on the mucosa. Additionally, the consequences of a Campylobacter (C.) jejuni infection on the microbial community were assessed...
2016: Frontiers in Cellular and Infection Microbiology
https://www.readbyqxmd.com/read/27920771/evidence-for-ecological-flexibility-in-the-cosmopolitan-genus-curtobacterium
#3
Alexander B Chase, Philip Arevalo, Martin F Polz, Renaud Berlemont, Jennifer B H Martiny
Assigning ecological roles to bacterial taxa remains imperative to understanding how microbial communities will respond to changing environmental conditions. Here we analyze the genus Curtobacterium, as it was found to be the most abundant taxon in a leaf litter community in southern California. Traditional characterization of this taxon predominantly associates it as the causal pathogen in the agricultural crops of dry beans. Therefore, we sought to investigate whether the abundance of this genus was because of its role as a plant pathogen or another ecological role...
2016: Frontiers in Microbiology
https://www.readbyqxmd.com/read/27920385/sublethal-streptomycin-concentrations-and-lytic-bacteriophage-together-promote-resistance-evolution
#4
Johannes Cairns, Lutz Becks, Matti Jalasvuori, Teppo Hiltunen
Sub-minimum inhibiting concentrations (sub-MICs) of antibiotics frequently occur in natural environments owing to wide-spread antibiotic leakage by human action. Even though the concentrations are very low, these sub-MICs have recently been shown to alter bacterial populations by selecting for antibiotic resistance and increasing the rate of adaptive evolution. However, studies are lacking on how these effects reverberate into key ecological interactions, such as bacteria-phage interactions. Previously, co-selection of bacteria by phages and antibiotic concentrations exceeding MICs has been hypothesized to decrease the rate of resistance evolution because of fitness costs associated with resistance mutations...
January 19, 2017: Philosophical Transactions of the Royal Society of London. Series B, Biological Sciences
https://www.readbyqxmd.com/read/27920384/antibiotic-resistance-in-the-wild-an-eco-evolutionary-perspective
#5
REVIEW
Teppo Hiltunen, Marko Virta, Anna-Liisa Laine
The legacy of the use and misuse of antibiotics in recent decades has left us with a global public health crisis: antibiotic-resistant bacteria are on the rise, making it harder to treat infections. At the same time, evolution of antibiotic resistance is probably the best-documented case of contemporary evolution. To date, research on antibiotic resistance has largely ignored the complexity of interactions that bacteria engage in. However, in natural populations, bacteria interact with other species; for example, competition and grazing are import interactions influencing bacterial population dynamics...
January 19, 2017: Philosophical Transactions of the Royal Society of London. Series B, Biological Sciences
https://www.readbyqxmd.com/read/27919551/defining-the-core-microbiome-in-corals-microbial-soup
#6
REVIEW
Alejandra Hernandez-Agreda, Ruth D Gates, Tracy D Ainsworth
Corals are considered one of the most complex microbial biospheres studied to date, hosting thousands of bacterial phylotypes in species-specific associations. There are, however, substantial knowledge gaps and challenges in understanding the functional significance of bacterial communities and bacterial symbioses of corals. The ubiquitous nature of some bacterial interactions has only recently been investigated and an accurate differentiation between the healthy (symbiotic) and unhealthy (dysbiotic) microbial state has not yet been determined...
December 2, 2016: Trends in Microbiology
https://www.readbyqxmd.com/read/27918073/dominant-mycorrhizal-association-of-trees-alters-carbon-and-nutrient-cycling-by-selecting-for-microbial-groups-with-distinct-enzyme-function
#7
Tanya E Cheeke, Richard P Phillips, Edward R Brzostek, Anna Rosling, James D Bever, Petra Fransson
While it is well established that plants associating with arbuscular mycorrhizal (AM) and ectomycorrhizal (ECM) fungi cycle carbon (C) and nutrients in distinct ways, we have a limited understanding of whether varying abundance of ECM and AM plants in a stand can provide integrative proxies for key biogeochemical processes. We explored linkages between the relative abundance of AM and ECM trees and microbial functioning in three hardwood forests in southern Indiana, USA. Across each site's 'mycorrhizal gradient', we measured fungal biomass, fungal : bacterial (F : B) ratios, extracellular enzyme activities, soil carbon : nitrogen ratio, and soil pH over a growing season...
December 5, 2016: New Phytologist
https://www.readbyqxmd.com/read/27917301/separation-of-bacteria-protozoa-and-carbon-nanotubes-by-density-gradient-centrifugation
#8
Monika Mortimer, Elijah J Petersen, Bruce A Buchholz, Patricia A Holden
Sustainable production and use of carbon nanotube (CNT)-enabled materials require efficient assessment of CNT environmental hazards, including the potential for CNT bioaccumulation and biomagnification in environmental receptors. Microbes, as abundant organisms responsible for nutrient cycling in soil and water, are important ecological receptors for studying the effects of CNTs. Quantification of CNT association with microbial cells requires efficient separation of CNT-associated cells from individually dispersed CNTs and CNT agglomerates...
2016: Nanomaterials
https://www.readbyqxmd.com/read/27916707/rethinking-diet-to-aid-human-microbe-symbiosis
#9
REVIEW
Muriel Derrien, Patrick Veiga
The spread of the Western lifestyle has been accompanied by microbial changes thought to underlie the emergence of chronic, nontransmissible, immune-related diseases. The past decade has seen the unprecedented development of therapies for 'replenishing' the microbiota of sick individuals. However, functional and ecological solutions helping the host and the gut microbiota to cope with the ecological stressors of modern life are still lacking. In this review, we discuss how recent advances in gut microbiome science are leading to the identification of microbe-derived and health-relevant metabolites...
October 26, 2016: Trends in Microbiology
https://www.readbyqxmd.com/read/27915291/the-landscape-of-microbial-phenotypic-traits-and-associated-genes
#10
Maria Brbić, Matija Piškorec, Vedrana Vidulin, Anita Kriško, Tomislav Šmuc, Fran Supek
Bacteria and Archaea display a variety of phenotypic traits and can adapt to diverse ecological niches. However, systematic annotation of prokaryotic phenotypes is lacking. We have therefore developed ProTraits, a resource containing ∼545 000 novel phenotype inferences, spanning 424 traits assigned to 3046 bacterial and archaeal species. These annotations were assigned by a computational pipeline that associates microbes with phenotypes by text-mining the scientific literature and the broader World Wide Web, while also being able to define novel concepts from unstructured text...
December 1, 2016: Nucleic Acids Research
https://www.readbyqxmd.com/read/27915249/new-and-highly-active-microbial-phosphotriesterase-sources
#11
Julia Y Santillan, Lucas A Dettorre, Elizabeth S Lewkowicz, Adolfo M Iribarren
Many toxic insecticides used worldwide as well as some chemical warfare agents are phosphotriester derivatives. Therefore, detoxification of organophosphorus compounds has become the subject of many studies and in particular bioremediation, based on the phosphotriesterase catalysed hydrolysis of these compounds, has shown to be an effective and ecological methodology. In order to identify new bacterial phosphotriesterases, a simple and sensitive fluorimetric screening method on solid media was employed, that allowed the selection of 6 strains with phosphotriesterase activity...
December 2, 2016: FEMS Microbiology Letters
https://www.readbyqxmd.com/read/27913413/new-arsenate-reductase-gene-arra-pcr-primers-for-diversity-assessment-and-quantification-in-environmental-samples
#12
Babur S Mirza, Darwin L Sorensen, R Ryan Dupont, Joan E McLean
: The extent of arsenic contamination in drinking water and its potential threat to human health have resulted in considerable research interest in the microbial species responsible for arsenic reduction. The arsenate reductase gene (arrA), an important component of the microbial arsenate reduction system, has been widely used as a biomarker to study arsenate reducing microorganisms. A new primer pair was designed and evaluated for qPCR and high-throughput sequencing of the arrA gene, because currently available PCR primers are not suitable for these applications...
December 2, 2016: Applied and Environmental Microbiology
https://www.readbyqxmd.com/read/27911438/evolutionary-convergence-in-experimental-pseudomonas-populations
#13
Peter A Lind, Andrew D Farr, Paul B Rainey
Model microbial systems provide opportunity to understand the genetic bases of ecological traits, their evolution, regulation and fitness contributions. Experimental populations of Pseudomonas fluorescens rapidly diverge in spatially structured microcosms producing a range of surface-colonising forms. Despite divergent molecular routes, wrinkly spreader (WS) niche specialist types overproduce a cellulosic polymer allowing mat formation at the air-liquid interface and access to oxygen. Given the range of ways by which cells can form mats, such phenotypic parallelism is unexpected...
December 2, 2016: ISME Journal
https://www.readbyqxmd.com/read/27909426/deconstructing-the-bat-skin-microbiome-influences-of-the-host-and-the-environment
#14
Christine V Avena, Laura Wegener Parfrey, Jonathan W Leff, Holly M Archer, Winifred F Frick, Kate E Langwig, A Marm Kilpatrick, Karen E Powers, Jeffrey T Foster, Valerie J McKenzie
Bats are geographically widespread and play an important role in many ecosystems, but relatively little is known about the ecology of their associated microbial communities and the role microbial taxa play in bat health, development, and evolution. Moreover, few vertebrate animal skin microbiomes have been comprehensively assessed, and thus characterizing the bat skin microbiome will yield valuable insight into the variability of vertebrate skin microbiomes as a whole. The recent emergence of the skin fungal disease white-nose syndrome highlights the potentially important role bat skin microbial communities could play in bat health...
2016: Frontiers in Microbiology
https://www.readbyqxmd.com/read/27907842/making-a-microbiome-the-many-determinants-of-host-associated-microbial-community-composition
#15
REVIEW
Karen L Adair, Angela E Douglas
The composition of many host-associated microbial communities is characterized by seemingly contradictory features: strong selection for specific taxa by the host, but substantial variability among hosts and over time within one host. Recent advances have revealed that both deterministic and stochastic processes operating across multiple spatial scales shape the composition of host-associated microbial communities. Although most research has focused on deterministic processes within individual hosts, the microbiota within each host is increasingly recognized to contribute to a wider metacommunity maintained by transmission between individual hosts and dispersal between host-associated and free-living microbial communities...
November 28, 2016: Current Opinion in Microbiology
https://www.readbyqxmd.com/read/27905064/a-mini-survey-of-moulds-and-mycotoxins-in-locally-grown-and-imported-wheat-grains-in-nigeria
#16
Ayotokunbo O Egbontan, Clement G Afolabi, Iyabode A Kehinde, Ololade A Enikuomehin, Chibundu N Ezekiel, Michael Sulyok, Benedikt Warth, Rudolf Krska
A preliminary survey involving limited sample size was conducted to determine the spectrum of moulds and mycotoxins in wheat grains from flour mills and local markets in Nigeria. Fourteen wheat samples were analyzed for moulds using standard mycological methods and for toxic fungal metabolites using a liquid chromatography-tandem mass spectrometric method. Fusarium (range of incidence 12.5-61.7%) dominated in the wheat grains though species of Aspergillus (range of incidence 2.24-3.86%) were also recovered from the samples...
November 30, 2016: Mycotoxin Research
https://www.readbyqxmd.com/read/27904880/microbial-community-patterns-associated-with-automated-teller-machine-keypads-in-new-york-city
#17
Holly M Bik, Julia M Maritz, Albert Luong, Hakdong Shin, Maria Gloria Dominguez-Bello, Jane M Carlton
In densely populated urban environments, the distribution of microbes and the drivers of microbial community assemblages are not well understood. In sprawling metropolitan habitats, the "urban microbiome" may represent a mix of human-associated and environmental taxa. Here we carried out a baseline study of automated teller machine (ATM) keypads in New York City (NYC). Our goal was to describe the biodiversity and biogeography of both prokaryotic and eukaryotic microbes in an urban setting while assessing the potential source of microbial assemblages on ATM keypads...
November 2016: MSphere
https://www.readbyqxmd.com/read/27904402/microbiological-quality-and-variability-of-natural-microbiota-in-croatian-cheese-maturing-in-lambskin-sacks
#18
Jadranka Frece, Marija Vrdoljak, Mija Filipčić, Marko Jelić, Iva Čanak, Željko Jakopović, Jelka Pleadin, Ivana Gobin, Tibela Landeka Dragičević, Ksenija Markov
As in the traditional production of cheese in lambskin sacks raw cow's or sheep's milk is mostly used, the purpose of this study is to see how the production affects the microbiological quality of the cheese. To do that, we tested 39 samples of raw cow's and sheep's milk, curd, ripened cheese (15, 30 and 45 days) and lambskin sacks for native microbial population. Two-thirds of the milk, curd and cheese samples had higher counts of staphylococci and enterobacteria than permitted by regulations. Not a single sample had Salmonella and Listeria monocytogenes, but we did find Escherichia coli in sheep's milk and cheese, and yeast and mould in both types of milk and cheese...
June 2016: Food Technology and Biotechnology
https://www.readbyqxmd.com/read/27903594/chronic-rhinosinusitis-and-the-evolving-understanding-of-microbial-ecology-in-chronic-inflammatory-mucosal-disease
#19
REVIEW
Michael Hoggard, Brett Wagner Mackenzie, Ravi Jain, Michael W Taylor, Kristi Biswas, Richard G Douglas
Chronic rhinosinusitis (CRS) encompasses a heterogeneous group of debilitating chronic inflammatory sinonasal diseases. Despite considerable research, the etiology of CRS remains poorly understood, and debate on potential roles of microbial communities is unresolved. Modern culture-independent (molecular) techniques have vastly improved our understanding of the microbiology of the human body. Recent studies that better capture the full complexity of the microbial communities associated with CRS reintroduce the possible importance of the microbiota either as a direct driver of disease or as being potentially involved in its exacerbation...
January 2017: Clinical Microbiology Reviews
https://www.readbyqxmd.com/read/27900684/dna-rna-and-protein-based-stable-isotope-probing-for-high-throughput-biomarker-analysis-of-active-microorganisms
#20
Eleanor Jameson, Martin Taubert, Sara Coyotzi, Yin Chen, Özge Eyice, Hendrik Schäfer, J Colin Murrell, Josh D Neufeld, Marc G Dumont
Stable-isotope probing (SIP) enables researchers to target active populations within complex microbial communities, which is achieved by providing growth substrates enriched in heavy isotopes, usually in the form of (13)C, (18)O, or (15)N. After growth on the substrate and subsequent extraction of microbial biomarkers, typically nucleic acids or proteins, the SIP technique is used for the recovery and analysis of isotope-labeled biomarkers from active microbial populations. In the years following the initial development of DNA- and RNA-based SIP, it was common practice to characterize labeled populations by targeted gene analysis...
2017: Methods in Molecular Biology
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