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FEMS Microbiology Ecology

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https://www.readbyqxmd.com/read/28922804/hunting-for-agile-prey-trophic-specialisation-in-leptophryid-amoebae-vampyrellida-rhizaria-revealed-by-two-novel-predators-of-planktonic-algae
#1
Sebastian Hess
Vampyrellid amoebae (Vampyrellida, Rhizaria) are widespread in freshwater, marine and terrestrial ecosystems and consume a wide range of eukaryotes, e.g. algae, fungi and micrometazoa. Environmental sequences indicate that only a small fraction of their genetic diversity is phenotypically characterised, emphasising the need to further explore unknown vampyrellids and their interactions with prey organisms. This study tests the prey range specificity of three vampyrellid amoebae with 49 strains of three common groups of freshwater algae (Zygnematophyceae, Euglenophyceae and Volvocales), and documents specific interactions by time-lapse microscopy...
September 1, 2017: FEMS Microbiology Ecology
https://www.readbyqxmd.com/read/28922803/micropredator-niche-differentiation-between-bulk-soil-and-rhizosphere-of-an-agricultural-soil-depends-on-bacterial-prey
#2
Lu Zhang, Tillmann Lueders
Predation is a fundamental mechanism of all food webs, but its drivers and organismic connectivities, especially at microbial level, are still poorly understood. Specifically, competitive carbon flows in the presence of multiple micropredators, as well as trophic links within and between microbial kingdoms have rarely been resolved. Here, using maize-planted agricultural soil as a model system, we have investigated the predation of amended bacterial prey by both prokaryotic and eukaryotic micropredators. We have queried how soil compartment (rhizosphere vs bulk soil) and nature of prey (Gram-positive vs Gram-negative) influence predation outcomes...
September 1, 2017: FEMS Microbiology Ecology
https://www.readbyqxmd.com/read/28922802/succession-of-arbuscular-mycorrhizal-fungi-along-a-52-year-agricultural-recultivation-chronosequence
#3
Julien Roy, Rüdiger Reichel, Nicolas Brüggemann, Stefan Hempel, Matthias C Rillig
Arbuscular mycorrhizal (AM) fungi provide a range of functions in natural and managed ecosystems. However, the trajectory of AM fungal diversity after land degradation is poorly known. We studied the succession of AM fungi along an agricultural recultivation chronosequence after open-cast mining near Cologne, Germany. We used high-throughput sequencing of the large-subunit ribosomal RNA genes to characterize the soil AM fungal communities of 10 agricultural fields spanning 52 years of recultivation. During three years, soils are recultivated with a legume, and then converted to agriculture to be later returned to local farmers implementing conventional agriculture...
September 1, 2017: FEMS Microbiology Ecology
https://www.readbyqxmd.com/read/28922801/effect-of-severe-weather-events-on-the-shedding-of-shiga-toxigenic-escherichia-coli-in-slaughter-cattle-and-phenotype-of-serogroup-o157-isolates
#4
Kim Stanford, Tim Reuter, Susan J Bach, Linda Chui, Angela Ma, Cheyenne C Conrad, Renata Tostes, Tim A McAllister
High-event periods (HEPs) occur sporadically when beef carcasses and meat have episodes of acute contamination with Shiga toxin-producing Escherichia coli (STEC). In this study, severe weather events were investigated as catalysts for HEPs based on PCR and isolate prevalence of seven E. coli serogroups in slaughter cattle feces. Winter ambient temperatures with daily means 10.5oC warmer or 12.3°C colder than seasonal norms (-10.4°C) most altered STEC shedding. Fecal samples yielded increased proportions (P < 0...
September 1, 2017: FEMS Microbiology Ecology
https://www.readbyqxmd.com/read/28922800/changes-in-fibre-adherent-and-fluid-associated-microbial-communities-and-fermentation-profiles-in-the-rumen-of-cattle-fed-diets-differing-in-hay-quality-and-concentrate-amount
#5
Fenja Klevenhusen, Renee M Petri, Maria-Theresia Kleefisch, Ratchaneewan Khiaosa-Ard, Barbara U Metzler-Zebeli, Qendrim Zebeli
The rumen microbiota enable important metabolic functions to the host cattle. Feeding of starch-rich concentrate feedstuffs to cattle has been demonstrated to increase the risk of metabolic disorders and to significantly alter the rumen microbiome. Thus, alternative feeding strategies like the use of high-quality hay, rich in sugars, as an alternative energy source need to be explored. The aim of this study was to investigate changes in rumen microbial abundances in the liquid and solid-associated fraction of cattle fed two hay qualities differing in sugar content with graded amounts of starchy concentrate feeds using Illumina MiSeq sequencing and quantitative polymerase chain reaction...
September 1, 2017: FEMS Microbiology Ecology
https://www.readbyqxmd.com/read/28910965/actinobacteria-phylogenomics-selective-isolation-from-an-iron-oligotrophic-environment-and-siderophore-functional-characterization-unveil-new-desferrioxamine-traits
#6
Pablo Cruz-Morales, Hilda E Ramos-Aboites, Cuauhtémoc Licona-Cassani, Nelly Selem-Mójica, Paulina M Mejía-Ponce, Valeria Souza-Saldívar, Francisco Barona-Gómez
Desferrioxamines are hydroxamate siderophores widely conserved in both aquatic and soil-dwelling Actinobacteria. While the genetic and enzymatic bases of siderophore biosynthesis and their transport in model families of this phylum are well understood, evolutionary studies are lacking. Here, we perform a comprehensive desferrioxamine-centric (des genes) phylogenomic analysis, which includes the genomes of six novel strains isolated from an iron and phosphorous depleted oasis in the Chihuahuan desert of Mexico...
September 1, 2017: FEMS Microbiology Ecology
https://www.readbyqxmd.com/read/28903469/signatures-in-the-gut-microbiota-of-japanese-infants-who-developed-food-allergies-in-early-childhood
#7
Masaru Tanaka, Yuki Korenori, Masakazu Washio, Takako Kobayashi, Rie Momoda, Chikako Kiyohara, Aki Kuroda, Yuka Saito, Kenji Sonomoto, Jiro Nakayama
Bacterial colonization in infancy is considered crucial for the development of the immune system. Recently, there has been a drastic increase in childhood allergies in Japan. Therefore, we conducted a prospective study with 56 infants on the relationship between gut microbiota in the first year of life and the development of allergies during the first 3 years. In the lactation period, organic acid producers such as Leuconostoc, Weissella and Veillonella tended to be underrepresented in subjects who developed food allergies (FA, n = 14) within the first two years...
August 1, 2017: FEMS Microbiology Ecology
https://www.readbyqxmd.com/read/28903468/a-case-for-the-protection-of-saline-and-hypersaline-environments-a-microbiological-perspective
#8
Varun G Paul, Melanie R Mormile
Saline and hypersaline environments are known for their unique geochemical properties, microbial populations and aesthetic appeal. Microbial activities and a spectrum of diversity seen in hypersaline environments are distinct with many novel species being identified and reported on a regular basis. Many distinguishing characteristics about the adaptation, morphology, evolutionary history, and potential environmental and biotechnological applications of these organisms are continually investigated. An abundance of interdisciplinary activities and opportunities exist to explore and understand the importance of these environments that potentially hold promising solutions for current and future global issues...
August 1, 2017: FEMS Microbiology Ecology
https://www.readbyqxmd.com/read/28873943/novel-sequence-types-of-extended-spectrum-and-acquired-ampc-beta-lactamase-producing-escherichia-coli-and-escherichia-clade-v-isolated-from-wild-mammals
#9
Carla Andrea Alonso, Leticia Alcalá, Carmen Simón, Carmen Torres
The closer contact with wildlife due to the growing human population and the destruction of natural habitats emphasizes the need of gaining insight into the role of animals as source of antimicrobial resistance. Here, we aim at characterizing the antimicrobial resistance genes and phylogenetic distribution of commensal Escherichia coli from 62 wild mammals. Isolates exhibiting resistance to ≥1 antibiotic were detected in 25.8% of the animals and 6.4% carried an extended-spectrum beta-lactamase (ESBL)/AmpC-producing E...
August 1, 2017: FEMS Microbiology Ecology
https://www.readbyqxmd.com/read/28873942/biogeochemical-gradients-and-microbial-communities-in-winogradsky-columns-established-with-polluted-wetland-sediments
#10
Izabella Babcsányi, Fatima Meite, Gwenaël Imfeld
A Winogradsky column is a miniature ecosystem established with enriched sediments that can be used to study the relationship between biogeochemical gradients, microbial diversity and pollutant transformation. Biogeochemical processes and microbial communities changed with time and depth in Winogradsky columns incubated with heavy-metal-polluted wetland sediments for 520 days. 16S rRNA surveys were complemented by geochemical analyses, including heavy metal proportioning, to evaluate gradients in the mostly anoxic columns...
August 1, 2017: FEMS Microbiology Ecology
https://www.readbyqxmd.com/read/28854667/effect-of-dietary-nucleosides-and-yeast-extracts-on-composition-and-metabolic-activity-of-infant-gut-microbiota-in-polyferms-colonic-fermentation-models
#11
Eun-Hee Doo, Christophe Chassard, Clarissa Schwab, Christophe Lacroix
Nucleotides (NT) and nucleosides (NS) are added to infant formula to mimic the content of breast milk, but little is known about their impact on infant gut microbiota. In this study, we tested the effect of NS and of yeast extracts (YE) with different NT content using PolyFermS continuous fermentation models mimicking formula-fed, healthy and enteropathogen-contaminated infant gut microbiota. Microbiota composition, short-chain fatty acid (SCFA) formation and gene expression were determined. NS, and to a larger extend YE modulated microbiota composition and increased metabolic activity in both models...
August 1, 2017: FEMS Microbiology Ecology
https://www.readbyqxmd.com/read/28830071/rhizobacterial-community-structure-differences-among-sorghum-cultivars-in-different-growth-stages-and-soils
#12
Thiago R Schlemper, Márcio F A Leite, Adriano R Lucheta, Mahdere Shimels, Harro J Bouwmeester, Johannes A van Veen, Eiko E Kuramae
Plant genotype selects the rhizosphere microbiome. The success of plant-microbe interactions is dependent on factors that directly or indirectly influence the plant rhizosphere microbial composition. We investigated the rhizosphere bacterial community composition of seven different sorghum cultivars in two different soil types (abandoned (CF) and agricultural (VD)). The rhizosphere bacterial community was evaluated at four different plant growth stages: emergence of the second (day 10) and third leaves (day 20), the transition between the vegetative and reproductive stages (day 35), and the emergence of the last visible leaf (day 50)...
August 1, 2017: FEMS Microbiology Ecology
https://www.readbyqxmd.com/read/28830070/spatial-autocorrelation-of-microbial-communities-atop-a-debris-covered-glacier-is-evidence-of-a-supraglacial-chronosequence
#13
John L Darcy, Andrew J King, Eli M S Gendron, Steven K Schmidt
Although microbial communities from many glacial environments have been analyzed, microbes living in the debris atop debris-covered glaciers represent an understudied frontier in the cryosphere. The few previous molecular studies of microbes in supraglacial debris have either had limited phylogenetic resolution, limited spatial resolution (e.g. only one sample site on the glacier) or both. Here, we present the microbiome of a debris-covered glacier across all three domains of life, using a spatially-explicit sampling scheme to characterize the Middle Fork Toklat Glacier's microbiome from its terminus to sites high on the glacier...
August 1, 2017: FEMS Microbiology Ecology
https://www.readbyqxmd.com/read/28810708/bacteria-induced-morphogenesis-of-ulva-intestinalis-and-ulva-mutabilis-chlorophyta-a-contribution-to-the-lottery-theory
#14
Fatemeh Ghaderiardakani, Juliet C Coates, Thomas Wichard
The green marine macroalgae of the class Ulvophyceae (Ulvophytes) are common algae distributed worldwide particularly in intertidal areas, which play a key role in aquatic ecosystems. They are potentially valuable resources for food, animal feed and fuel but can also cause massive nuisance blooms. Members of Ulvaceae, like many other seaweeds, harbour a rich diversity of epiphytic bacteria with functions related to host growth and morphological development. In the absence of appropriate bacterially derived signals, germ cells of the genus Ulva develop into 'atypical' colonies consisting of undifferentiated cells with abnormal cell walls...
August 1, 2017: FEMS Microbiology Ecology
https://www.readbyqxmd.com/read/28810707/seasonal-and-spatial-variations-of-prokaryoplankton-communities-in-a-salinity-influenced-watershed-china
#15
Anyi Hu, Hongjie Wang, Xiaoyang Yang, Liyuan Hou, Jiangwei Li, Shuang Li, Chang-Ping Yu
Prokaryotes represent the largest biodiversity pool and drive the biogeochemical cycles in fluvial environments. However, the mechanisms underlying the assembly of prokaryotic communities are largely unexplored at taxonomic and functional levels, simultaneously. Here, we investigated the spatio-seasonal distribution of prokaryoplankton communities in a salinity-influenced watershed, China using 16S rRNA gene amplicon sequencing. The OTUs were divided into core and satellite, based on a statistical approach...
August 1, 2017: FEMS Microbiology Ecology
https://www.readbyqxmd.com/read/28645185/soil-prokaryotic-communities-in-chernobyl-waste-disposal-trench-t22-are-modulated-by-organic-matter-and-radionuclide-contamination
#16
Nicolas Theodorakopoulos, Laureline Février, Mohamed Barakat, Philippe Ortet, Richard Christen, Laurie Piette, Sviatoslav Levchuk, Karine Beaugelin-Seiller, Claire Sergeant, Catherine Berthomieu, Virginie Chapon
After the Chernobyl nuclear power plant accident in 1986, contaminated soils, vegetation from the Red Forest and other radioactive debris were buried within trenches. In this area, trench T22 has long been a pilot site for the study of radionuclide migration in soil. Here, we used 454 pyrosequencing of 16S rRNA genes to obtain a comprehensive view of the bacterial and archaeal diversity in soils collected inside and in the vicinity of the trench T22 and to investigate the impact of radioactive waste disposal on prokaryotic communities...
August 1, 2017: FEMS Microbiology Ecology
https://www.readbyqxmd.com/read/28575320/high-throughput-sequencing-of-microbial-eukaryotes-in-lake-baikal-reveals-ecologically-differentiated-communities-and-novel-evolutionary-radiations
#17
Zhenzhen Yi, Cedric Berney, Hanna Hartikainen, Shazia Mahamdallie, Michelle Gardner, Jens Boenigk, Thomas Cavalier-Smith, David Bass
We performed high-throughput 18S rDNA V9 region sequencing analyses of microeukaryote (protist) communities at seven sites with depths ranging from 0 to 1450 m in the southern part of Lake Baikal. We show that microeukaryotic diversity differed according to water column depth and sediment depth. Chrysophytes and perkinsids were diverse in subsurface samples, novel radiations of petalomonads and Ichthyobodo relatives were found in benthic samples, and a broad range of divergent OTUs were detected in deep subbenthic samples...
August 1, 2017: FEMS Microbiology Ecology
https://www.readbyqxmd.com/read/28854681/short-term-effect-of-oral-amoxicillin-treatment-on-the-gut-microbial-community-composition-in-farm-mink-neovison-vison
#18
Laura Meier Marker, Anne Sofie Hammer, Lars Andresen, Pernille Isaack, Tove Clausen, Kevin Byskov, Oliver Lykke Honoré, Søren Krogh Jensen, Martin Iain Bahl
It is well documented that antibiotics have pronounced modulatory effects on the intestinal bacterial community of both humans and animals, with potential health consequences. The gut microbiota of mink has however attracted little attention due to low bacterial load and fast gastrointestinal transit time, questioning its relevance. In this study, we hypothesise that oral amoxicillin treatment affects the gut microbiota in mink. This was investigated in a controlled trial including 24 animals of which 12 were treated with amoxicillin for 7 days...
July 1, 2017: FEMS Microbiology Ecology
https://www.readbyqxmd.com/read/28854680/the-ctx-m-14-plasmid-phk01-encodes-novel-small-rnas-and-influences-host-growth-and-motility
#19
Xinlei Jiang, Xuan Liu, Carmen O K Law, Ya Wang, Wai U Lo, Xing Weng, Ting Fung Chan, P L Ho, Terrence C K Lau
The dissemination of extended-spectrum β-lactamases (ESBLs) genes among bacteria is commonly achieved by plasmid conjugation. In the last decade, the CTX-M type enzyme was the most widespread and prevalent ESBLs in the world. In Hong Kong and mainland China, among the commonly found CTX-M-carrying plasmids were pHK01 and pHK01-like plasmids, which belong to incompatibility group FII (IncFII). In this work, we studied the physiological effect caused by the pHK01 plasmid in bacterial host Escherichia coli J53...
July 1, 2017: FEMS Microbiology Ecology
https://www.readbyqxmd.com/read/28854679/life-inside-a-gall-closeness-does-not-favour-horizontal-transmission-of-rickettsia-between-a-gall-wasp-and-its-parasitoid
#20
Liberata Gualtieri, Francesco Nugnes, Anna G Nappo, Marco Gebiola, Umberto Bernardo
The incidence of horizontal transmission as a route for spreading symbiont infections is still being debated, but a common view is that horizontal transfers require intimate between-species relationships. Here we study a system that meets ideal requirements for horizontal transmission: the gall wasp Leptocybe invasa and its parasitoid Quadrastichus mendeli (Hymenoptera: Eulophidae). These wasps belong to the same subfamily, spend most of their lives inside the same minute gall and are both infected by Rickettsia, a maternally inherited endosymbiotic bacteria that infects several arthropods, sometimes manipulating their reproduction, like inducing thelytokous parthenogenesis in L...
July 1, 2017: FEMS Microbiology Ecology
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