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Plant microbiome

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https://www.readbyqxmd.com/read/28097828/pollen-has-a-microbiome-implications-for-plant-reproduction-insect-pollination-and-human-allergies
#1
Michael Zasloff
No abstract text is available yet for this article.
January 18, 2017: Environmental Microbiology
https://www.readbyqxmd.com/read/28095877/deciphering-composition-and-function-of-the-root-microbiome-of-a-legume-plant
#2
Kyle Hartman, Marcel Ga van der Heijden, Valexia Roussely-Provent, Jean-Claude Walser, Klaus Schlaeppi
BACKGROUND: Diverse assemblages of microbes colonize plant roots and collectively function as a microbiome. Earlier work has characterized the root microbiomes of numerous plant species, but little information is available for legumes despite their key role in numerous ecosystems including agricultural systems. Legumes form a root nodule symbiosis with nitrogen-fixing Rhizobia bacteria and thereby account for large, natural nitrogen inputs into soils. Here, we describe the root bacteria microbiome of the legume Trifolium pratense combining culture-dependent and independent methods...
January 17, 2017: Microbiome
https://www.readbyqxmd.com/read/28095208/tale-of-the-huanglongbing-disease-pyramid-in-the-context-of-the-citrus-phytobiome
#3
Nian Wang, Lukasz Stelinski, Kirsten Pelz-Stelinski, Jim H Graham, Yunzeng Zhang
The Huanglongbing (HLB) disease pyramid is composed of Liberibacters, psyllid vectors, citrus hosts and the environment. The epidemiological outcomes for Liberibacter-associated plant diseases are collectively determined by the inherent relationships between plant-Liberibacters and psyllids, and how various environment factors affect plant-Liberibacter-psyllid interactions. Citrus-Liberibacter-psyllid interactions occur in a complex microbiome system. In this review, we focus on the progress in understanding the HLB disease pyramid, and how the microbiome affects the HLB disease pyramid including the interaction between HLB and the citrus microbiome; the interaction between Liberibacters and psyllids; the interaction between Liberibacters and gut microbiota in psyllids, and the effect of HLB on selected above- and belowground citrus pathogens...
January 17, 2017: Phytopathology
https://www.readbyqxmd.com/read/28091525/a-fibrolytic-potential-in-the-human-ileum-mucosal-microbiota-revealed-by-functional-metagenomic
#4
Orlane Patrascu, Fabienne Béguet-Crespel, Ludovica Marinelli, Emmanuelle Le Chatelier, Anne-Laure Abraham, Marion Leclerc, Christophe Klopp, Nicolas Terrapon, Bernard Henrissat, Hervé M Blottière, Joël Doré, Christel Béra-Maillet
The digestion of dietary fibers is a major function of the human intestinal microbiota. So far this function has been attributed to the microorganisms inhabiting the colon, and many studies have focused on this distal part of the gastrointestinal tract using easily accessible fecal material. However, microbial fermentations, supported by the presence of short-chain fatty acids, are suspected to occur in the upper small intestine, particularly in the ileum. Using a fosmid library from the human ileal mucosa, we screened 20,000 clones for their activities against carboxymethylcellulose and xylans chosen as models of the major plant cell wall (PCW) polysaccharides from dietary fibres...
January 16, 2017: Scientific Reports
https://www.readbyqxmd.com/read/28068396/effects-of-pulp-and-na-bentonite-amendments-on-the-mobility-of-trace-elements-soil-enzymes-activity-and-microbial-parameters-under-ex-situ-aided-phytostabilization
#5
Daniel Wasilkowski, Anna Nowak, Grażyna Płaza, Agnieszka Mrozik
The objective of this study was to explore the potential use of pulp (by-product) from coffee processing and Na-bentonite (commercial product) for minimizing the environmental risk of Zn, Pb and Cd in soil collected from a former mine and zinc-lead smelter. The effects of soil amendments on the physicochemical properties of soil, the structural and functional diversity of the soil microbiome as well as soil enzymes were investigated. Moreover, biomass of Festuca arundinacea Schreb. (cultivar Asterix) and the uptake of trace elements in plant tissues were studied...
2017: PloS One
https://www.readbyqxmd.com/read/28056814/competition-assays-and-physiological-experiments-of-soil-and-phyllosphere-yeasts-identify-candida-subhashii-as-a-novel-antagonist-of-filamentous-fungi
#6
Maja Hilber-Bodmer, Michael Schmid, Christian H Ahrens, Florian M Freimoser
BACKGROUND: While recent advances in next generation sequencing technologies have enabled researchers to readily identify countless microbial species in soil, rhizosphere, and phyllosphere microbiomes, the biological functions of the majority of these species are unknown. Functional studies are therefore urgently needed in order to characterize the plethora of microorganisms that are being identified and to point out species that may be used for biotechnology or plant protection. Here, we used a dual culture assay and growth analyses to characterise yeasts (40 different isolates) and their antagonistic effect on 16 filamentous fungi; comprising plant pathogens, antagonists, and saprophytes...
January 5, 2017: BMC Microbiology
https://www.readbyqxmd.com/read/28051350/can-plant-microbiome-studies-lead-to-effective-biocontrol-of-plant-diseases
#7
Jeffrey Ellis
In this commentary I question the wisdom and efficacy of studies seeking disease attenuating microbes and microbiomes only in healthy plant communities and posit the alternative view that success in biocontrol of crop diseases may come also come from studies of microbiota, or at least individual species isolates, associated with diseased plants. In support of this view I summarise the current extensive knowledge of the biology behind what is probably the most successful biocontrol of a plant disease, namely the biocontrol of crown gall of stone fruit using non-pathogenic Rhizobium rhizogenes strain K84 (New and Kerr, 1972; Kerr, 2016) where the biocontrol agent itself came from a diseased plant...
January 4, 2017: Molecular Plant-microbe Interactions: MPMI
https://www.readbyqxmd.com/read/28050853/metagenomic-insights-into-the-rumen-microbial-fibrolytic-enzymes-in-indian-crossbred-cattle-fed-finger-millet-straw
#8
V Lyju Jose, Thulasi Appoothy, Ravi P More, A Sha Arun
The rumen is a unique natural habitat, exhibiting an unparalleled genetic resource of fibrolytic enzymes of microbial origin that degrade plant polysaccharides. The objectives of this study were to identify the principal plant cell wall-degrading enzymes and the taxonomic profile of rumen microbial communities that are associated with it. The cattle rumen microflora and the carbohydrate-active enzymes were functionally classified through a whole metagenomic sequencing approach. Analysis of the assembled sequences by the Carbohydrate-active enzyme analysis Toolkit identified the candidate genes encoding fibrolytic enzymes belonging to different classes of glycoside hydrolases(11,010 contigs), glycosyltransferases (6366 contigs), carbohydrate esterases (4945 contigs), carbohydrate-binding modules (1975 contigs), polysaccharide lyases (480 contigs), and auxiliary activities (115 contigs)...
December 2017: AMB Express
https://www.readbyqxmd.com/read/28028891/a-decade-of-irrigation-transforms-the-soil-microbiome-of-a-semi-arid-pine-forest
#9
Martin Hartmann, Ivano Brunner, Frank Hagedorn, Richard D Bardgett, Beat Stierli, Claude Herzog, Xiamei Chen, Andreas Zingg, Elisabeth Graf-Pannatier, Andreas Rigling, Beat Frey
The impact of climate change on the soil microbiome potentially alters the biogeochemical cycle of terrestrial ecosystems. In semi-arid environments, water availability is a major constraint on biogeochemical cycles due to the combination of high summer temperatures and low rainfall. Here, we explored how ten years of irrigation of a water-limited pine forest in the central European Alps altered the soil microbiome and associated ecosystem functioning. A decade of irrigation stimulated tree growth, resulting in higher crown cover, larger yearly increments of tree biomass, increased litter fall, and greater root biomass...
December 28, 2016: Molecular Ecology
https://www.readbyqxmd.com/read/28018306/the-plant-as-metaorganism-and-research-on-next-generation-systemic-pesticides-prospects-and-challenges
#10
Zisis Vryzas
Systemic pesticides (SPs) are usually recommended for soil treatments and as seed coating agents and are taken up from the soil by involving various plant-mediated processes, physiological, and morphological attributes of the root systems. Microscopic insights and next-generation sequencing combined with bioinformatics allow us now to identify new functions and interactions of plant-associated bacteria and perceive plants as meta-organisms. Host symbiotic, rhizo-epiphytic, endophytic microorganisms and their functions on plants have not been studied yet in accordance with uptake, tanslocation and action of pesticides...
2016: Frontiers in Microbiology
https://www.readbyqxmd.com/read/28003808/microbiome-selection-could-spur-next-generation-plant-breeding-strategies
#11
Murali Gopal, Alka Gupta
"No plant is an island too…" Plants, though sessile, have developed a unique strategy to counter biotic and abiotic stresses by symbiotically co-evolving with microorganisms and tapping into their genome for this purpose. Soil is the bank of microbial diversity from which a plant selectively sources its microbiome to suit its needs. Besides soil, seeds, which carry the genetic blueprint of plants during trans-generational propagation, are home to diverse microbiota that acts as the principal source of microbial inoculum in crop cultivation...
2016: Frontiers in Microbiology
https://www.readbyqxmd.com/read/28003051/interaction-of-chiral-herbicides-with-soil-microorganisms-algae-and-vascular-plants
#12
REVIEW
Muhammad Asad Ullah Asad, Michel Lavoie, Hao Song, Yujian Jin, Zhengwei Fu, Haifeng Qian
Chiral herbicides are often used in agriculture as racemic mixtures, although studies have shown that the fate and toxicity of herbicide enantiomers to target and non-target plants can be enantioselective and that herbicide toxicity can be mediated by only one enantiomer. If one enantiomer is active against the target plant, the use of enantiomer-rich herbicide mixtures instead of racemic herbicides could decrease the amount of herbicide applied to a crop and the cost of herbicide application, as well as unintended toxic herbicide effects in the environment...
December 18, 2016: Science of the Total Environment
https://www.readbyqxmd.com/read/27999386/reduced-diversity-in-the-bacteriome-of-the-phytophagous-mite-brevipalpus-yothersi-acari-tenuipalpidae
#13
Oscar E Ospina, Steven E Massey, Jose Carlos Verle Rodrigues
Tenuipalpidae comprises mites that transmit viruses to agriculturally important plants. Several tenuipalpid species present parthenogenesis, and in Brevipalpus yothersi, the endosymbiont Cardinium has been associated with female-only colonies. It is unclear what the bacterial composition of B. yothersi is, and how common Cardinium is in those microbiomes. We performed a comparative analysis of the bacteriomes in three populations of B. yothersi and three additional Tetranychoidea species using sequences from V4-fragment of 16S DNA...
December 20, 2016: Insects
https://www.readbyqxmd.com/read/27997751/identifying-the-plant-associated-microbiome-across-aquatic-and-terrestrial-environments-the-effects-of-amplification-method-on-taxa-discovery
#14
Sara L Jackrel, Sarah M Owens, Jack A Gilbert, Catherine A Pfister
Plants in terrestrial and aquatic environments contain a diverse microbiome. Yet, the chloroplast and mitochondria organelles of the plant eukaryotic cell originate from free-living cyanobacteria and Rickettsiales. This represents a challenge for sequencing the plant microbiome with universal primers, as ~99% of 16S rRNA sequences may consist of chloroplast and mitochondrial sequences. Peptide nucleic acid clamps offer a potential solution by blocking amplification of host-associated sequences. We assessed the efficacy of chloroplast and mitochondria-blocking clamps against a range of microbial taxa from soil, freshwater, and marine environments...
December 20, 2016: Molecular Ecology Resources
https://www.readbyqxmd.com/read/27995170/proteome-data-on-the-microbial-microbiome-of-grasshopper-feces
#15
Nico Jehmlich, Martina Müller, Stefanie Meyer, Alexander Tischer, Karin Potthast, Beate Michalzik, Martin von Bergen
We present proteome data from the microbiota (feces) after a diet shift from a natural diverse to a monocultural meadow with Dactylis glomerata. The abundant grasshopper species, Chorthippus dorsatus, was taken from the wild and kept in captivity and were fed with Dactylis glomerata for five days. For phytophagous insects, the efficiency of utilization of hemicellulose and cellulose depends on the gut microbiota. Shifts in environmental and management conditions alter the presence and abundance of plant species which may induce adaptations in the diversity of gut microbiota...
December 2016: Data in Brief
https://www.readbyqxmd.com/read/27975077/microbial-ecology-where-are-we-now
#16
Lisa A Boughner, Pallavi Singh
Conventional microbiological methods have been readily taken over by newer molecular techniques due to the ease of use, reproducibility, sensitivity and speed of working with nucleic acids. These tools allow high throughput analysis of complex and diverse microbial communities, such as those in soil, freshwater, saltwater, or the microbiota living in collaboration with a host organism (plant, mouse, human, etc). For instance, these methods have been robustly used for characterizing the plant (rhizosphere), animal and human microbiome specifically the complex intestinal microbiota...
November 2016: Postdoc Journal: a Journal of Postdoctoral Research and Postdoctoral Affairs
https://www.readbyqxmd.com/read/27966634/the-impact-of-zinc-oxide-nanoparticles-on-the-bacterial-microbiome-of-activated-sludge-systems
#17
K Meli, I Kamika, J Keshri, M N B Momba
The expected growth in nanomaterial applications could result in increased amounts of nanoparticles entering municipal sewer systems, eventually ending up in wastewater treatment plants and therefore negatively affecting microbial populations and biological nutrient removal. The aim of this study was to ascertain the impact of zinc oxide nanoparticles (nZnO) on the bacterial microbiome of an activated sludge system. A metagenomic approach combined with the latest generation Illumina MiSeq platform and RDP pipeline tools were used to identify and classify the bacterial microbiome of the sludge...
December 14, 2016: Scientific Reports
https://www.readbyqxmd.com/read/27965449/probiotic-diversity-enhances-rhizosphere-microbiome-function-and-plant-disease-suppression
#18
Jie Hu, Zhong Wei, Ville-Petri Friman, Shao-Hua Gu, Xiao-Fang Wang, Nico Eisenhauer, Tian-Jie Yang, Jing Ma, Qi-Rong Shen, Yang-Chun Xu, Alexandre Jousset
: Bacterial communities associated with plant roots play an important role in the suppression of soil-borne pathogens, and multispecies probiotic consortia may enhance disease suppression efficacy. Here we introduced defined Pseudomonas species consortia into naturally complex microbial communities and measured the importance of Pseudomonas community diversity for their survival and the suppression of the bacterial plant pathogen Ralstonia solanacearum in the tomato rhizosphere microbiome...
December 13, 2016: MBio
https://www.readbyqxmd.com/read/27959345/new-roles-in-hemicellulosic-sugar-fermentation-for-the-uncultivated-bacteroidetes-family-bs11
#19
Lindsey M Solden, David W Hoyt, William B Collins, Johanna E Plank, Rebecca A Daly, Erik Hildebrand, Timothy J Beavers, Richard Wolfe, Carrie D Nicora, Sam O Purvine, Michelle Carstensen, Mary S Lipton, Donald E Spalinger, Jeffrey L Firkins, Barbara A Wolfe, Kelly C Wrighton
Ruminants have co-evolved with their gastrointestinal microbial communities that digest plant materials to provide energy for the host. Some arctic and boreal ruminants have already shown to be vulnerable to dietary shifts caused by changing climate, yet we know little about the metabolic capacity of the ruminant microbiome in these animals. Here, we use meta-omics approaches to sample rumen fluid microbial communities from Alaskan moose foraging along a seasonal lignocellulose gradient. Winter diets with increased hemicellulose and lignin strongly enriched for BS11, a Bacteroidetes family lacking cultivated or genomically sampled representatives...
December 13, 2016: ISME Journal
https://www.readbyqxmd.com/read/27940644/rhizosphere-microbiomes-of-potato-cultivated-in-the-high-andes-show-stable-and-dynamic-core-microbiomes-with-different-responses-to-plant-development
#20
Stefan Pfeiffer, Birgit Mitter, Andreas Oswald, Brigitte Schloter-Hai, Michael Schloter, Stéphane Declerck, Angela Sessitsch
The rhizosphere hosts a rich microflora supporting plant nutrition and health. We examined bacterial rhizosphere microbiota of Solanum tuberosum grown in its center of origin, the Central Andean Highlands, at different vegetation stages and sites at altitudes ranging from 3,245 to 4,070 m.a.s.l., differing in soil characteristics, climate, and the agricultural practices by 454 sequence analysis of 16S rRNA genes. We observed that the taxonomic composition of bacteria repeatedly occurring at particular stages of plant development was almost unaffected by highly diverse environmental conditions...
December 8, 2016: FEMS Microbiology Ecology
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