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Plant microbial interaction

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https://www.readbyqxmd.com/read/28220417/steady-state-and-kinetics-based-affinity-determination-in-effector-effector-target-interactions
#1
André Reinhard, Thorsten Nürnberger
Dissecting the functional basis of pathogenicity and resistance in the context of plant innate immunity benefits greatly from detailed knowledge about biomolecular interactions, as both resistance and virulence depend on specific interactions between pathogen and host biomolecules. While in vivo systems provide biological context to host-pathogen interactions, these experiments typically cannot provide quantitative biochemical characterization of biomolecular interactions. However, in many cases, the biological function does not only depend on whether an interaction occurs at all, but rather on the "intensity" of the interaction, as quantified by affinity...
2017: Methods in Molecular Biology
https://www.readbyqxmd.com/read/28220138/de-novo-transcriptome-assembly-of-phomopsis-liquidambari-provides-insights-into-genes-associated-with-different-lifestyles-in-rice-oryza-sativa-l
#2
Jun Zhou, Xin Li, Yan Chen, Chuan-Chao Dai
The mechanisms that trigger the switch from endophytic fungi to saprophytic fungi are largely unexplored. Broad host range Phomopsis liquidambari is established in endophytic and saprophytic systems with rice (Oryza sativa L.). Endophytic P. liquidambari promotes rice growth, increasing rice yield and improving the efficiency of nitrogen fertilizer. This species's saprophytic counterpart can decompose rice litterfall, promoting litter organic matter cycling and the release of nutrients and improving the soil microbial environment...
2017: Frontiers in Plant Science
https://www.readbyqxmd.com/read/28213542/plant-community-and-nitrogen-deposition-as-drivers-of-%C3%AE-and-%C3%AE-prokaryotic-diversity-in-reconstructed-oil-sands-soils-and-natural-boreal-forest-soils
#3
Jacynthe Masse, Cindy E Prescott, Sébastien Renaut, Yves Terrat, Sue J Grayston
The Athabasca Oil Sands deposit is one of the largest single oil deposits in the world. Following surface mining, companies are required to restore soil-like profiles that can support the previous land capabilities. The objective of this study was to assess if soil prokaryotic α- and β-diversity in oil-sands soils reconstructed 20-30 years previously, and planted to one of three vegetation types (coniferous or deciduous trees and grassland) were similar to those found in natural boreal-forest soils subject to wildfire disturbance...
February 17, 2017: Applied and Environmental Microbiology
https://www.readbyqxmd.com/read/28191585/soil-microbial-communities-alter-leaf-chemistry-and-influence-allelopathic-potential-among-coexisting-plant-species
#4
Scott J Meiners, Kelsey K Phipps, Thomas H Pendergast, Thomas Canam, Walter P Carson
While both plant-soil feedbacks and allelochemical interactions are key drivers of plant community dynamics, the potential for these two drivers to interact with each other remains largely unexplored. If soil microbes influence allelochemical production, this would represent a novel dimension of heterogeneity in plant-soil feedbacks. To explore the linkage between soil microbial communities and plant chemistry, we experimentally generated soil microbial communities and evaluated their impact on leaf chemical composition and allelopathic potential...
February 13, 2017: Oecologia
https://www.readbyqxmd.com/read/28184370/metaproteomics-as-a-complementary-approach-to-gut-microbiota-in-health-and-disease
#5
REVIEW
Bernardo A Petriz, Octávio L Franco
Classic studies on phylotype profiling are limited to the identification of microbial constituents, where information is lacking about the molecular interaction of these bacterial communities with the host genome and the possible outcomes in host biology. A range of OMICs approaches have provided great progress linking the microbiota to health and disease. However, the investigation of this context through proteomic mass spectrometry-based tools is still being improved. Therefore, metaproteomics or community proteogenomics has emerged as a complementary approach to metagenomic data, as a field in proteomics aiming to perform large-scale characterization of proteins from environmental microbiota, such as the human gut...
2017: Frontiers in Chemistry
https://www.readbyqxmd.com/read/28179898/metatranscriptomic-analysis-reveals-unexpectedly-diverse-microbial-metabolism-in-a-biogeochemical-hot-spot-in-an-alluvial-aquifer
#6
Talia N M Jewell, Ulas Karaoz, Markus Bill, Romy Chakraborty, Eoin L Brodie, Kenneth H Williams, Harry R Beller
Organic matter deposits in alluvial aquifers have been shown to result in the formation of naturally reduced zones (NRZs), which can modulate aquifer redox status and influence the speciation and mobility of metals, affecting groundwater geochemistry. In this study, we sought to better understand how natural organic matter fuels microbial communities within anoxic biogeochemical hot spots (NRZs) in a shallow alluvial aquifer at the Rifle (CO) site. We conducted a 20-day microcosm experiment in which NRZ sediments, which were enriched in buried woody plant material, served as the sole source of electron donors and microorganisms...
2017: Frontiers in Microbiology
https://www.readbyqxmd.com/read/28179427/stability-and-ligand-promiscuity-of-type-a-carbohydrate-binding-modules-are-illustrated-by-the-structure-of-spirochaeta-thermophila-stcbm64c
#7
Virginia M R Pires, Pedro M M Pereira, Joana L A Brás, Márcia Correia, Vânia Cardoso, Pedro Bule, Victor D Alves, Shabir Najmudin, Immacolata Venditto, Luís M A Ferreira, Maria João Romão, Ana Luísa Carvalho, Carlos M G A Fontes, Duarte M Prazeres
Deconstruction of cellulose, the most abundant plant cell wall polysaccharide, requires the cooperative activity of a large repertoire of microbial enzymes. Modular cellulases contain non-catalytic type A Carbohydrate-Binding Modules (CBMs) that specifically bind to the crystalline regions of cellulose, thus promoting enzyme efficacy through proximity and targeting effects. Although type A CBMs play a critical role in cellulose recycling, their mechanism of action remains poorly understood. Here we produced a library of recombinant CBMs representative of the known diversity of type A modules...
February 8, 2017: Journal of Biological Chemistry
https://www.readbyqxmd.com/read/28179422/viruses-comprise-an-extensive-pool-of-mobile-genetic-elements-in-eukaryote-cell-cultures-and-human-clinical-samples
#8
Jakob Thannesberger, Hans-Joerg Hellinger, Ingeborg Klymiuk, Marie-Theres Kastner, Franz J J Rieder, Martina Schneider, Susanne Fister, Thomas Lion, Karin Kosulin, Johannes Laengle, Michael Bergmann, Thomas Rattei, Christoph Steininger
Viruses shape a diversity of ecosystems by modulating their microbial, eukaryotic, or plant host metabolism. The complexity of virus-host interaction networks is progressively fathomed by novel metagenomic approaches. By using a novel metagenomic method, we explored the virome in mammalian cell cultures and clinical samples to identify an extensive pool of mobile genetic elements in all of these ecosystems. Despite aseptic treatment, cell cultures harbored extensive and diverse phage populations with a high abundance of as yet unknown and uncharacterized viruses (viral dark matter)...
February 8, 2017: FASEB Journal: Official Publication of the Federation of American Societies for Experimental Biology
https://www.readbyqxmd.com/read/28165756/enhanced-phytoremediation-of-soils-contaminated-with-pahs-by-arbuscular-mycorrhiza-and-rhizobium
#9
Cheng-Gang Ren, Cun-Cui Kong, Bian Bian, Wei Liu, Yan Li, Yong-Ming Luo, Xie Zhi-Hong
Greenhouse experiment was conducted to evaluate the potential effectiveness of a legume (Sesbania cannabina), arbuscular mycorrhizal fungi (AMF) (Glomus mosseae) and rhizobia (Ensifer sp.) symbiosis for remediation of PAHs in spiked soil. AMF and rhizobia had a beneficial impact on each other in the triple symbiosis. AMF and/or rhizobia significantly increased plant biomass and PAHs accumulation in plants. The highest PAHs dissipation was observed in plant + AMF + rhizobia treated soil, in which >97 and 85-87% of phenanthrene and pyrene, respectively, had been degraded, whereas 81-85% and 72-75% had been degraded in plant-treated soil...
February 6, 2017: International Journal of Phytoremediation
https://www.readbyqxmd.com/read/28165035/microbial-nitrification-denitrification-and-respiration-in-the-leached-cinnamon-soil-of-the-upper-basin-of-miyun-reservoir
#10
Wen Xu, Yan-Peng Cai, Zhi-Feng Yang, Xin-An Yin, Qian Tan
Leached cinnamon soil is the main agricultural soil distributed in the North China Plain. In this research, leached cinnamon soil samples were collected in the upper basin of Miyun Reservoir (northeast of Beijing, China). The BaPS method (Barometric Process Separation) was applied to measure nitrification, denitrification and respiration rates. The rates of nitrification, denitrification and respiration were 0-120.35 μg N/kg SDW h, 0-246.86 μg N/kg SDW h and 0.17-225.85 μg C/kg SDW h (Soil Dry Weight, SDW), respectively...
February 6, 2017: Scientific Reports
https://www.readbyqxmd.com/read/28163703/microbial-interactions-in-the-phyllosphere-increase-plant-performance-under-herbivore-biotic-stress
#11
Muhammad Saleem, Nicole Meckes, Zahida H Pervaiz, Milton B Traw
The phyllosphere supports a tremendous diversity of microbes and other organisms. However, little is known about the colonization and survival of pathogenic and beneficial bacteria alone or together in the phyllosphere across the whole plant life-cycle under herbivory, which hinders our ability to understand the role of phyllosphere bacteria on plant performance. We addressed these questions in experiments using four genetically and biogeographically diverse accessions of Arabidopsis thaliana, three ecologically important bacterial strains (Pseudomonas syringae DC3000, Xanthomonas campestris, both pathogens, and Bacillus cereus, plant beneficial) under common garden conditions that included fungus gnats (Bradysia spp...
2017: Frontiers in Microbiology
https://www.readbyqxmd.com/read/28144733/plant-mediated-effects-on-an-insect-pathogen-interaction-vary-with-intraspecific-genetic-variation-in-plant-defences
#12
Ikkei Shikano, Ketia L Shumaker, Michelle Peiffer, Gary W Felton, Kelli Hoover
Baculoviruses are food-borne microbial pathogens that are ingested by insects on contaminated foliage. Oxidation of plant-derived phenolics, activated by insect feeding, can directly interfere with infections in the gut. Since phenolic oxidation is an important component of plant resistance against insects, baculoviruses are suggested to be incompatible with plant defences. However, plants among and within species invest differently in a myriad of chemical and physical defences. Therefore, we hypothesized that among eight soybean genotypes, some genotypes would be able to maintain both high resistance against an insect pest and high efficacy of a baculovirus...
January 31, 2017: Oecologia
https://www.readbyqxmd.com/read/28140393/archaea-and-bacteria-mediate-the-effects-of-native-species-root-loss-on-fungi-during-plant-invasion
#13
Steven D Mamet, Eric G Lamb, Candace L Piper, Tristrom Winsley, Steven D Siciliano
Although invasive plants can drive ecosystem change, little is known about the directional nature of belowground interactions between invasive plants, native roots, bacteria, archaea and fungi. We used detailed bioinformatics and a recently developed root assay on soils collected in fescue grassland along a gradient of smooth brome (Bromus inermis Leyss) invasion to examine the links between smooth brome shoot litter and root, archaea, bacteria and fungal communities. We examined (1) aboveground versus belowground influences of smooth brome on soil microbial communities, (2) the importance of direct versus microbe-mediated impacts of plants on soil fungal communities, and (3) the web of roots, shoots, archaea, bacteria and fungi interactions across the A and B soil horizons in invaded and non-invaded sites...
January 31, 2017: ISME Journal
https://www.readbyqxmd.com/read/28139080/two-cultivated-legume-plants-reveal-the-enrichment-process-of-the-microbiome-in-the-rhizocompartments
#14
Xiao Xiao, Weimin Chen, Le Zong, Jun Yang, Shuo Jiao, Yanbing Lin, Entao Wang, Gehong Wei
The microbiomes of rhizocompartments (nodule endophytes, root endophytes, rhizosphere and root zone) in soybean and alfalfa were analyzed using high-throughput sequencing to investigate the interactions among legume species, microorganisms and soil types. A clear hierarchical filtration of microbiota by plants was observed in the four rhizocompartments-the nodule endosphere, root endosphere, rhizosphere and root zone-as demonstrated by significant variations in the composition of the microbial community in the different compartments...
January 31, 2017: Molecular Ecology
https://www.readbyqxmd.com/read/28127814/transport-capabilities-of-environmental-pseudomonads-for-sulfur-compounds
#15
Sarah Zerbs, Peter J Korajczyk, Philippe H Noirot, Frank R Collart
Sulfur is an essential element in plant rhizospheres and microbial activity plays a key role in increasing the biological availability of sulfur in soil environments. To better understand the mechanisms facilitating the exchange of sulfur-containing molecules in soil, we profiled the binding specificities of eight previously uncharacterized ABC transporter solute-binding proteins from plant-associated Pseudomonads. A high-throughput screening procedure indicated eighteen significant organosulfur binding ligands, with at least one high-quality screening hit for each protein target...
January 27, 2017: Protein Science: a Publication of the Protein Society
https://www.readbyqxmd.com/read/28126526/invasion-speeds-in-microbial-systems-with-toxin-production-and-quorum-sensing
#16
Sharon Bewick, Phillip P A Staniczenko, Bingtuan Li, David Karig, William F Fagan
The theory of invasions and invasion speeds has traditionally been studied in macroscopic systems. Surprisingly, microbial invasions have received less attention. Although microbes share many of the features associated with competition between larger-bodied organisms, they also exhibit distinctive behaviors that require new mathematical treatments to fully understand invasions in microbial systems. Most notable is the possibility for long-distance interactions, including competition between taxa mediated by diffusible toxins and cooperation among individuals of a single taxon using quorum sensing...
January 23, 2017: Journal of Theoretical Biology
https://www.readbyqxmd.com/read/28120374/confocal-microscopy-reveals-in-planta-dynamic-interactions-between-pathogenic-avirulent-and-non-pathogenic-pseudomonas-syringae-strains
#17
José S Rufián, Alberto P Macho, David S Corry, John Mansfield, Javier Ruiz-Albert, Dawn Arnold, Carmen R Beuzón
Recent advances in genomics and single-cell analysis have demonstrated the extraordinary complexity that microbial populations may reach within their hosts. Communities range from complex multispecies groups, to homogeneous populations differentiating into lineages through genetic or non-genetic mechanisms. Diversity within bacterial populations is recognised as a key driver of the evolution of animal pathogens. In plants, however, little is known about how interactions between different pathogenic and non-pathogenic variants within the host impacts on defence responses or how presence within a mixture may affect the development or the fate of each variant...
January 24, 2017: Molecular Plant Pathology
https://www.readbyqxmd.com/read/28115148/diclofop-methyl-affects-microbial-rhizosphere-community-and-induces-systemic-acquired-resistance-in-rice
#18
Si Chen, Xingxing Li, Michel Lavoie, Yujian Jin, Jiahui Xu, Zhengwei Fu, Haifeng Qian
Diclofop-methyl (DM), a widely used herbicide in food crops, may partly contaminate the soil surface of natural ecosystems in agricultural area and exert toxic effects at low dose to nontarget plants. Even though rhizosphere microorganisms strongly interact with root cells, little is known regarding their potential modulating effect on herbicide toxicity in plants. Here we exposed rice seedlings (Xiushui 63) to 100μg/L DM for 2 to 8days and studied the effects of DM on rice rhizosphere microorganisms, rice systemic acquired resistance (SAR) and rice-microorganisms interactions...
January 2017: Journal of Environmental Sciences (China)
https://www.readbyqxmd.com/read/28107731/natural-amelioration-of-zinc-oxide-nanoparticle-toxicity-in-fenugreek%C3%A2-trigonella-foenum-gracum-by-arbuscular-mycorrhizal-glomus-intraradices-secretion-of-glomalin
#19
Narges Ghasemi Siani, Seyfollah Fallah, Lok Raj Pokhrel, Ali Rostamnejadi
Owing to rising production and use of engineered nanoparticles (ENPs) in the myriad of consumer applications, ENPs are being released into the environment where their potential fate and effects have remained unclear. With naturally occurring arbuscular mycorrhizal fungus (AMF; Glomus intraradices) in soils, their influence (positive or negative) on ENPs toxicity in plants is not well documented. Herein, we investigated potential influence of AMF on the growth and development in fenugreek (Trigonella foenum-graecum) under varied Zinc oxide nanoparticles (ZnONPs) treatments (0, 125, 250, 375 and 500 μg g(-1))...
January 3, 2017: Plant Physiology and Biochemistry: PPB
https://www.readbyqxmd.com/read/28105572/proteome-wide-identification-of-iron-binding-proteins-of-xanthomonas-translucens-pv-undulosa-focus-on-secretory-virulent-proteins
#20
Ankita Sharma, Dixit Sharma, Shailender Kumar Verma
Xanthomonas translucens pv. undulosa (Xtu) causes Bacterial Leaf Streak disease in the staple food crops such as wheat and barley. The survival strategies of pathogen and host are determined by the complex interactions occurring between the host plants and the pathogenic microbes. Iron binding proteins are important in the plant-microbe interactions as they are indulged in enzyme catalysis, virulence, metabolic and transport activities. In the presented study, we have identified that ~9.8% of Xtu proteome possess iron binding sequence motifs...
February 2017: Biometals: An International Journal on the Role of Metal Ions in Biology, Biochemistry, and Medicine
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