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https://www.readbyqxmd.com/read/29782021/exploring-the-root-microbiome-extracting-bacterial-community-data-from-the-soil-rhizosphere-and-root-endosphere
#1
Tuesday Simmons, Daniel F Caddell, Siwen Deng, Devin Coleman-Derr
The intimate interaction between plant host and associated microorganisms is crucial in determining plant fitness, and can foster improved tolerance to abiotic stresses and diseases. As the plant microbiome can be highly complex, low-cost, high-throughput methods such as amplicon-based sequencing of the 16S rRNA gene are often preferred for characterizing its microbial composition and diversity. However, the selection of appropriate methodology when conducting such experiments is critical for reducing biases that can make analysis and comparisons between samples and studies difficult...
May 2, 2018: Journal of Visualized Experiments: JoVE
https://www.readbyqxmd.com/read/29780376/diversity-novelty-and-antimicrobial-activity-of-endophytic-actinobacteria-from-mangrove-plants-in-beilun-estuary-national-nature-reserve-of-guangxi-china
#2
Zhong-Ke Jiang, Li Tuo, Da-Lin Huang, Ilya A Osterman, Anton P Tyurin, Shao-Wei Liu, Dmitry A Lukyanov, Petr V Sergiev, Olga A Dontsova, Vladimir A Korshun, Fei-Na Li, Cheng-Hang Sun
Endophytic actinobacteria are one of the important pharmaceutical resources and well known for producing different types of bioactive substances. Nevertheless, detection of the novelty, diversity, and bioactivity on endophytic actinobacteria isolated from mangrove plants are scarce. In this study, five different mangrove plants, Avicennia marina, Aegiceras corniculatum, Kandelia obovota, Bruguiera gymnorrhiza , and Thespesia populnea , were collected from Beilun Estuary National Nature Reserve in Guangxi Zhuang Autonomous Region, China...
2018: Frontiers in Microbiology
https://www.readbyqxmd.com/read/29780371/comparative-metatranscriptomics-of-wheat-rhizosphere-microbiomes-in-disease-suppressive-and-non-suppressive-soils-for-rhizoctonia-solani-ag8
#3
Helen L Hayden, Keith W Savin, Jenny Wadeson, Vadakattu V S R Gupta, Pauline M Mele
The soilborne fungus Rhizoctonia solani anastomosis group (AG) 8 is a major pathogen of grain crops resulting in substantial production losses. In the absence of resistant cultivars of wheat or barley, a sustainable and enduring method for disease control may lie in the enhancement of biological disease suppression. Evidence of effective biological control of R. solani AG8 through disease suppression has been well documented at our study site in Avon, South Australia. A comparative metatranscriptomic approach was applied to assess the taxonomic and functional characteristics of the rhizosphere microbiome of wheat plants grown in adjacent fields which are suppressive and non-suppressive to the plant pathogen R...
2018: Frontiers in Microbiology
https://www.readbyqxmd.com/read/29779374/molecularly-imprinted-polymers-for-compound-specific-isotope-analysis-of-polar-organic-micropollutants-in-aquatic-environments
#4
Rani Bakkour, Jakov Bolotin, Börje Sellergren, Thomas B Hofstetter
Compound-specific isotope analysis (CSIA) of polar organic micropollutants in environmental waters requires a processing of large sample volumes to obtain the required analyte masses for analysis by gas chromatography / isotope-ratio mass spectrometry (GC/IRMS). However, the accumulation of organic matter of unknown isotopic composition in standard enrichment procedures currently compromises the accurate determination of isotope ratios. We explored the use of molecularly-imprinted polymers (MIPs) for selective analyte enrichment for 13C/12C and 15N/14N ratio measurements by GC/IRMS using 1H-benzotriazole, a typical corrosion inhibitor in dishwashing detergents, as example of a widely detected polar organic micropollutant...
May 20, 2018: Analytical Chemistry
https://www.readbyqxmd.com/read/29778686/methane-correction-factors-for-estimating-emissions-from-aerobic-wastewater-treatment-facilities-based-on-field-data-in-mexico-and-on-literature-review
#5
A Noyola, M G Paredes, L P Güereca, L T Molina, M Zavala
Wastewater treatment (WWT) may be an important source of methane (CH4 ), a greenhouse gas with significant global warming potential. Sources of CH4 emissions from WWT facilities can be found in the water and in the sludge process lines. Among the methodologies for estimating CH4 emissions inventories from WWT, the more adopted are the guidelines of the Intergovernmental Panel on Climate Change (IPCC), which recommends default emission factors (Tier 1) depending on WWT systems. Recent published results show that well managed treatment facilities may emit CH4 , due to dissolved CH4 in the influent wastewater; in addition, biological nutrient removal also will produce this gas in the anaerobic (or anoxic) steps...
May 17, 2018: Science of the Total Environment
https://www.readbyqxmd.com/read/29778643/inheritance-of-co-edited-genes-by-crispr-based-targeted-nucleotide-substitutions-in-rice
#6
Zenpei Shimatani, Ushio Fujikura, Hisaki Ishii, Yusuke Matsui, Minoru Suzuki, Yuki Ueke, Ken-Ichiro Taoka, Rie Terada, Keiji Nishida, Akihiko Kondo
The CRISPR/Cas9 system is a revolutionary genome-editing tool for directed gene editing in various organisms. Cas9 variants can be applied as molecular homing devices when combined with various functional effectors such as transcriptional activators or DNA modification enzymes. Target-AID is a synthetic complex of nuclease deficient Cas9 fused to an activation-induced cytidine deaminase (AID) that enables targeted nucleotide substitution (C to T or G to A). We previously demonstrated that the introduction of desired point mutations into target genes by Target-AID confers herbicide tolerance to rice callus...
April 25, 2018: Plant Physiology and Biochemistry: PPB
https://www.readbyqxmd.com/read/29777803/an-isolate-of-potato-virus-x-capsid-protein-from-n-benthamiana-insights-from-homology-modeling-and-molecular-dynamics-simulation
#7
Neda Esfandiari, Yahya Sefidbakht
Since Potato Virus X (PVX) is easily transmitted mechanically between their hosts, its control is difficult. We have previously reported new isolate of this virus (PVX-Iran, GenBank Accession number FJ461343). However, the molecular basis of resistance breaking activity and its relation to capsid protein structure are still not well-understood. SDS-PAGE, ELISA, Western blot and RT-PCR molecular examinations were performed on the inoculated plants Nicotiana benthamiana. The pathological symptoms were related to the PVX isolate...
May 16, 2018: International Journal of Biological Macromolecules
https://www.readbyqxmd.com/read/29777000/nmt1-and-nmt3-n-methyltransferase-activity-is-critical-to-lipid-homeostasis-morphogenesis-and-reproduction
#8
Weihua Chen, Hooman Salari, Matthew C Taylor, Ricarda Jost, Oliver Berkowitz, Russell Barrow, Deyun Qiu, Remi Branco, Josette Masle
Phosphatidylcholine (PC) is a major membrane phospholipid and a precursor for most signalling molecules. Understanding its synthesis is important for improving plant growth, nutritional value and resistance to stress. PC synthesis is complex, involving several interconnected pathways, one of which proceeds from serine-derived phosphoethanolamine (PEA) to form phosphocholine (PCho) through three sequential phospho-base methylations catalysed by phosphoethanolamine N-methyltransferases (PEAMTs). The contribution of this pathway to the production of PC and plant growth has been a matter of some debate...
May 18, 2018: Plant Physiology
https://www.readbyqxmd.com/read/29775926/chlorophyll-a-%C3%AF-uorescence-and-transcriptome-reveal-the-toxicological-effects-of-bisphenol-a-on-an-invasive-cyanobacterium-cylindrospermopsis-raciborskii
#9
Rong Xiang, Junqiong Shi, Hongbo Zhang, Congcong Dong, Li Liu, JunKe Fu, Xinyu He, Yanjun Yan, Zhongxing Wu
Bisphenol A has attracted worldwide attention due to its harmful effects on humans, animals and plants. In this study, the toxicological effects of BPA on Cylindrospermopsis raciborskii were assessed based on chlorophyll a fluorescence and transcriptome analyses. The results showed that the growth of C. raciborskii was significantly inhibited when BPA exceeded 0.1 mg L-1 . A marked rise of phase J was observed at a concentration greater than 0.1 mg L-1 , while a K phase appeared at 20 mg L-1 . The chlorophyll a fluorescence parameters of RC/CS0 , F0 , φP0 , φE0 , and ψ0 , underwent a significant decline under all treatments of BPA, whereas a significant increase in both VJ and M0 occurred under all concentrations of BPA...
May 9, 2018: Aquatic Toxicology
https://www.readbyqxmd.com/read/29774547/petunia-as-model-for-elucidating-adventitious-root-formation-and-mycorrhizal-symbiosis-at-the-nexus-of-physiology-genetics-microbiology-and-horticulture
#10
Uwe Druege, Philipp Franken
Adventitious root formation in cuttings and establishment of arbuscular mycorrhizal symbiosis reflect the enormous plasticity of plants and are key factors in the efficient and sustainable clonal propagation and production of ornamental crops. Based on the high importance of Petunia hybrida for the European and US annual bedding plant markets and its suitability as a model for basic plant sciences, petunia has been established as an experimental system for elucidating the molecular and physiological processes underlying adventitious root formation and mycorrhizal symbiosis...
May 17, 2018: Physiologia Plantarum
https://www.readbyqxmd.com/read/29774041/report-on-the-current-inventory-of-the-toolbox-for-plant-cell-wall-analysis-proteinaceous-and-small-molecular-probes
#11
REVIEW
Maja G Rydahl, Aleksander R Hansen, Stjepan K Kračun, Jozef Mravec
Plant cell walls are highly complex structures composed of diverse classes of polysaccharides, proteoglycans, and polyphenolics, which have numerous roles throughout the life of a plant. Significant research efforts aim to understand the biology of this cellular organelle and to facilitate cell-wall-based industrial applications. To accomplish this, researchers need to be provided with a variety of sensitive and specific detection methods for separate cell wall components, and their various molecular characteristics in vitro as well as in situ ...
2018: Frontiers in Plant Science
https://www.readbyqxmd.com/read/29774018/the-invasive-brazilian-pepper-tree-schinus-terebinthifolius-is-colonized-by-a-root-microbiome-enriched-with-alphaproteobacteria-and-unclassified-spartobacteria
#12
Karim Dawkins, Nwadiuto Esiobu
Little is known about the rhizosphere microbiome of the Brazilian pepper tree (BP) - a noxious category 1 invasive plant inducing an enormous economic and ecological toll in Florida. Some invasive plants have been shown to drastically change the soil microbiome compared to other native plants. The rhizobacteria community structure of BP, two Florida native plants ( Hamelia patens and Bidens alba ) and bulk soils were characterized across six geographical sites. Although all 19 well-known and 10 poorly described phyla were observed in all plant rhizospheres, BP contained the least total bacterial abundance (OTUs) with a distinct bacteria community structure and clustering patterns differing significantly (pCOA and PERMANOVA) from the natives and bulk soil...
2018: Frontiers in Microbiology
https://www.readbyqxmd.com/read/29773992/functional-analysis-of-rna-interference-related-soybean-pod-borer-lepidoptera-genes-based-on-transcriptome-sequences
#13
Fanli Meng, Mingyu Yang, Yang Li, Tianyu Li, Xinxin Liu, Guoyue Wang, Zhanchun Wang, Xianhao Jin, Wenbin Li
RNA interference (RNAi) is useful for controlling pests of agriculturally important crops. The soybean pod borer (SPB) is the most important soybean pest in Northeastern Asia. In an earlier study, we confirmed that the SPB could be controlled via transgenic plant-mediated RNAi. Here, the SPB transcriptome was sequenced to identify RNAi-related genes, and also to establish an RNAi-of-RNAi assay system for evaluating genes involved in the SPB systemic RNAi response. The core RNAi genes, as well as genes potentially involved in double-stranded RNA (dsRNA) uptake were identified based on SPB transcriptome sequences...
2018: Frontiers in Physiology
https://www.readbyqxmd.com/read/29772774/selected-plant-metabolites-involved-in-oxidation-reduction-processes-during-bud-dormancy-and-ontogenetic-development-in-sweet-cherry-buds-prunus-avium-l
#14
Susanne Baldermann, Thomas Homann, Susanne Neugart, Frank-M Chmielewski, Klaus-Peter Götz, Kristin Gödeke, Gerd Huschek, Getrud E Morlock, Harshadrai M Rawel
Many biochemical processes are involved in regulating the consecutive transition of different phases of dormancy in sweet cherry buds. An evaluation based on a metabolic approach has, as yet, only been partly addressed. The aim of this work, therefore, was to determine which plant metabolites could serve as biomarkers for the different transitions in sweet cherry buds. The focus here was on those metabolites involved in oxidation-reduction processes during bud dormancy, as determined by targeted and untargeted mass spectrometry-based methods...
May 17, 2018: Molecules: a Journal of Synthetic Chemistry and Natural Product Chemistry
https://www.readbyqxmd.com/read/29772685/the-emergence-of-endophytic-microbes-and-their-biological-promise
#15
Gary Strobel
As is true with animal species, plants also have an associated microflora including endophytes as well as microbes associated with the phyllosphere and rhizosphere (plant surfaces) and this is considered the plant microbiome. However, those organisms within virtually all tissues and organs of the plant are known as endophytes. Most often fungi are the most frequently recovered endophytes from plant tissues, but bacterial forms generally occur in greater numbers, but not in species varieties. The exact biological/biochemical role of the endophyte in the plant and how it interacts with the plant and other endophytes and plant associated organisms has not been intensely and carefully examined...
May 16, 2018: Journal of Fungi (Basel, Switzerland)
https://www.readbyqxmd.com/read/29771666/robust-adp-design-for-continuous-time-nonlinear-systems-with-output-constraints
#16
Bo Fan, Qinmin Yang, Xiaoyu Tang, Youxian Sun
In this paper, a novel robust adaptive dynamic programming (RADP)-based control strategy is presented for the optimal control of a class of output-constrained continuous-time unknown nonlinear systems. Our contribution includes a step forward beyond the usual optimal control result to show that the output of the plant is always within user-defined bounds. To achieve the new results, an error transformation technique is first established to generate an equivalent nonlinear system, whose asymptotic stability guarantees both the asymptotic stability and the satisfaction of the output restriction of the original system...
June 2018: IEEE Transactions on Neural Networks and Learning Systems
https://www.readbyqxmd.com/read/29771527/protoilludane-illudalane-and-botryane-sesquiterpenoids-from-the-endophytic-fungus-phomopsis-sp-tj507a
#17
Shuangshuang Xie, Ye Wu, Yuben Qiao, Yi Guo, Jianping Wang, Zhengxi Hu, Qing Zhang, Xiaonian Li, Jinfeng Huang, Qun Zhou, Zengwei Luo, Junjun Liu, Hucheng Zhu, Yongbo Xue, Yonghui Zhang
To explore the chemical diversity of metabolites from endophytic fungi, the strain Phomopsis sp. TJ507A, isolated from the medicinal plant Phyllanthus glaucus, was investigated. A 2,3- seco-protoilludane-type sesquiterpenoid (1), eight protoilludane-type sesquiterpenoids (2-9), four illudalane-type sesquiterpenoids (10a/10b, 11, and 12), and a botryane-type sesquiterpenoid (13) in addition to seven known sesquiterpenoids (14-20) were identified from the liquid culture of the fungus. Structures of the isolated compounds, including their absolute configurations, were elucidated based on extensive spectroscopic analyses, a modified Mosher analysis, electronic circular dichroism (ECD) calculations, and [Rh2 (OCOCF3 )4 ]-induced ECD spectra as well as X-ray crystallographic analyses...
May 17, 2018: Journal of Natural Products
https://www.readbyqxmd.com/read/29771294/the-maize-lilliputian1-lil1-gene-encoding-a-brassinosteroid-cytochrome-p450-c-6-oxidase-is-involved-in-plant-growth-and-drought-response
#18
Giulia Castorina, Martina Persico, Massimo Zilio, Stefano Sangiorgio, Laura Carabelli, Gabriella Consonni
Background and Aims: Brassinosteroids (BRs) are plant hormones involved in many developmental processes as well as in plant-environment interactions. Their role was investigated in this study through the analysis of lilliputian1-1 (lil1-1), a dwarf mutant impaired in BR biosynthesis in maize (Zea mays). Methods: We isolated lil1-1 through transposon tagging in maize. The action of lil1 was investigated through morphological and genetic analysis. Moreover, by comparing lil1-1 mutant and wild-type individuals grown under drought stress, the effect of BR reduction on the response to drought stress was examined...
May 16, 2018: Annals of Botany
https://www.readbyqxmd.com/read/29770273/westwards-and-northwards-dispersal-of-triosteum-himalayanum-caprifoliaceae-from-the-hengduan-mountains-region-based-on-chloroplast-dna-phylogeography
#19
Hai-Rui Liu, Qing-Bo Gao, Fa-Qi Zhang, Gulzar Khan, Shi-Long Chen
The varying topography and environment that resulted from paleoorogeny and climate fluctuations of the Himalaya-Hengduan Mountains (HHM) areas had a considerable impact on the evolution of biota during the Quaternary. To understand the phylogeographic pattern and historical dynamics of Triosteum himalayanum (Caprifoliaceae), we sequenced three chloroplast DNA fragments ( rbcL-accD , rps15-ycf1 , and trnH-psbA ) from 238 individuals representing 20 populations. Nineteen haplotypes (H1-H19) were identified based on 23 single-site mutations and eight indels...
2018: PeerJ
https://www.readbyqxmd.com/read/29769592/unsaturation-of-vapour-pressure-inside-leaves-of-two-conifer-species
#20
Lucas A Cernusak, Nerea Ubierna, Michael W Jenkins, Steven R Garrity, Thom Rahn, Heath H Powers, David T Hanson, Sanna Sevanto, Suan Chin Wong, Nate G McDowell, Graham D Farquhar
Stomatal conductance (gs ) impacts both photosynthesis and transpiration, and is therefore fundamental to the global carbon and water cycles, food production, and ecosystem services. Mathematical models provide the primary means of analysing this important leaf gas exchange parameter. A nearly universal assumption in such models is that the vapour pressure inside leaves (ei ) remains saturated under all conditions. The validity of this assumption has not been well tested, because so far ei cannot be measured directly...
May 16, 2018: Scientific Reports
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