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https://www.readbyqxmd.com/read/28732175/genome-wide-identification-functional-prediction-and-evolutionary-analysis-of-r2r3-myb-superfamily-in-brassica-napus
#1
Ali Hajiebrahimi, Hajar Owji, Shiva Hemmati
R2R3-MYBs are important transcription factors (TFs) in planta, involved in development and various stress conditions. Phylogenetic analysis showed the presence of 249 R2R3-MYB TFs in Brassica napus called BnaR2R3-MYBs, clustered into 38 clades. BnaR2R3-MYBs were distributed on 19 chromosomes of B. napus. Sixteen gene clusters were identified. BnaR2R3-MYBs were characterized by motif prediction, gene structure analysis and gene ontology. Evolutionary analysis revealed that BnaR2R3-MYBs are mainly formed as a result of whole genome duplication...
July 21, 2017: Genome Génome / Conseil National de Recherches Canada
https://www.readbyqxmd.com/read/28730304/novel-ribonuclease-activity-of-cusativin-from-cucumis-sativus-for-mapping-nucleoside-modifications-in-rna
#2
Balasubrahmanyam Addepalli, Sarah Venus, Priti Thakur, Patrick A Limbach
A recombinant ribonuclease, cusativin, was characterized for its cytidine-specific cleavage ability of RNA to map chemical modifications. Following purification of native cusativin protein as described before (Rojo et al. Planta 194:328, 17), partial amino acid sequencing was carried out to identify the corresponding protein coding gene in cucumber genome. Cloning and heterologous expression of the identified gene in Escherichia coli resulted in successful production of active protein as a C-terminal His-tag fusion protein...
July 20, 2017: Analytical and Bioanalytical Chemistry
https://www.readbyqxmd.com/read/28729859/transcriptomic-insight-in-the-control-of-legume-root-secondary-infection-by-the-sinorhizobium-meliloti-transcriptional-regulator-clr
#3
Lan Zou, Amandine Gastebois, Céline Mathieu-Demazière, Fernando Sorroche, Catherine Masson-Boivin, Jacques Batut, Anne-Marie Garnerone
The cAMP-dependent transcriptional regulator Clr of Sinorhizobium meliloti regulates the overall number of infection events on Medicago roots by a so-far unknown mechanism requiring smc02178, a Clr-target gene of unknown function. In order to shed light on the mode of action of Clr on infection and potentially reveal additional biological functions for Clr, we inventoried genomic Clr target genes by transcriptome profiling. We have found that Clr positively controls the synthesis of cAMP-dependent succinoglycan as well as the expression of genes involved in the synthesis of a so-far unknown polysaccharide compound...
2017: Frontiers in Microbiology
https://www.readbyqxmd.com/read/28729855/desirable-traits-of-a-good-biocontrol-agent-against-verticillium-wilt
#4
REVIEW
Silke Deketelaere, Lien Tyvaert, Soraya C França, Monica Höfte
The soil-borne fungus Verticillium causes serious vascular disease in a wide variety of annual crops and woody perennials. Verticillium wilt is notoriously difficult to control by conventional methods, so there is great potential for biocontrol to manage this disease. In this study we aimed to review the research about Verticillium biocontrol to get a better understanding of characteristics that are desirable in a biocontrol agent (BCA) against Verticillium wilt. We only considered studies in which the BCAs were tested on plants...
2017: Frontiers in Microbiology
https://www.readbyqxmd.com/read/28727810/cucumber-mosaic-virus-coat-protein-modulates-the-accumulation-of-2b-protein-and-antiviral-silencing-that-causes-symptom-recovery-in-planta
#5
Xiao-Peng Zhang, De-Shui Liu, Teng Yan, Xiao-Dong Fang, Kai Dong, Jin Xu, Ying Wang, Jia-Lin Yu, Xian-Bing Wang
Shoot apical meristems (SAM) are resistant to most plant viruses due to RNA silencing, which is restrained by viral suppressors of RNA silencing (VSRs) to facilitate transient viral invasion of the SAM. In many cases chronic symptoms and long-term virus recovery occur, but the underlying mechanisms are poorly understood. Here, we found that wild-type Cucumber mosaic virus (CMVWT) invaded the SAM transiently, but was subsequently eliminated from the meristems. Unexpectedly, a CMV mutant, designated CMVRA that harbors an alanine substitution in the N-terminal arginine-rich region of the coat protein (CP) persistently invaded the SAM and resulted in visible reductions in apical dominance...
July 20, 2017: PLoS Pathogens
https://www.readbyqxmd.com/read/28727279/characterization-of-two-homeodomain-transcription-factors-with-critical-but-distinct-roles-in-virulence-in-the-vascular-pathogen-verticillium-dahliae
#6
J L Sarmiento-Villamil, P Prieto, S J Klosterman, M D García-Pedrajas
Vascular wilt caused by Verticillium dahliae is a destructive disease that represents a chronic economic problem on crop production worldwide. In this work we characterized two new regulators of pathogenicity in this species. Vph1 (VDAG_06555) was identified in a candidate gene approach as a putative homolog of the transcription factor Ste12. Vhb1 (VDAG_08786), identified in a forward genetics approach, is similar to the homeobox transcription factor Htf1, reported as a regulator of conidiogenesis in several fungi...
July 20, 2017: Molecular Plant Pathology
https://www.readbyqxmd.com/read/28725003/distribution-of-salicifoline-in-freeze-fixed-stems-of-magnolia-kobus-as-observed-by-cryo-tof-sims
#7
Wakaba Okumura, Dan Aoki, Yasuyuki Matsushita, Masato Yoshida, Kazuhiko Fukushima
Alkaloids are basic nitrogen-containing chemicals that have important physiological and pharmacological characteristics. Many vascular plant species contain alkaloids, and their roles in planta are of interest. However, the detailed distribution of alkaloids remains unclear because of their low water solubility and low concentrations in plants. In this study, we visualized the distribution of salicifoline, a water-soluble quaternary ammonium alkaloid, in the freeze-fixed stems of Magnolia kobus by cryo time-of-flight secondary ion mass spectrometry...
July 19, 2017: Scientific Reports
https://www.readbyqxmd.com/read/28717027/regulation-of-the-calvin-benson-bassham-cycle-in-the-enigmatic-diatoms-biochemical-and-evolutionary-variations-on-an-original-theme
#8
REVIEW
Erik Jensen, Romain Clément, Stephen C Maberly, Brigitte Gontero
In Plantae, the Calvin-Benson-Bassham (CBB) cycle is highly regulated and most of its enzymes have been thoroughly studied. Since diatoms arose as a result of secondary endosymbiosis with one or more Plantae ancestors, their precise evolutionary history is enigmatic and complex resulting in biochemical variations on the original CBB cycle theme. The Rubisco Michaelis constant for CO2 is higher in diatoms than land plants and the nuclear-encoded Rubisco activase in Plantae is replaced by an analogous chloroplast-encoded CbbX (Calvin-Benson-Bassham protein X) in diatoms...
September 5, 2017: Philosophical Transactions of the Royal Society of London. Series B, Biological Sciences
https://www.readbyqxmd.com/read/28716182/atp-sensing-in-living-plant-cells-reveals-tissue-gradients-and-stress-dynamics-of-energy-physiology
#9
Valentina De Col, Philippe Fuchs, Thomas Nietzel, Marlene Elsässer, Chia Pao Voon, Alessia Candeo, Ingo Seeliger, Mark D Fricker, Christopher Grefen, Ian Max Møller, Andrea Bassi, Boon Leong Lim, Marco Zancani, Andreas J Meyer, Alex Costa, Stephan Wagner, Markus Schwarzländer
Growth and development of plants is ultimately driven by light energy captured through photosynthesis. ATP acts as universal cellular energy cofactor fuelling all life processes, including gene expression, metabolism, and transport. Despite a mechanistic understanding of ATP biochemistry, ATP dynamics in the living plant have been largely elusive. Here, we establish MgATP(2-) measurement in living plants using the fluorescent protein biosensor ATeam1.03-nD/nA. We generate Arabidopsis sensor lines and investigate the sensor in vitro under conditions appropriate for the plant cytosol...
July 18, 2017: ELife
https://www.readbyqxmd.com/read/28713404/genome-wide-identification-and-analysis-of-genes-conserved-between-japonica-and-indica-rice-cultivars-that-respond-to-low-temperature-stress-at-the-vegetative-growth-stage
#10
Manu Kumar, Yun-Shil Gho, Ki-Hong Jung, Seong-Ryong Kim
Cold stress is very detrimental to crop production. However, only a few genes in rice have been identified with known functions related to cold tolerance. To meet this agronomic challenge more effectively, researchers must take global approaches to select useful candidate genes and find the major regulatory factors. We used five Gene expression omnibus series data series of Affymetrix array data, produced with cold stress-treated samples from the NCBI Gene Expression Omnibus (http://www.ncbi.nlm.nih.gov/geo/), and identified 502 cold-inducible genes common to both japonica and indica rice cultivars...
2017: Frontiers in Plant Science
https://www.readbyqxmd.com/read/28712931/genome-wide-association-study-reveals-that-the-aquaporin-nip1-1-contributes-to-variation-in-hydrogen-peroxide-sensitivity-in-arabidopsis-thaliana
#11
Ayan Sadhukhan, Yuriko Kobayashi, Yuki Nakano, Satoshi Iuchi, Masatomo Kobayashi, Lingaraj Sahoo, Hiroyuki Koyama
Hydrogen peroxide (H2O2) is a reactive oxygen species that affects cell signaling in various plant defense responses, and induces programmed cell death. To identify the new components associated with H2O2 signaling and tolerance, we conducted a genome-wide association study (GWAS) on the root growth of 133 Arabidopsis thaliana accessions grown in the presence of toxic H2O2 levels. The most significant SNPs were associated with a cluster of chromosome 4 genes encoding an aquaporin NODULIN 26-LIKE INTRINSIC PROTEIN 1;1 (NIP1;1), an NB-ARC domain-containing disease resistance protein (AT4G19050), and a putative membrane lipoprotein (AT4G19070)...
July 13, 2017: Molecular Plant
https://www.readbyqxmd.com/read/28712496/engineering-molecular-immunity-against-plant-viruses
#12
Syed Shan-E-Ali Zaidi, Manal Tashkandi, Magdy M Mahfouz
Genomic engineering has been used to precisely alter eukaryotic genomes at the single-base level for targeted gene editing, replacement, fusion, and mutagenesis, and plant viruses such as Tobacco rattle virus have been developed into efficient vectors for delivering genome-engineering reagents. In addition to altering the host genome, these methods can target pathogens to engineer molecular immunity. Indeed, recent studies have shown that clustered regularly interspaced short palindromic repeats (CRISPR)/CRISPR-associated 9 (Cas9) systems that target the genomes of DNA viruses can interfere with viral activity and limit viral symptoms in planta, demonstrating the utility of this system for engineering molecular immunity in plants...
2017: Progress in Molecular Biology and Translational Science
https://www.readbyqxmd.com/read/28710280/the-assembly-of-the-plant-urease-activation-complex-and-the-essential-role-of-the-urease-accessory-protein-g-ureg-in-delivery-of-nickel-to-urease
#13
Till Myrach, Anting Zhu, Claus-Peter Witte
Urease is a ubiquitous nickel metalloenzyme. In plants, its activation requires three urease accessory proteins (UAPs), UreD, UreF, and UreG. In bacteria, the UAPs interact with urease and facilitate activation, which involves the channeling of two nickel ions into the active site. So far this process has not been investigated in eukaryotes. Using affinity pull-downs of Strep-tagged UAPs from Arabidopsis and rice transiently expressed in planta, we demonstrate that a urease:UreD:UreF:UreG complex exists in plants and show its stepwise assembly...
July 14, 2017: Journal of Biological Chemistry
https://www.readbyqxmd.com/read/28701886/overexpression-of-ginseng-ugt72al1-causes-organ-fusion-in-the-axillary-leaf-branch-of-arabidopsis
#14
Ngoc Quy Nguyen, Ok Ran Lee
BACKGROUND: Glycosylation of natural compounds increases the diversity of secondary metabolites. Glycosylation steps are implicated not only in plant growth and development, but also in plant defense responses. Although the activities of uridine-dependent glycosyltransferases (UGTs) have long been recognized, and genes encoding them in several higher plants have been identified, the specific functions of UGTs in planta remain largely unknown. METHODS: Spatial and temporal patterns of gene expression were analyzed by quantitative reverse transcription (qRT)-polymerase chain reaction (PCR) and GUS histochemical assay...
July 2017: Journal of Ginseng Research
https://www.readbyqxmd.com/read/28701884/cis-prenyltransferase-interacts-with-a-nogo-b-receptor-homolog-for-dolichol-biosynthesis-in-panax-ginseng-meyer
#15
Ngoc Quy Nguyen, Sang-Choon Lee, Tae-Jin Yang, Ok Ran Lee
BACKGROUND: Prenyltransferases catalyze the sequential addition of isopentenyl diphosphate units to allylic prenyl diphosphate acceptors and are classified as either trans-prenyltransferases (TPTs) or cis-prenyltransferases (CPTs). The functions of CPTs have been well characterized in bacteria, yeast, and mammals compared to plants. The characterization of CPTs also has been less studied than TPTs. In the present study, molecular cloning and functional characterization of a CPT from a medicinal plant, Panax ginseng Mayer were addressed...
July 2017: Journal of Ginseng Research
https://www.readbyqxmd.com/read/28699864/the-predominant-circular-form-of-avocado-sunblotch-viroid-accumulates-in-planta-as-a-free-rna-adopting-a-rod-shaped-secondary-structure-unprotected-by-tightly-bound-host-proteins
#16
Amparo López-Carrasco, Ricardo Flores
Avocado sunblotch viroid (ASBVd), the type member of the family Avsunviroidae, replicates and accumulates in chloroplasts. Whether this minimal non-protein-coding circular RNA of 246-250 nt exists in vivo as a free nucleic acid or closely associated with host proteins remains unknown. To tackle this issue, the secondary structures of the monomeric circular (mc) (+) and (-) strands of ASBVd have been examined in silico by searching those of minimal free energy, and in vitro at single-nucleotide resolution by selective 2'-hydroxyl acylation analysed by primer extension (SHAPE)...
July 12, 2017: Journal of General Virology
https://www.readbyqxmd.com/read/28699375/novel-insights-into-tat-pathway-in-xanthomonas-oryzae-pv-oryzae-stress-adaption-and-virulence-identification-and-characterization-of-tat-dependent-translocation-proteins
#17
Guichun Wu, Panpan Su, Bo Wang, Yuqiang Zhang, Guoliang Qian, Fengquan Liu
Xanthomonas oryzae pv. oryzae, an economically important bacterium, causes a serious disease in rice production worldwide called bacterial leaf blight. How X. oryzae pv. oryzae infects rice and causes symptoms remains incompletely understood. Our earlier works demonstrated that the twin-arginine translocation (Tat) pathway plays an vital role in X. oryzae pv. oryzae fitness and virulence but the underlying mechanism is unknown. In this study, we used strain PXO99(A) as a working model, and identified 15 potential Tat-dependent translocation proteins (TDTP) by using comparative proteomics and bioinformatics analyses...
July 12, 2017: Phytopathology
https://www.readbyqxmd.com/read/28698822/in-vivo-function-of-pg%C3%AE-glu-1-in-the-release-of-acetophenones-in-white-spruce
#18
Melissa H Mageroy, Denis Lachance, Sharon Jancsik, Geneviève Parent, Armand Séguin, John Mackay, Joerg Bohlmann
Eastern spruce budworm (Choristoneura fumiferiana Clemens) (ESBW) is a major forest pest which feeds on young shoots of white spruce (Picea glauca) and can cause landscape level economic and ecological losses. Release of acetophenone metabolites, piceol and pungenol, from their corresponding glycosides, picein and pungenin, can confer natural resistance of spruce to ESBW. A beta-glucosidase gene, Pgβglu-1, was recently discovered and the encoded enzyme was characterized in vitro to function in the release of the defensive acetophenone aglycons...
2017: PeerJ
https://www.readbyqxmd.com/read/28694440/phylogenomic-analysis-of-mkks-and-mapks-from-16-legumes-and-detection-of-interacting-pairs-in-chickpea-divulge-mapk-signalling-modules
#19
Savithri Purayannur, Kamal Kumar, Vemula Chandra Kaladhar, Praveen Kumar Verma
The mitogen-activated protein kinase (MAPK)-mediated phosphorylation cascade is a vital component of plant cellular signalling. Despite this, MAPK signalling cascade is less characterized in crop legumes. To fill this void, we present here a comprehensive phylogeny of MAPK kinases (MKKs) and MAPKs identified from 16 legume species belonging to genistoid (Lupinus angustifolius), dalbergioid (Arachis spp.), phaseoloid (Glycine max, Cajanus cajan, Phaseolus vulgaris, and Vigna spp.), and galegoid (Cicer arietinum, Lotus japonicus, Medicago truncatula, Pisum sativum, Trifolium spp...
July 10, 2017: Scientific Reports
https://www.readbyqxmd.com/read/28694096/a-role-for-random-humidity-dependent-epiphytic-growth-prior-to-invasion-of-wheat-by-zymoseptoria-tritici
#20
Helen N Fones, Chris J Eyles, William Kay, Josh Cowper, Sarah J Gurr
Zymoseptoria tritici causes Septoria leaf blotch of wheat. The prevailing paradigm of the Z. tritici-wheat interaction assumes fungal ingress through stomata within 24-48h, followed by days of symptomless infection. This is extrapolated from studies testing the mode of fungal ingress under optimal infection conditions. Here, we explicitly assess the timing of entry, using GFP-tagged Z. tritici. We show that early entry is comparatively rare, and extended epiphytic growth possible. We test the hypotheses that our data diverge from earlier studies due to: i...
July 8, 2017: Fungal Genetics and Biology: FG & B
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