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Plant Flux analysis

Bernardo Duarte, Maria Teresa Cabrita, Carla Gameiro, Ana Rita Matos, Rita Godinho, João Carlos Marques, Isabel Caçador
A profound analysis of A. tripolium photochemical traits under salinity exposure is lacking in the literature, with very few references focusing on its fatty acid profile role in photophysiology. To address this, the deep photochemical processes were evaluated by Pulse Amplitude Modulated (PAM) Fluorometry coupled with a discrimination of its leaf fatty acid profile. Plants exposed to 125-250 mM NaCl showed higher photochemical light harvesting efficiencies and lower energy dissipation rates. under higher NaCl exposure, there is evident damage of the oxygen evolving complexes (OECs)...
October 17, 2016: Plant Biology
Perrin H Beatty, Matthias S Klein, Jeffrey J Fischer, Ian A Lewis, Douglas G Muench, Allen G Good
A comprehensive understanding of plant metabolism could provide a direct mechanism for improving nitrogen use efficiency (NUE) in crops. One of the major barriers to achieving this outcome is our poor understanding of the complex metabolic networks, physiological factors, and signaling mechanisms that affect NUE in agricultural settings. However, an exciting collection of computational and experimental approaches has begun to elucidate whole-plant nitrogen usage and provides an avenue for connecting nitrogen-related phenotypes to genes...
October 10, 2016: Plants (Basel, Switzerland)
Rémi Peyraud, Ludovic Cottret, Lucas Marmiesse, Jérôme Gouzy, Stéphane Genin
Bacterial pathogenicity relies on a proficient metabolism and there is increasing evidence that metabolic adaptation to exploit host resources is a key property of infectious organisms. In many cases, colonization by the pathogen also implies an intensive multiplication and the necessity to produce a large array of virulence factors, which may represent a significant cost for the pathogen. We describe here the existence of a resource allocation trade-off mechanism in the plant pathogen R. solanacearum. We generated a genome-scale reconstruction of the metabolic network of R...
October 2016: PLoS Pathogens
Vishal Kumar, Mehak Baweja, Puneet K Singh, Pratyoosh Shukla
Microorganisms play a crucial role in the sustainability of the various ecosystems. The characterization of various interactions between microorganisms and other biotic factors is a necessary footstep to understand the association and functions of microbial communities. Among the different microbial interactions in an ecosystem, plant-microbe interaction plays an important role to balance the ecosystem. The present review explores plant-microbe interactions using gene editing and system biology tools toward the comprehension in improvement of plant traits...
2016: Frontiers in Plant Science
Jing Zhang, Yan-Bo Huo, Yan Liu, Jun-Tao Feng, Zhi-Qing Ma, Chuan-Shu Zhu, Xing Zhang
Tripterygium wilfordii Hook. f. is the traditional medicinal plants in China. Triptolide, wilforgine, and wilforine are the bioactive compounds in T. wilfordii. In this study, the contents of three metabolites and transcription levels of 21 genes involved in three metabolites biosynthesis in T. wilfordii were examined using high-performance liquid chromatography and reverse transcription PCR after application of methyl jasmonate (MeJA) on hairy roots in time course experiment (3-24 h). The results indicated that application of MeJA inhibited triptolide accumulation and promoted wilforgine and wilforine metabolites biosynthesis...
September 21, 2016: Journal of Asian Natural Products Research
Shin-Nosuke Hashida, Taketo Itami, Kentaro Takahara, Takayuki Hirabayashi, Hirofumi Uchimiya, Maki Kawai-Yamada
NAD is a well-known co-enzyme that mediates hundreds of redox reactions and is the basis of various processes regulating cell responses to different environmental and developmental cues. The regulatory mechanism that determines the amount of cellular NAD and the rate of NAD metabolism remains unclear. We created Arabidopsis thaliana plants overexpressing the NAD synthase (NADS) gene that participates in the final step of NAD biosynthesis. NADS overexpression enhanced the activity of NAD biosynthesis but not the amounts of NAD(+), NADH, NADP(+), or NADPH...
September 1, 2016: Plant & Cell Physiology
Martin Blaser, Ralf Conrad
While the structure of microbial communities can nowadays be determined by applying molecular analytical tools to soil samples, microbial function can usually only be determined by physiological experiments requiring incubation of samples. However, analysis of stable isotope fractionation might be able to analyse microbial function without incubation in soil samples. We describe the limitations of diagnosing and quantifying carbon flux pathways in soil by using the determination of stable carbon isotope composition in soil compounds and emphasize the importance of determining stable isotope fractionation factors for defined biochemical pathways...
October 2016: Current Opinion in Biotechnology
Jinxin Che, Junling Shi, Zhenhong Gao, Yan Zhang
Alternaria sp. MG1, an endophytic fungus previously isolated from Merlot grape, produces resveratrol from glucose, showing similar metabolic flux to the phenylpropanoid biosynthesis pathway, currently found solely in plants. In order to identify the resveratrol biosynthesis pathway in this strain at the gene level, de novo transcriptome sequencing was conducted using Illumina paired-end sequencing. A total of 22,954,434 high-quality reads were assembled into contigs and 18,570 unigenes were identified. Among these unigenes, 14,153 were annotated in the NCBI non-redundant protein database and 5341 were annotated in the Swiss-Prot database...
2016: Frontiers in Microbiology
Abigail L S Swann, Forrest M Hoffman, Charles D Koven, James T Randerson
Rising atmospheric CO2 will make Earth warmer, and many studies have inferred that this warming will cause droughts to become more widespread and severe. However, rising atmospheric CO2 also modifies stomatal conductance and plant water use, processes that are often are overlooked in impact analysis. We find that plant physiological responses to CO2 reduce predictions of future drought stress, and that this reduction is captured by using plant-centric rather than atmosphere-centric metrics from Earth system models (ESMs)...
September 6, 2016: Proceedings of the National Academy of Sciences of the United States of America
Ciera C Martinez, Daniel Koenig, Daniel H Chitwood, Neelima R Sinha
The spatiotemporal localization of the plant hormone auxin acts as a positional cue during early leaf and flower organogenesis. One of the main contributors to auxin localization is the auxin efflux carrier PIN-FORMED1 (PIN1). Phylogenetic analysis has revealed that PIN1 genes are split into two sister clades; PIN1 and the relatively uncharacterized Sister-Of-PIN1 (SoPIN1). In this paper we identify entire-2 as a loss-of-function SlSoPIN1a (Solyc10g078370) mutant in Solanum lycopersicum. The entire-2 plants are unable to specify proper leaf initiation leading to a frequent switch from the wild type spiral phyllotactic pattern to distichous and decussate patterns...
August 20, 2016: Developmental Biology
Chun-Juan Dong, Ning Cao, Liang Li, Qing-Mao Shang
Salicylic acid (SA) is an important phytohormone that plays vital regulatory roles in plant growth, development, and stress responses. However, studies on the molecular mechanism of SA, especially during the early SA responses, are lagging behind. In this study, we initiated a comprehensive isobaric tag for relative and absolute quantitation (iTRAQ)-based proteomic analysis to explore the early and late SA-responsive proteins in leaves of cucumber (Cucumis sativus L.) seedlings. Upon SA application through the roots, endogenous SA accumulated in cucumber leaves...
2016: PloS One
Tingting Li, Maarit Raivonen, Pavel Alekseychik, Mika Aurela, Annalea Lohila, Xunhua Zheng, Qing Zhang, Guocheng Wang, Ivan Mammarella, Janne Rinne, Lijun Yu, Baohua Xie, Timo Vesala, Wen Zhang
Boreal/arctic wetlands are dominated by diverse plant species, which vary in their contribution to CH4 production, oxidation and transport processes. Earlier studies have often lumped the processes all together, which may induce large uncertainties into the results. We present a novel model, which includes three vegetation classes and can be used to simulate CH4 emissions from boreal and arctic treeless wetlands. The model is based on an earlier biogeophysical model, CH4MODwetland. We grouped the vegetation as graminoids, shrubs and Sphagnum and recalibrated the vegetation parameters according to their different CH4 production, oxidation and transport capacities...
August 10, 2016: Science of the Total Environment
Quentin Schorpp, Catharina Riggers, Dominika Lewicka-Szczebak, Anette Giesemann, Reinhard Well, Stefan Schrader
RATIONALE: The gaseous N losses mediated by soil denitrifiers are generally inferred by measuring N2 O fluxes, but should include associated N2 emissions, which may be affected by abiotic soil characteristics and biotic interactions. Soil fauna, particularly anecic earthworms and euedaphic collembola, alter the activity of denitrifiers, creating hotspots for denitrification. These soil fauna are abundant in perennial agroecosystems intended to contribute to more sustainable production of bioenergy...
November 15, 2016: Rapid Communications in Mass Spectrometry: RCM
Ulrike Baetz, Cornelia Eisenach, Takayuki Tohge, Enrico Martinoia, Alexis De Angeli
The ability to control the cytoplasmic environment is a prerequisite for plants to cope with changing environmental conditions. During salt stress, for instance, Na(+) and Cl(-) are sequestered into the vacuole to help maintain cytosolic ion homeostasis and avoid cellular damage. It has been observed that vacuolar ion uptake is tied to fluxes across the plasma membrane. The coordination of both transport processes and relative contribution to plant adaptation, however, is still poorly understood. To investigate the link between vacuolar anion uptake and whole-plant ion distribution during salinity, we used mutants of the only vacuolar Cl(-) channel described to date: the Arabidopsis (Arabidopsis thaliana) ALMT9...
October 2016: Plant Physiology
Jason J Terpolilli, Shyam K Masakapalli, Ramakrishnan Karunakaran, Isabel U C Webb, Rob Green, Nicholas J Watmough, Nicholas J Kruger, R George Ratcliffe, Philip S Poole
UNLABELLED: Within legume root nodules, rhizobia differentiate into bacteroids that oxidize host-derived dicarboxylic acids, which is assumed to occur via the tricarboxylic acid (TCA) cycle to generate NAD(P)H for reduction of N2 Metabolic flux analysis of laboratory-grown Rhizobium leguminosarum showed that the flux from [(13)C]succinate was consistent with respiration of an obligate aerobe growing on a TCA cycle intermediate as the sole carbon source. However, the instability of fragile pea bacteroids prevented their steady-state labeling under N2-fixing conditions...
October 15, 2016: Journal of Bacteriology
Aiqing Zhang, Wei He, Huimin Shi, Xiaodan Huang, Guozhong Ji
The compounds, which are obtained from natural plants or microbes may offer potential as one of the strategies for the management of cholangiocarcinoma. Oblongifolin C (OC), a natural small molecule compound extracted and purified from Garcinia yunnanensis Hu, can activate the mitochondrial apoptotic pathway in human cervical cancer cells. However, the direct effects of OC on cholangiocarcinoma cells are not well defined. The effect of OC on cell apoptosis and its underlying mechanisms were investigated in cultured QBC939 cells by the methyl thiazol tetrazolium assay, mitochondrial membrane potential, ATP content and western blot analysis...
October 2016: Molecular Medicine Reports
Hanaé Roman, Tiffanie Girault, François Barbier, Thomas Péron, Nathalie Brouard, Aleš Pěnčík, Ondřej Novák, Alain Vian, Soulaiman Sakr, Jérémy Lothier, José Le Gourrierec, Nathalie Leduc
Bud outgrowth is controlled by environmental and endogenous factors. Through the use of the photosynthesis inhibitor norflurazon and of masking experiments, evidence is given here that light acts mainly as a morphogenic signal in the triggering of bud outgrowth and that initial steps in the light signaling pathway involve cytokinins (CKs). Indeed, in rose (Rosa hybrida), inhibition of bud outgrowth by darkness is suppressed solely by the application of CKs. In contrast, application of sugars has a limited effect...
September 2016: Plant Physiology
Praveen Awasthi, Ajai Prakash Gupta, Yashbir S Bedi, Ram A Vishwakarma, Sumit G Gandhi
Cytochrome P450 monooxygenases (CYP450s) are known to play important roles in biosynthesis of all secondary metabolites, including flavonoids. Despite this, few CYP450s have been functionally characterized in model plants and roles of fewer CYP450s are known in non-model, medicinal, and aromatic plants. Our study in Coleus forskohlii indicates that flavone synthase (CYP93B) and flavonoid 3' monooxygenase (CYP706C) are key enzymes positioned at a metabolic junction, to execute the biosynthesis of different sub-classes of flavonoids (flavones, flavonol, anthocynanin, isoflavones etc...
2016: Frontiers in Plant Science
Olga Fedorowicz-Strońska, Grzegorz Koczyk, Małgorzata Kaczmarek, Paweł Krajewski, Jan Sadowski
In plant cells, calcium-dependent protein kinases (CDPKs) are important sensors of Ca(2+) flux resulting from various environmental stresses like cold, drought or salt stress. Previous genome sequence analysis and comparative studies in Arabidopsis (Arabidopsis thaliana L.) and rice (Oryza sativa L.) defined a multi-gene family of CDPKs. Here, we identified and characterised the CDPK gene complement of the model plant, barley (Hordeum vulgare L.). Comparative analysis encompassed phylogeny reconstruction based on newly available barley genome sequence, as well as established model genomes (e...
July 22, 2016: Journal of Applied Genetics
Bo Wang, Arman Beyraghdar Kashkooli, Adrienne Sallets, Hieng-Ming Ting, Norbert C A de Ruijter, Linda Olofsson, Peter Brodelius, Mathieu Pottier, Marc Boutry, Harro Bouwmeester, Alexander R van der Krol
Our lack of full understanding of transport and sequestration of the heterologous products currently limit metabolic engineering in plants for the production of high value terpenes. For instance, although all genes of the artemisinin/arteannuin B (AN/AB) biosynthesis pathway (AN-PW) from Artemisia annua have been identified, ectopic expression of these genes in Nicotiana benthamiana yielded mostly glycosylated pathway intermediates and only very little free (dihydro)artemisinic acid [(DH)AA]. Here we demonstrate that Lipid Transfer Protein 3 (AaLTP3) and the transporter Pleiotropic Drug Resistance 2 (AaPDR2) from A...
July 12, 2016: Metabolic Engineering
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