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plant metabolomics

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https://www.readbyqxmd.com/read/28211897/metabolomic-tool-to-identify-soybean-glycine-max-l-merrill-germplasms-with-a-high-level-of-shade-tolerance-at-the-seedling-stage
#1
Jiang Liu, Baoyu Hu, Weiguo Liu, Wenting Qin, Haijun Wu, Jing Zhang, Caiqiong Yang, Juncai Deng, Kai Shu, Junbo Du, Feng Yang, Taiwen Yong, Xiaochun Wang, Wenyu Yang
The isoflavone profiles of seeds of various soybean genotypes with different levels of shade tolerance at the seedling stage were investigated. High-performance liquid chromatography (HPLC) was used to quantify 12 isoflavones, and the data were analyzed using a multivariate statistical analysis. Combined with field experimental data and an orthogonal partial least-squares discriminant analysis (OPLS-DA), several aglycones (genistein (GE), daidzein (DE), and glycitein (GLE)) were selected and identified as key compounds involved in the shade tolerance of soybean seedlings...
February 13, 2017: Scientific Reports
https://www.readbyqxmd.com/read/28209457/metabolomic-approach-reveals-the-biochemical-mechanisms-underlying-drought-stress-tolerance-in-thyme
#2
Parviz Moradi, Brian Ford-Lloyd, Jeremy Pritchard
Thyme as a perennial herb has been recognized globally for its antimicrobial, antiseptic and spasmolytic effects. In this investigation, we have used non-targeted metabolite and volatile profiling combined with the morpho-physiological parameters in order to understand the responses at the metabolite and physiological level in drought sensitive and tolerant thyme plant populations. The results at the metabolic level identified the significantly affected metabolites. Significant metabolites belonging to different chemical classes consisting amino acids, carbohydrates, organic acids and lipids have been compared in tolerant and sensitive plants...
February 13, 2017: Analytical Biochemistry
https://www.readbyqxmd.com/read/28205587/nickel-biopathways-in-tropical-nickel-hyperaccumulating-trees-from-sabah-malaysia
#3
Antony van der Ent, Damien L Callahan, Barry N Noller, Jolanta Mesjasz-Przybylowicz, Wojciech J Przybylowicz, Alban Barnabas, Hugh H Harris
The extraordinary level of accumulation of nickel (Ni) in hyperaccumulator plants is a consequence of specific metal sequestering and transport mechanisms, and knowledge of these processes is critical for advancing an understanding of transition element metabolic regulation in these plants. The Ni biopathways were elucidated in three plant species, Phyllanthus balgooyi, Phyllanthus securinegioides (Phyllanthaceae) and Rinorea bengalensis (Violaceae), that occur in Sabah (Malaysia) on the Island of Borneo. This study showed that Ni is mainly concentrated in the phloem in roots and stems (up to 16...
February 16, 2017: Scientific Reports
https://www.readbyqxmd.com/read/28205532/system-wide-detection-of-protein-small-molecule-complexes-suggests-extensive-metabolite-regulation-in-plants
#4
Daniel Veyel, Sylwia Kierszniowska, Monika Kosmacz, Ewelina Maria Sokolowska, Aenne Michaelis, Marcin Luzarowski, Jagoda Szlachetko, Lothar Willmitzer, Aleksandra Skirycz
Protein small molecule interactions are at the core of cell regulation controlling metabolism and development. We reasoned that due to the lack of system wide approaches only a minority of those regulatory molecules are known. In order to see whether or not this assumption is true we developed an effective approach for the identification of small molecules having potential regulatory role that obviates the need of protein or small molecule baits. At the core of this approach is a simple biochemical co-fractionation taking advantage of size differences between proteins and small molecules...
February 13, 2017: Scientific Reports
https://www.readbyqxmd.com/read/28202596/the-3-hydroxyacyl-acp-dehydratase-component-of-the-plant-mitochondrial-fatty-acid-synthase-system
#5
Xin Guan, Yozo Okazaki, Andrew Lithio, Ling Li, Xuefeng Zhao, Huanan Jin, Dan Nettleton, Kazuki Saito, Basil J Nikolau
We report the characterization of the Arabidopsis 3-hydroxyacyl-acyl carrier protein (ACP) dehydratase (mtHD) component of the mitochondrial fatty acid synthase (mtFAS) system, encoded by AT5G60335. The mitochondrial localization and catalytic capability of mtHD were demonstrated with a green fluorescent protein (GFP) transgenesis experiment, and by in vivo complementation and in vitro enzymatic assays. RNAi knockdown lines with reduced mtHD expression exhibit traits typically associated with mtFAS mutants, namely a miniaturized morphological appearance, reduced lipoylation of lipoylated proteins, and altered metabolomes consistent with the reduced catalytic activity of lipoylated enzymes...
February 15, 2017: Plant Physiology
https://www.readbyqxmd.com/read/28201992/high-flavonoid-accompanied-with-high-starch-accumulation-triggered-by-nutrient-starvation-in-bioenergy-crop-duckweed-landoltia-punctata
#6
Xiang Tao, Yang Fang, Meng-Jun Huang, Yao Xiao, Yang Liu, Xin-Rong Ma, Hai Zhao
BACKGROUND: As the fastest growing plant, duckweed can thrive on anthropogenic wastewater. The purple-backed duckweed, Landoltia punctata, is rich in starch and flavonoids. However, the molecular biological basis of high flavonoid and low lignin content remains largely unknown, as does the best method to combine nutrients removed from sewage and the utilization value improvement of duckweed biomass. RESULTS: A combined omics study was performed to investigate the biosynthesis of flavonoid and the metabolic flux changes in L...
February 15, 2017: BMC Genomics
https://www.readbyqxmd.com/read/28196086/nopal-feeding-reduces-adiposity-intestinal-inflammation-and-shifts-the-cecal-microbiota-and-metabolism-in-high-fat-fed-rats
#7
Sofia Moran-Ramos, Xuan He, Elizabeth L Chin, Armando R Tovar, Nimbe Torres, Carolyn M Slupsky, Helen E Raybould
Nopal is a cactus plant widely consumed in Mexico that has been used in traditional medicine to aid in the treatment of type-2 diabetes. We previously showed that chronic consumption of dehydrated nopal ameliorated hepatic steatosis in obese (fa/fa) rats; however, description of the effects on other tissues is sparse. The aim of the present study was to investigate the effects of nopal cladode consumption on intestinal physiology, microbial community structure, adipose tissue, and serum biochemistry in diet-induced obese rats...
2017: PloS One
https://www.readbyqxmd.com/read/28192986/biosynthesis-based-quantitative-analysis-of-151-secondary-metabolites-of-licorice-to-differentiate-medicinal-glycyrrhiza-species-and-their-hybrids
#8
Wei Song, Xue Qiao, Kuan Chen, Ying Wang, Shuai Ji, Jin Feng, Kai Li, Yan Lin, Min Ye
Secondary metabolites are usually the bioactive components of medicinal plants. The difference in the secondary metabolisms of closely related plant species and their hybrids has rarely been addressed. In this study, we conducted a holistic secondary metabolomics analysis of three medicinal Glycyrrhiza species (G. uralensis, G. glabra, and G. inflata), which are used as the popular herbal medicine licorice. The Glycyrrhiza species (genotype) for 95 batches of samples were identified by DNA barcodes of the internal transcribed spacer and trnV-ndhC regions, and the chemotypes were revealed by LC/UV- or LC/MS/MS-based quantitative analysis of 151 bioactive secondary metabolites, including 17 flavonoid glycosides, 24 saponins, and 110 free phenolic compounds...
February 13, 2017: Analytical Chemistry
https://www.readbyqxmd.com/read/28164123/novel-approach-to-classify-plants-based-on-metabolite-content-similarity
#9
Kang Liu, Azian Azamimi Abdullah, Ming Huang, Takaaki Nishioka, Md Altaf-Ul-Amin, Shigehiko Kanaya
Secondary metabolites are bioactive substances with diverse chemical structures. Depending on the ecological environment within which they are living, higher plants use different combinations of secondary metabolites for adaptation (e.g., defense against attacks by herbivores or pathogenic microbes). This suggests that the similarity in metabolite content is applicable to assess phylogenic similarity of higher plants. However, such a chemical taxonomic approach has limitations of incomplete metabolomics data...
2017: BioMed Research International
https://www.readbyqxmd.com/read/28159726/anti-ulcer-effect-and-potential-mechanism-of-licoflavone-by-regulating-inflammation-mediators-and-amino-acid-metabolism
#10
Yi Yang, Shuai Wang, Yong-Rui Bao, Tian-Jiao Li, Guan-Lin Yang, Xin Chang, Xian-Sheng Meng
ETHNOPHARMACOLOGICAL RELEVANCE: Glycyrrhiza is the dry root and rhizome of the leguminous plant, Glycyrrhiza uralensis Fisch., Glycyrrhiza inflata Bat. or Glycyrrhiza glabra L., which was firstly cited in Shennong's Herbal Classic in Han dynasty and was officially listed in the Chinese Pharmacopoeia, has been widely used in China during the past millennia. Licoflavone is the major component of Glycyrrhiza with anti-ulcer activity. The present study is based on clarifying the anti-ulcer effect of licoflavone, aiming at elucidating the possible molecule mechanisms of its action for treating gastric ulcer rats induced by acetic acid...
January 31, 2017: Journal of Ethnopharmacology
https://www.readbyqxmd.com/read/28159289/untargeted-metabolomics-based-on-ultra-high-performance-liquid-chromatography-high-resolution-mass-spectrometry-merged-with-chemometrics-a-new-predictable-tool-for-an-early-detection-of-mycotoxins
#11
Josep Rubert, Laura Righetti, Milena Stranska-Zachariasova, Zbynek Dzuman, Jana Chrpova, Chiara Dall'Asta, Jana Hajslova
In order to explore the early detection of mycotoxins in wheat three standardized approaches (Fusarium disease severity, PCR assays for Fusarium spp. identification and mycotoxin quantification) and a novel untargeted metabolomics strategy were jointly assessed. In the first phase of this research, standardized approaches were able to quantify mycotoxins and identify Fusarium spp. Then, an UHPLC-QTOF metabolic fingerprinting method was developed to investigate plant-pathogen cross-talk. At the same time, chemometrics analysis demonstrated to be a powerful tool in order to distinguish low and strong infection levels...
June 1, 2017: Food Chemistry
https://www.readbyqxmd.com/read/28155236/dual-herbivore-attack-and-herbivore-density-affect-metabolic-profiles-of-brassica-nigra-leaves
#12
Camille Ponzio, Stefano Papazian, Benedicte R Albrectsen, Marcel Dicke, Rieta Gols
Plant responses to dual herbivore attack are increasingly studied, but effects on the metabolome have largely been restricted to volatile metabolites and defense-related non-volatile metabolites. However, plants subjected to stress, such as herbivory, undergo major changes in both primary and secondary metabolism. Using a naturally occurring system, we investigated metabolome-wide effects of single or dual herbivory on Brassica nigra plants by Brevicoryne brassicae aphids and Pieris brassicae caterpillars, while also considering the effect of aphid density...
February 2, 2017: Plant, Cell & Environment
https://www.readbyqxmd.com/read/28134431/recent-breakthroughs-in-metabolomics-promise-to-reveal-the-cryptic-chemical-traits-that-mediate-plant-community-composition-character-evolution-and-lineage-diversification
#13
REVIEW
Brian E Sedio
I. II. III. IV. V. References SUMMARY: Much of our understanding of the mechanisms by which biotic interactions shape plant communities has been constrained by the methods available to study the diverse secondary chemistry that defines plant relationships with other organisms. Recent innovations in analytical chemistry and bioinformatics promise to reveal the cryptic chemical traits that mediate plant ecology and evolution by facilitating simultaneous structural comparisons of hundreds of unknown molecules to each other and to libraries of known compounds...
January 30, 2017: New Phytologist
https://www.readbyqxmd.com/read/28127554/comparative-metabolome-profile-between-tobacco-and-soybean-grown-under-water-stressed-conditions
#14
COMPARATIVE STUDY
Roel C Rabara, Prateek Tripathi, Paul J Rushton
Understanding how plants respond to water deficit is important in order to develop crops tolerant to drought. In this study, we compare two large metabolomics datasets where we employed a nontargeted metabolomics approach to elucidate metabolic pathways perturbed by progressive dehydration in tobacco and soybean plants. The two datasets were created using the same strategy to create water deficit conditions and an identical metabolomics pipeline. Comparisons between the two datasets therefore reveal common responses between the two species, responses specific to one of the species, responses that occur in both root and leaf tissues, and responses that are specific to one tissue...
2017: BioMed Research International
https://www.readbyqxmd.com/read/28125283/plastoglobuli-plastid-microcompartments-with-integrated-functions-in-metabolism-plastid-developmental-transitions-and-environmental-adaptation
#15
Klaas J van Wijk, Felix Kessler
Plastoglobuli (PGs) are plastid lipoprotein particles surrounded by a membrane lipid monolayer. PGs contain small specialized proteomes and metabolomes. They are present in different plastid types (e.g., chloroplasts, chromoplasts, and elaioplasts) and are dynamic in size and shape in response to abiotic stress or developmental transitions. PGs in chromoplasts are highly enriched in carotenoid esters and enzymes involved in carotenoid metabolism. PGs in chloroplasts are associated with thylakoids and contain ∼30 core proteins (including six ABC1 kinases) as well as additional proteins recruited under specific conditions...
January 25, 2017: Annual Review of Plant Biology
https://www.readbyqxmd.com/read/28122143/metabolic-robustness-in-young-roots-underpins-a-predictive-model-of-maize-hybrid-performance-in-the-field
#16
Francisco de Abreu E Lima, Matthias Westhues, Álvaro Cuadros-Inostroza, Lothar Willmitzer, Albrecht E Melchinger, Zoran Nikoloski
Heterosis has been extensively exploited for yield gain in maize (Zea mays L.). Here we conducted a comparative metabolomics-based analysis of young roots from in vitro germinating seedlings and from leaves of field-grown plants in a panel of inbred lines from the Dent and Flint heterotic patterns as well as selected F1 hybrids. We found that metabolite levels in hybrids were more robust than in inbred lines. Using state-of-the-art modeling techniques, the most robust metabolites from roots and leaves explained up to 37% and 44% of the variance in the biomass from plants grown in two distinct field trials...
January 25, 2017: Plant Journal: for Cell and Molecular Biology
https://www.readbyqxmd.com/read/28120902/targeted-metabolomics-shows-plasticity-in-the-evolution-of-signaling-lipids-and-uncovers-old-and-new-endocannabinoids-in-the-plant-kingdom
#17
María Salomé Gachet, Alexandra Schubert, Serafina Calarco, Julien Boccard, Jürg Gertsch
The remarkable absence of arachidonic acid (AA) in seed plants prompted us to systematically study the presence of C20 polyunsaturated fatty acids, stearic acid, oleic acid, jasmonic acid (JA), N-acylethanolamines (NAEs) and endocannabinoids (ECs) in 71 plant species representative of major phylogenetic clades. Given the difficulty of extrapolating information about lipid metabolites from genetic data we employed targeted metabolomics using LC-MS/MS and GC-MS to study these signaling lipids in plant evolution...
January 25, 2017: Scientific Reports
https://www.readbyqxmd.com/read/28117749/a-method-for-lc-ms-ms-profiling-of-coumarins-in-zanthoxylum-zanthoxyloides-lam-b-zepernich-and-timler-extracts-and-essential-oils
#18
Yoro Tine, Franck Renucci, Jean Costa, Alassane Wélé, Julien Paolini
The metabolites from the coumarin class, present in tissues of plants belonging mainly to the Rutaceae and Apiaceae families, included compounds with high chemical diversity such as simple coumarins and furocoumarins. These health-promoting components are recognized for their valuable biological activities in herbal preparations but also for their phototoxic effects. In this work, a targeted liquid chromatography (LC) coupled with tandem mass spectrometry (MS²) was developed for the screening of 39 reference standards of coumarins and furocoumarins in essential oils and plant extracts...
January 22, 2017: Molecules: a Journal of Synthetic Chemistry and Natural Product Chemistry
https://www.readbyqxmd.com/read/28113135/how-close-are-we-to-complete-annotation-of-metabolomes
#19
REVIEW
Mark R Viant, Irwin J Kurland, Martin R Jones, Warwick B Dunn
The metabolome describes the full complement of the tens to hundreds of thousands of low molecular weight metabolites present within a biological system. Identification of the metabolome is critical for discovering the maximum amount of biochemical knowledge from metabolomics datasets. Yet no exhaustive experimental characterisation of any organismal metabolome has been reported to date, dramatically contrasting with the genome sequencing of thousands of plants, animals and microbes. Here, we review the status of metabolome annotation and describe advances in the analytical methodologies being applied...
January 20, 2017: Current Opinion in Chemical Biology
https://www.readbyqxmd.com/read/28112434/label-free-deep-shotgun-proteomics-reveals-protein-dynamics-during-tomato-fruit-tissues-development
#20
Jedrzej Szymanski, Yishai Levin, Alon Savidor, Dario Breitel, Louise Chappell-Maor, Uwe Heinig, Nadine Töpfer, Asaph Aharoni
Current innovations in mass-spectrometry-based technologies allow deep coverage of protein expression. Despite its immense value and in contrast to transcriptomics, only a handful of studies in crop plants engaged with global proteome assays. Here, we present large-scale shotgun proteomics profiling of tomato fruit across two key tissues and five developmental stages. A total of 7738 individual protein groups were identified and reliably measured at least in one of the analyzed tissues or stages. The depth of our assay enabled identification of 61 differentially expressed transcription factors including renowned ripening-related regulators and elements of ethylene signaling...
January 23, 2017: Plant Journal: for Cell and Molecular Biology
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