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Article
Open AccessMurraya koenigii (L.) Sprengel seeds and pericarps in relation to their chemical profiles: new approach for multidrug resistant Acinetobacter baumannii ventilator-associated pneumonia
Acinetobacter baumannii is without a doubt one of the most problematic bacteria causing hospital-acquired nosocomial infections in today's healthcare system. To solve the high prevalence of multi-drug resistant (...
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Article
Open AccessMetabolomics and machine learning technique revealed that germination enhances the multi-nutritional properties of pigmented rice
Enhancing the dietary properties of rice is crucial to contribute to alleviating hidden hunger and non-communicable diseases in rice-consuming countries. Germination is a bioprocessing approach to increase the...
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Article
Open AccessComparison of metabolomic reconfiguration between Columbia and Landsberg ecotypes subjected to the combination of high salinity and increased irradiance
Plants growing in the field are subjected to combinations of abiotic stresses. These conditions pose a devastating threat to crops, decreasing their yield and causing a negative economic impact on agricultural...
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Article
Open AccessIdentification of gene function based on models capturing natural variability of Arabidopsis thaliana lipid metabolism
Lipids play fundamental roles in regulating agronomically important traits. Advances in plant lipid metabolism have until recently largely been based on reductionist approaches, although modulation of its comp...
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Article
Open AccessSelection and adaptive introgression guided the complex evolutionary history of the European common bean
Domesticated crops have been disseminated by humans over vast geographic areas. Common bean (Phaseolus vulgaris L.) was introduced in Europe after 1492. Here, by combining whole-genome profiling, metabolic finger...
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Article
Open AccessIntegrating multiomics data accelerates elucidation of plant primary and secondary metabolic pathways
Plants are the most important sources of food for humans, as well as supplying many ingredients that are of great importance for human health. Develo** an understanding of the functional components of plant ...
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Article
Open AccessCoordinated reprogramming of renal cancer transcriptome, metabolome and secretome associates with immune tumor infiltration
Clear cell renal cell carcinoma (ccRCC) is the most common subtype of renal cancer. The molecules (proteins, metabolites) secreted by tumors affect their extracellular milieu to support cancer progression. If ...
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Protocol
The Plant Metabolic Changes and the Physiological and Signaling Functions in the Responses to Abiotic Stress
Global climate change has altered, and will further alter, rainfall patterns and temperatures likely causing more frequent drought and heat waves, which will consequently exacerbate abiotic stresses of plants ...
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Protocol
Metabolite-Based Genome-Wide Association Studies of Large-Scale Metabolome Analysis to Illustrate Alterations in the Metabolite Landscape of Plants upon Responses to Stresses
Given that anthropogenic activities are evoking a profound effect on the climate resulting in more extreme events such as severe drought and heat waves while global demand for food is ever-increasing, understa...
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Article
Open AccessThe diversity of quinoa morphological traits and seed metabolic composition
Quinoa (Chenopodium quinoa Willd.) is an herbaceous annual crop of the amaranth family (Amaranthaceae). It is increasingly cultivated for its nutritious grains, which are rich in protein and essential amino acids...
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Article
Open AccessMetabolomics-based profiling for quality assessment and revealing the impact of drying of Turmeric (Curcuma longa L.)
Turmeric, the rhizomes of Curcuma longa L., is one of the top selling spices, food preservatives, and food colorants. In addition, it exhibits health promoting benefits owing to its unique phytochemical compositi...
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Article
Open AccessAzacytidine arrests ripening in cultivated strawberry (Fragaria × ananassa) by repressing key genes and altering hormone contents
Strawberry ripening involves a number of irreversible biochemical reactions that cause sensory changes through accumulation of sugars, acids and other compounds responsible for fruit color and flavor. The proc...
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Article
Open AccessColor recycling: metabolization of apocarotenoid degradation products suggests carbon regeneration via primary metabolic pathways
Analysis of carotenoid-accumulating roots revealed that oxidative carotenoid degradation yields glyoxal and methylglyoxal. Our data suggest that these compounds are detoxified via the glyoxalase system and re-...
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Article
Open AccessThe AtMYB60 transcription factor regulates stomatal opening by modulating oxylipin synthesis in guard cells
Stomata are epidermal pores formed by pairs of specialized guard cells, which regulate gas exchanges between the plant and the atmosphere. Modulation of transcription has emerged as an important level of regul...
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Article
Open AccessMulti-omics approaches explain the growth-promoting effect of the apocarotenoid growth regulator zaxinone in rice
The apocarotenoid zaxinone promotes growth and suppresses strigolactone biosynthesis in rice. To shed light on the mechanisms underlying its growth-promoting effect, we employed a combined omics approach integ...
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Article
Open AccessGenome-wide association studies: assessing trait characteristics in model and crop plants
GWAS involves testing genetic variants across the genomes of many individuals of a population to identify genotype–phenotype association. It was initially developed and has proven highly successful in human di...
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Article
Ultra-high-performance liquid chromatography high-resolution mass spectrometry variants for metabolomics research
Ultra-high-performance liquid chromatography high-resolution mass spectrometry (UHPLC–HRMS) variants currently represent the best tools to tackle the challenges of complexity and lack of comprehensive coverage...
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Article
Mass spectrometry-based metabolomics: a guide for annotation, quantification and best reporting practices
Mass spectrometry-based metabolomics approaches can enable detection and quantification of many thousands of metabolite features simultaneously. However, compound identification and reliable quantification are...
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Article
Auto-deconvolution and molecular networking of gas chromatography–mass spectrometry data
We engineered a machine learning approach, MSHub, to enable auto-deconvolution of gas chromatography–mass spectrometry (GC–MS) data. We then designed workflows to enable the community to store, process, share,...
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Protocol
Metabolomic Analysis of Natural Variation in Arabidopsis
Methodological advances in coupled-mass spectrometry (gas chromatography and liquid chromatography; GC-MS and LC-MS) have rendered the profiling of highly complex plant extracts relatively facile and allowed t...
