Metabolomic Responses of Arabidopsis Suspension Cells to Bicarbonate under Light and Dark Conditions

Misra, Biswapriya B.; Yin, Zepeng; Geng, Sisi; Armas, Evaldo de; Chen, Sixue

doi:10.1038/srep35778

Cited by 12 publications

(6 citation statements)

References 51 publications

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“…A. thaliana (var. Landsberg erecta (LER) suspension cells, kindly gifted by Dr. Joshua L. Heazlewood, University of Western Australia, Australia) were maintained and sub-cultured according to a previous method (Misra et al, 2016 ). Briefly, the cell culture was grown in 250-ml flasks under light at 130 μmol m −2 s −1 on an orbital shaker at 120 rpm, 22°C, and was sub-cultured weekly.…”

Section: Methodsmentioning

confidence: 99%

Bicarbonate Induced Redox Proteome Changes in Arabidopsis Suspension Cells

et al. 2017

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Climate change as a result of increasing atmospheric CO2 affects plant growth and productivity. CO2 is not only a carbon donor for photosynthesis but also an environmental signal that can perturb cellular redox homeostasis and lead to modifications of redox-sensitive proteins. Although redox regulation of protein functions has emerged as an important mechanism in several biological processes, protein redox modifications and how they function in plant CO2 response remain unclear. Here a new iodoTMTRAQ proteomics technology was employed to analyze changes in protein redox modifications in Arabidopsis thaliana suspension cells in response to bicarbonate (mimic of elevated CO2) in a time-course study. A total of 47 potential redox-regulated proteins were identified with functions in carbohydrate and energy metabolism, transport, ROS scavenging, cell structure modulation and protein turnover. This inventory of previously unknown redox responsive proteins in Arabidopsis bicarbonate responses lays a foundation for future research toward understanding the molecular mechanisms underlying plant CO2 responses.

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Section: Methodsmentioning

confidence: 99%

Bicarbonate Induced Redox Proteome Changes in Arabidopsis Suspension Cells

et al. 2017

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“…A metabolomic analysis performed on Arabidopsis cultured cells incubated in the dark or light showed that although most of the metabolites are common to both conditions, c . 30 metabolites, mainly related to pyridine metabolism or folate biosynthesis, differ under each light or dark condition, respectively (Misra et al ., 2016). Comparative nontargeted metabolomic analyses between light‐ and dark‐grown roots showed a large number of light‐induced metabolites (Silva‐Navas et al ., 2016), and it is possible that some of them could be secreted to the exterior.…”

Section: Root–biotic Interactions May Be Influenced By Lightmentioning

confidence: 99%

“…It has been reported that exposure to different intensities of red : blue ratios of light alters the amount of benzoic acid, salicylic acid, ferulic acid, gallic acid, and tannic acid secreted from the root surface area of hydroponic lettuce (Zhou et al, 2020). A metabolomic analysis performed on Arabidopsis cultured cells incubated in the dark or light showed that although most of the metabolites are common to both conditions, c. 30 metabolites, mainly related to pyridine metabolism or folate biosynthesis, differ under each light or dark condition, respectively (Misra et al, 2016). Comparative nontargeted metabolomic analyses between lightand dark-grown roots showed a large number of light-induced metabolites (Silva-Navas et al, 2016), and it is possible that some of them could be secreted to the exterior.…”

Section: Root-biotic Interactions May Be Influenced By Lightmentioning

confidence: 99%

May the dark be with roots: a perspective on how root illumination may bias in vitro research on plant–environment interactions

2022

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Roots anchor plants to the soil, providing them with nutrients and water while creating a defence network and facilitating beneficial interactions with a multitude of living organisms and climatological conditions. To facilitate morphological and molecular studies, root research has been conducted using in vitro systems. However, under natural conditions, roots grow in the dark, mainly in the absence of illumination, except for the relatively low illumination of the upper soil surface, and this has been largely ignored. Here, we discuss the results found over the last decade on how experimental exposure of roots to light may bias root development and responses through the alteration of hormonal signalling, cytoskeleton organization, reactive oxygen species or the accumulation of flavonoids, among other factors. Illumination alters the uptake of nutrients or water, and also affects the response of the roots to abiotic stresses and root interactions with the microbiota. Furthermore, we review in vitro systems created to maintain roots in darkness, and provide a comparative analysis of root transcriptomes obtained with these devices. Finally, we identify other experimental variables that should be considered to better mimic soil conditions, whose improvement would benefit studies using in vitro cultivation or enclosed ecosystems.

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“…Since its introduction by Nicholson et al in 1999, metabolomics has been extensively applied to various fields of science in the post-genomic era, such as agricultural research [6,7,8,9,10]. …”

Section: Introductionmentioning

confidence: 99%

Metabolomics, a Powerful Tool for Agricultural Research

Tian

Lam

Shui

2016

IJMS

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Metabolomics, which is based mainly on nuclear magnetic resonance (NMR), gas-chromatography (GC) or liquid-chromatography (LC) coupled to mass spectrometry (MS) analytical technologies to systematically acquire the qualitative and quantitative information of low-molecular-mass endogenous metabolites, provides a direct snapshot of the physiological condition in biological samples. As complements to transcriptomics and proteomics, it has played pivotal roles in agricultural and food science research. In this review, we discuss the capacities of NMR, GC/LC-MS in the acquisition of plant metabolome, and address the potential promise and diverse applications of metabolomics, particularly lipidomics, to investigate the responses of Arabidopsis thaliana, a primary plant model for agricultural research, to environmental stressors including heat, freezing, drought, and salinity.

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Metabolomic Responses of Arabidopsis Suspension Cells to Bicarbonate under Light and Dark Conditions

Cited by 12 publications

References 51 publications

Bicarbonate Induced Redox Proteome Changes in Arabidopsis Suspension Cells

Bicarbonate Induced Redox Proteome Changes in Arabidopsis Suspension Cells

May the dark be with roots: a perspective on how root illumination may bias in vitro research on plant–environment interactions

Metabolomics, a Powerful Tool for Agricultural Research

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