Cell wall proteome analysis of <i>Arabidopsis thaliana</i> mature stems

Duruflé, Harold; Clemente, Hélène San; Balliau, Thierry; Zivy, Michel; Dunand, Christophe; Jamet, Élisabeth

doi:10.1002/pmic.201600449

Cited by 30 publications

(32 citation statements)

References 39 publications

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“…The most effective functional class was that of "proteins acting on cell wall polysaccharides" (PACs) with around a quarter of the CWPs. Inside this functional class, we mainly found GHs, which was consistent with previous cell wall proteome studies [25,26,28,37] (Table S2). PACs also contained expansins, carbohydrate esterases, and to a lesser extent, pectate lyases, PNGases (N-glycosidases), and COBRA-like proteins.…”

Section: Distribution Of the Cwps In Functional Classessupporting

confidence: 90%

“…To analyze the cell wall proteome, we performed cell wall enrichment and the proteins were extracted with CaCl 2 and LiCl buffers using a protocol successfully used on different plant species and tissues [25,26,28,29,37,41,42]. In this work, we identified a total of 2454 proteins, 734 of them being predicted as secreted proteins present in the cell wall or the apoplast, and called CWPs.…”

Section: Discussionmentioning

confidence: 99%

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Cell Wall Proteome of Wheat Grain Endosperm and Outer Layers at Two Key Stages of Early Development

Cherkaoui

Lollier

Geairon

et al. 2019

IJMS

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The cell wall is an important compartment in grain cells that fulfills both structural and functional roles. It has a dynamic structure that is constantly modified during development and in response to biotic and abiotic stresses. Non-structural cell wall proteins (CWPs) are key players in the remodeling of the cell wall during events that punctuate the plant life. Here, a subcellular and quantitative proteomic approach was carried out to identify CWPs possibly involved in changes in cell wall metabolism at two key stages of wheat grain development: the end of the cellularization step and the beginning of storage accumulation. Endosperm and outer layers of wheat grain were analyzed separately as they have different origins (maternal and seed) and functions in grains. Altogether, 734 proteins with predicted signal peptides were identified (CWPs). Functional annotation of CWPs pointed out a large number of proteins potentially involved in cell wall polysaccharide remodeling. In the grain outer layers, numerous proteins involved in cutin formation or lignin polymerization were found, while an unexpected abundance of proteins annotated as plant invertase/pectin methyl esterase inhibitors were identified in the endosperm. In addition, numerous CWPs were accumulating in the endosperm at the grain filling stage, thus revealing strong metabolic activities in the cell wall during endosperm cell differentiation, while protein accumulation was more intense at the earlier stage of development in outer layers. Altogether, our work gives important information on cell wall metabolism during early grain development in both parts of the grain, namely the endosperm and outer layers. The wheat cell wall proteome is the largest cell wall proteome of a monocot species found so far.

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Section: Distribution Of the Cwps In Functional Classessupporting

confidence: 90%

Section: Discussionmentioning

confidence: 99%

Cell Wall Proteome of Wheat Grain Endosperm and Outer Layers at Two Key Stages of Early Development

Cherkaoui

Lollier

Geairon

et al. 2019

IJMS

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show abstract

“…Gilbert and Schulze (2019) identified ArathEULS3 peptides in Arabidopsis root membranes [49]. Additionally, peptides derived from ArathEULS3 were found in the cell wall proteome of A. thaliana rosettes and mature stems [50,51]. Moreover, the experiment investigating the cell wall proteome of two Arabidopsis ecotypes Columbia (Col) and Shahdara (Sha) grown at 22 • C and at 15 • C, respectively, revealed an increase in ArathEULS3 peptides in both ecotypes at a lower temperature [52].…”

Section: Discussionmentioning

confidence: 99%

The ArathEULS3 Lectin Ends up in Stress Granules and Can Follow an Unconventional Route for Secretion

Dubiel

Coninck

Osterne

et al. 2020

IJMS

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Stress granules are cytoplasmic compartments, which serve as mRNA storage units during stress, therefore regulating translation. The Arabidopsis thaliana lectin ArathEULS3 has been widely described as a stress inducible gene. This study aimed to examine in detail the localization of ArathEULS3 lectin in normal and stressed cells. Colocalization experiments revealed that the nucleo-cytoplasmic lectin ArathEULS3 relocates to stress granules after stress. The ArathEULS3 sequence encodes a protein with a EUL lectin domain and an N-terminal domain with unknown structure and function. Bioinformatics analyses showed that the N-terminal domain sequence contains intrinsically disordered regions and likely does not exhibit a stable protein fold. Plasmolysis experiments indicated that ArathEULS3 also localizes to the apoplast, suggesting that this protein might follow an unconventional route for secretion. As part of our efforts we also investigated the interactome of ArathEULS3 and identified several putative interaction partners important for the protein translation process.

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“…For example, Irshad et al () used 2‐dimensional analysis to identify 137 proteins in cell wall protein dynamics in elongating cells. Since then, the application of high‐throughput LC/MS–MS improved the protein numbers in proteomics research (Duruflé et al , Lin et al ). The proteomic research on hypocotyl elongation resulted in the detection of 1209 proteins in A. thaliana (Novak et al ).…”

Section: Discussionmentioning

confidence: 99%

Identification and functional analysis of proteins in response to light intensity, temperature and water potential in Brassica rapa hypocotyl

Wang

Shang

2019

Physiologia Plantarum

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Hypocotyl elongation is an early event in plant growth and development and is sensitive to fluctuations in light, temperature, water potential and nutrients. Most research on hypocotyl elongation has focused on the regulatory mechanism of a single environment factor. However, information about combined effects of multi‐environment factors remains unavailable, and overlapping sites of the environmental factors signaling pathways in the regulation of hypocotyl elongation remain unclear. To identify how cross‐talks among light intensity, temperature and water potential regulate hypocotyl elongation in Brassica rapa L. ssp. chinesis, a comprehensive isobaric tag for relative and absolute quantitation‐based proteomic approach was adopted. In total, 7259 proteins were quantified, and 378 differentially expressed proteins (DEPs) were responsive to all three environmental factors. The DEPs were involved in a variety of biochemical processes, including signal transduction, cytoskeletal organization, carbohydrate metabolism, cell wall organization, protein modification and transport. The DEPs did not function in isolation, but acted in a large and complex interaction network to affect hypocotyl elongation. Among the DEPs, phyB was outstanding for its significant fold change in quantity and complex interaction networks with other proteins. In addition, changes of sensitivity to environmental factors in phyB‐9 suggested a key role in the regulation of hypocotyl elongation. Overall, the data presented in this study show a profile of proteins interaction network in response to light intensity, temperature and water potential and provides molecular basis of hypocotyl elongation in B. rapa.

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Cell wall proteome analysis of Arabidopsis thaliana mature stems

Cited by 30 publications

References 39 publications

Cell Wall Proteome of Wheat Grain Endosperm and Outer Layers at Two Key Stages of Early Development

Cell Wall Proteome of Wheat Grain Endosperm and Outer Layers at Two Key Stages of Early Development

The ArathEULS3 Lectin Ends up in Stress Granules and Can Follow an Unconventional Route for Secretion

Identification and functional analysis of proteins in response to light intensity, temperature and water potential in Brassica rapa hypocotyl

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