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A seed-like proteome in oil-rich tubers

ABSTRACT: There are numerous examples in plants, where certain organs or developmental stages are desiccation tolerant and can withstand extended periods of severe water loss. One prime example are seeds and pollen of many spermatophytes. However, in some plants, also vegetative organs can be desiccation tolerant as for example the tubers of yellow nutsedge (Cyperus esculentus) that also store larger amounts of lipids similar to seeds. Interestingly, the closest relative purple nutsedge (Cyperus rotundus) generates tubers that do not accumulate oil and are not desiccation tolerant. We generated nanoLC-MS/MS-based proteomes of yellow nutsedge in five replicates of four stages of tuber development and compared them to the proteomes of roots and leaves, yielding 2257 distinct protein groups. Our data reveal a striking upregulation of hallmark proteins of seeds in the tubers. A deeper comparison to the tuber proteome of the closest relative purple nutsedge (Cyperus rotundus) and a previously published proteome of Arabidopsis seeds and seedlings indicates that indeed a seed-like proteome was found in yellow but not purple nutsedge. This was further supported by an analysis of the proteome of a lipid-droplet enriched fraction of yellow nutsedge, which also displayed seed-like characteristics. One reason for the differences between the two nutsedge species might be the expression of certain transcription factors homolog to ABSCISIC ACID INSENSITIVE3, WRINKLED1 and LEAFY COTYLEDON1 that drive gene expression in Arabidopsis seed embryos.

INSTRUMENT(S): Q Exactive HF

ORGANISM(S): Cyperus Rotundus

TISSUE(S): Plant Cell, Tuber

SUBMITTER: Till Ischebeck

LAB HEAD: Till Ischebeck

PROVIDER: PXD031123 | Pride | 2022-10-31

REPOSITORIES: Pride

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Dataset's files

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			Action	DRS
	Cyperusrotundus_3x_combined_DB_Per1_Per2_Iker1.fasta	Fasta
	PN_Q_106.raw	Raw
	PN_Q_107.raw	Raw
	PN_Q_108.raw	Raw
	PN_Q_109.raw	Raw

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Similar Datasets

A seed-like proteome in oil-rich tubers

Project description:Fresh tubers were harvested from purple nutsedge and dried.

2022-10-31 | PXD035931 | Pride

Yellow nutsedge co-opts a seed-like proteome in oil rich tubers

Project description:Drought is the prime stressors that land plants have to overcome since their dawn. One strategy that land plants employ is to limit water loss and to transport water via a vascular system, another is to produce desiccation tolerant cells and tissues. In most flowering plants, the latter strategy is limited to seeds and to some extend pollen. Common to desiccation and drought tolerance is the accumulation of small osmolytes and proteins with protective functions. Also common to both strategies is the accumulation of neutral lipids, foremost triacylglycerol (TAG), in cytosolic lipid droplets (LDs) with especially high levels being reached in embryonic tissues. Here, we investigated yellow nutsedge (Cyperus esculentus), a monocot, perennial C4 plant. This species produces stolon-derived underground tubers that can fully desiccate and remain viable for years. Yellow nutsedge stands out, as its tubers store 25-30 % of their dry mass in lipids especially TAG, similar to seeds. We generated nanoLC-MS/MS-based proteomes in five replicates of four stages of tuber development and compared them to the proteomes of roots and leaves, yielding 2257 distinct protein groups. Our data reveal a striking upregulation of hallmark proteins of seeds in the tubers. A deeper comparison to a previously published proteome of Arabidopsis seeds and seedlings indicate that indeed a seed-like proteome was co-opted. This was further supported by an analysis of the proteome of a lipid-droplet enriched fraction of yellow nutsedge, which also displayed seed-like characteristics.

2022-10-31 | PXD021894 | Pride

A label-free quantitative proteomic analysis reveals amino acids and carbohydrate metabolic enzymes are differentially accumulated in three Jerusalem artichoke (Helianthus tuberosus L.) cultivars exhibiting phenological tuberization characters

Project description:Jerusalem artichoke (JA) tubers are an important bio-economy developing crop because of its invaluable bioproducts in both food and biofuel aspects. However, the molecular mechanism of its tuberization, and the differences among different cultivars have been little studied to date. Here, we conducted a comparative proteome profiling of the JA tubers of three different cultivars including PJA, DJA, and HJA, showing phenotypic characteristics. Tuber epidermal pigmentation and underground tuberization habit were different phenological characters in the three cultivars and inulin content was also a physiological character exceptionally DJA regardless of the similar level of total carbohydrate amount. We identified a total of 420 proteins in the tubers and out of 114 showed significantly modulated among the cultivars. GO classification of the DEPs revealed biosynthesis amino acid and carbohydrate metabolic enzymes were differentially expressed in the three cultivar tubers. Integrated physiological inulin content and the biosynthetic protein expression levels among the cultivars suggest that Sucrose:sucrose 1-fructosyltransferase (1-SST) prioritizes inulin biosynthesis rather than rate-limiting enzyme fructan:fructan 1-fructosyltransferases (1-FFT). Furthermore, we confirmed the relationship between transcript-protein expression levels was in discord within inulin biosynthesis enzymes 1-SST and 1-FFT with the terms in previous RT-qPCR results using the same tubers. Our data represent the first report that comparative proteome profiling in JA tubers among the different cultivars and provides the metabolic and molecular basis for understanding carbohydrate metabolism in storage tuber tissue.

2019-05-29 | PXD010835 | Pride

Transcriptional changes in dormant and non_dormant potato meristems

Project description:RNA was sequenced from meristems excised from dormant and non-dormant potato tubers harvested from four different harvest years. Expression based on mapped RNA-sequences was accomplished from excised meristems from fall harvested (dormant tubers) and the same harvested tubers were stored under standard commercial conditions until sprouting was present (non-dormant). The experiment was replicated for four different harvest years.

2014-09-24 | E-GEOD-61690 | biostudies-arrayexpress

Transcriptional profiling of S. tuberosum cv. Agria leaf and tuber samples after mild heat stress

Project description:The consequences on tuber transcriptome of a short heat period during tuber development was investigated in this study with special regard to the development of secondary tuber growth. Plants were grown for 47 days in the greenhouse under ambient conditions (21Â°C/ 19Â°C, 16h light, 8h dark) before application of mild heat stress temperatures (29Â°C/27Â°C) to one group of plants for 7 days and a stress release period on control temperature for 2 more weeks until harvest. Leaves were sampled before the heat period, at the end of the heat period and at harvest, two weeks after stress release. Tuber samples were taken at harvest. Tubers grown at normal temperatures and exhibiting a normal growth phenotype were used as control. Tubers subjected to the heat treatment and exhibiting a second-growth phenotype (chain tubers) were grouped into primary (attached to stolon from plant) and secondary tubers (attached to stolon from primary tuber).

2016-12-12 | E-MTAB-4805 | biostudies-arrayexpress

The effect of heat stress on the expression profile of potato tuber periderm genes

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2007-08-31 | E-GEOD-8283 | biostudies-arrayexpress

Transcriptional profiling of heat responses and genotype effects in potato crossbreeding lines and their parental strains

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2022-06-30 | E-MTAB-11723 | biostudies-arrayexpress

Microarray transcription profiling of healthy and PVYNTN infected potato tuber tissues (necrotic and non-necrotic)

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2018-05-16 | E-MTAB-5776 | biostudies-arrayexpress

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