Dataset Information

Transcriptome profiling of sugarcane roots in response to low potassium stress.

ABSTRACT: Sugarcane is the most important crop for supplying sugar. Due to its high biomass, sugarcane needs to absorb a large amount of potassium (K) throughout its lifecycle. In South China, a deficiency of K available in soil restricts the production of sugarcane. Increasing the tolerance of sugarcane to low-K will be an effective approach for improving survival of the crop in this area. However, there is little information regarding the mechanism of tolerance to low-K stress in sugarcane. In this study, a customized microarray was used to analyze the changes in the level of transcripts of sugarcane genes 8 h, 24 h and 72 h after exposure to low-K conditions. We identified a total of 4153 genes that were differentially expressed in at least one of the three time points. The number of genes responding to low-K stress at 72 h was almost 2-fold more than the numbers at 8 h and 24 h. Gene ontology (GO) analysis revealed that many genes involved in metabolic, developmental and biological regulatory processes displayed changes in the level of transcripts in response to low-K stress. Additionally, we detected differential expression of transcription factors, transporters, kinases, oxidative stress-related genes and genes in Ca+ and ethylene signaling pathways; these proteins might play crucial roles in improving the tolerance of sugarcane to low-K stress. The results of this study will help to better understand the molecular mechanisms of sugarcane tolerance to low-K.

SUBMITTER: Zeng Q

PROVIDER: S-EPMC4425431 | biostudies-literature | 2015

REPOSITORIES: biostudies-literature

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Transcriptome profiling of sugarcane roots in response to low potassium stress.

Zeng Qiaoying Q Ling Qiuping Q Fan Lina L Li Yu Y Hu Fei F Chen Jianwen J Huang Zhenrui Z Deng Haihua H Li Qiwei Q Qi Yongwen Y

PloS one 20150508 5

Sugarcane is the most important crop for supplying sugar. Due to its high biomass, sugarcane needs to absorb a large amount of potassium (K) throughout its lifecycle. In South China, a deficiency of K available in soil restricts the production of sugarcane. Increasing the tolerance of sugarcane to low-K will be an effective approach for improving survival of the crop in this area. However, there is little information regarding the mechanism of tolerance to low-K stress in sugarcane. In this stud ...[more]

PMID: 25955765

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Project description:BackgroundIn the previous study, we investigated the alleviation effect of grafting on potassium uptake in roots and tobacco growth inhibition under low potassium stress. However, the effect of grafting on the low potassium stress perception and coping mechanism of tobacco at the whole plant level is not clear now. In order to clearly understand the impact of grafting on potassium deficit responding mechanism in tobacco, a mutual grafting experiment has been conducted in two varieties of tobacco ('Wufeng No.2' and 'Yunyan 87') in different K supply level (5 mmol L- 1 and 0.5 mmol L- 1 K).ResultsThe results show that compared with the self-rooted seedlings, grafting significantly increased the potassium content of the whole plant of Yunyan 87 (97.57 and 189.74% under normal potassium and low potassium conditions, respectively), and the increase in shoots was greater. The data of whole plant K content distribution and tobacco hypocotyls net K+ flux demonstrates that potassium stress makes plants more inclined to maintain K+ in the shoot rather than root. In addition, when K deficiency occurs, grafting could reduce the time required for downward net K+ flux in tobacco hypocotyl to decrease to stable levels. The results of net K+ flux in the roots indicated that K channel proteins and transporters play different roles in two rootstocks in terms of potassium tolerance. Transcription level analysis suggested that the increased circulating efficiency of K+ between the shoots and roots in tobacco constitutes one means to low potassium stress adaptation.ConclusionsGrafting can activate more K+ channels in tobacco 'Yunyan 87', this means a more active K+ cycle, higher potassium content in shoot and faster response to low potassium stress signals in grafting tobacco. In addition, grafting can also change the K+ absorption mode of tobacco root from being dominated by HATS to being jointly responsible by HATS and LATS, greatly improving the ability of K+ transmembrane transportation on root surface under low potassium stress. These are undoubtedly the reasons why grafting tobacco performs better in coping with low potassium stress.

Project description:Eutrema salsugineum can grow in natural harsh environments; however, the underlying mechanisms for salt tolerance of Eutrema need to be further understood. Herein, the transcriptome profiling of Eutrema leaves and roots exposed to 300 mM NaCl is investigated, and the result emphasized the role of genes involved in lignin biosynthesis, autophagy, peroxisome, and sugar metabolism upon salt stress. Furthermore, the expression of the lignin biosynthesis and autophagy-related genes, as well as 16 random selected genes, was validated by qRT-PCR. Notably, the transcript abundance of a large number of lignin biosynthesis genes such as CCoAOMT, C4H, CCR, CAD, POD, and C3'H in leaves was markedly elevated by salt shock. And the examined lignin content in leaves and roots demonstrated salt stress led to lignin accumulation, which indicated the enhanced lignin level could be an important mechanism for Eutrema responding to salt stress. Additionally, the differentially expressed genes (DEGs) assigned in the autophagy pathway including Vac8, Atg8, and Atg4, as well as DEGs enriched in the peroxisome pathway such as EsPEX7, EsCAT, and EsSOD2, were markedly induced in leaves and/or roots. In sugar metabolism pathways, the transcript levels of most DEGs associated with the synthesis of sucrose, trehalose, raffinose, and xylose were significantly enhanced. Furthermore, the expression of various stress-related transcription factor genes including WRKY, AP2/ERF-ERF, NAC, bZIP, MYB, C2H2, and HSF was strikingly improved. Collectively, the increased expression of biosynthesis genes of lignin and soluble sugars, as well as the genes in the autophagy and peroxisome pathways, suggested that Eutrema encountering salt shock possibly possess a higher capacity to adjust osmotically and facilitate water transport and scavenge reactive oxidative species and oxidative proteins to cope with the salt environment. Thus, this study provides a new insight for exploring the salt tolerance mechanism of halophytic Eutrema and discovering new gene targets for the genetic improvement of crops.

Project description:BackgroundCommon vetch (Vicia sativa L.) is an important self-pollinating annual forage legume and is of interest for drought prone regions as a protein source to feed livestock and human consumption. However, the development and production of common vetch are negatively affected by drought stress. Plants have evolved common or distinct metabolic pathways between the aboveground and underground in response to drought stress. Little is known regarding the coordinated response of aboveground and underground tissues of common vetch to drought stress.ResultsOur results showed that a total of 30,427 full-length transcripts were identified in 12 samples, with an average length of 2278.89 bp. Global transcriptional profiles of the above 12 samples were then analysed via Illumina-Seq. A total of 3464 and 3062 differentially expressed genes (DEGs) were identified in the leaves and roots, respectively. Gene Ontology (GO) enrichment analyses identified that the dehydrin genes and Δ1-pyrroline-5-carboxylate synthase were induced for the biosynthesis of proline and water conservation. The Kyoto Encyclopedia of Genes and Genomes (KEGG) enrichment analysis results indicated that the DEGs were significantly enriched in hormone signal transduction, starch and sucrose metabolism, and arginine and proline metabolism, and various drought response candidate genes were also identified. Abscisic acid (ABA; the AREB/ABF-SnRK2 pathway) regulates the activity of AMY3 and BAM1 to induce starch degradation in leaves and increase carbon export to roots, which may be associated with the drought stress responses in common vetch. Among the co-induced transcription factors (TFs), AREB/ABF, bHLH, MYB, WRKY, and AP2/ERF had divergent expression patterns and may be key in the crosstalk between leaves and roots during adaption to drought stress. In transgenic yeast, the overexpression of four TFs increased yeast tolerance to osmotic stresses.ConclusionThe multipronged approach identified in the leaves and roots broadens our understanding of the coordinated mechanisms of drought response in common vetch, and further provides targets to improve drought resistance through genetic engineering.

Dataset Information

Transcriptome profiling of sugarcane roots in response to low potassium stress.

Publications

Transcriptome profiling of sugarcane roots in response to low potassium stress.

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