Transcriptome profiling analysis for two Tibetan wild barley genotypes in responses to low nitrogen

Quan, Xiaoyan; Zeng, Jianbin; Ye, Lingzhen; Chen, Guang; Zhao, Han; Shah, Jawad Munawar; Zhang, Guoping

doi:10.1186/s12870-016-0721-8

Cited by 85 publications

(83 citation statements)

References 66 publications

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“…Two genes were downregulated while the other ten showed increased expression under N-stress. Two of these transporters are orthologous to the ones differentially expressed in N stress conditions in barley, recently described 18 . Among the DE transporters responsive to ammonium, two orthologues to AMT3-1 from barley were upregulated in durum wheat stressed roots, while one orthologue to Arabidopsis AMT2 was downregulated in stressed roots and one orthologue to Arabidopsis AMT1-4 was upregulated in both stressed flag leaf and leaf/stem tissues (Fig.…”

Section: Resultsmentioning

confidence: 99%

“…In particular, the transcriptomic approach has been widely used recently thanks to its high sensitivity and reproducibility in a number of different species (model and non-model) and experimental conditions 12–14 . Studies concerning cereal responses to nitrogen starvation have been also carried out partially unveiling differential expressed genes (DEGs) involved in these processes for instance in sorghum, rice, barley, and wheat 15–18 . However, the mechanisms regulating N use efficiency (NUE) in wheat (bread and durum) need to be further investigated.…”

Section: Introductionmentioning

confidence: 99%

“…However, the mechanisms regulating N use efficiency (NUE) in wheat (bread and durum) need to be further investigated. From several studies it is known that at molecular level different biological processes are involved in N stress and the expression of many crucial genes is altered in this particular condition 18–22 . Durum wheat [ Triticum turgidum subsp.…”

Section: Introductionmentioning

confidence: 99%

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Transcriptomic response of durum wheat to nitrogen starvation

Curci

Cigliano

Zuluaga

et al. 2017

Sci Rep

126

123

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Nitrogen (N) is a key macronutrient representing a limiting factor for plant growth and development and affects productivity in wheat. In this study, durum wheat response to N chronic starvation during grain filling was investigated through a transcriptomic approach in roots, leaves/stems, flag leaf and spikes of cv. Svevo. Nitrogen stress negatively influenced plant height, tillering, flag leaf area, spike and seed traits, and total N content. RNA-seq data revealed 4,626 differentially expressed genes (DEGs). Most transcriptomic changes were observed in roots, with 3,270 DEGs, while 963 were found in leaves/stems, 470 in flag leaf, and 355 in spike tissues. A total of 799 gene ontology (GO) terms were identified, 180 and 619 among the upregulated and downregulated genes, respectively. Among the most addressed GO categories, N compound metabolism, carbon metabolism, and photosynthesis were mostly represented. Interesting DEGs, such as N transporters, genes involved in N assimilation, along with transcription factors, protein kinases and other genes related to stress were highlighted. These results provide valuable information about the transcriptomic response to chronic N stress in durum wheat, which could be useful for future improvement of N use efficiency.

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Section: Resultsmentioning

confidence: 99%

Section: Introductionmentioning

confidence: 99%

Section: Introductionmentioning

confidence: 99%

See 1 more Smart Citation

Transcriptomic response of durum wheat to nitrogen starvation

Curci

Cigliano

Zuluaga

et al. 2017

Sci Rep

126

123

View full text Add to dashboard Cite

show abstract

“…Transcription factors (TFs) are well-known to be crucial for the regulation of gene expression at the transcriptional level and are responsive to environmental cues by binding to corresponding cis-elements of target genes [52]. In our research, DEGs encoding transcription factors mainly belonging to 14 families were identified, and almost all of them had been previously determined in transcriptional analysis in many plant species [53][54][55]. Among these, ERF, WRKY, bHLH, MYB, NF-Y, and Trihelix families were responsive under N, P, and K starvation conditions.…”

Section: Differential Expressed Transcription Factors May Regulate Mementioning

confidence: 94%

Transcriptomic Analysis Reveals the Molecular Adaptation of Three Major Secondary Metabolic Pathways to Multiple Macronutrient Starvation in Tea (Camellia sinensis)

Zhang

et al. 2020

Genes

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Tea (Camellia sinensis (L.) O. Kuntze) is a widely consumed beverage. Lack of macronutrients is a major cause of tea yield and quality losses. Though the effects of macronutrient starvation on tea metabolism have been studied, little is known about their molecular mechanisms. Hence, we investigated changes in the gene expression of tea plants under nitrogen (N), phosphate (P), and potassium (K) deficient conditions by RNA-sequencing. A total of 9103 differentially expressed genes (DEG) were identified. Function enrichment analysis showed that many biological processes and pathways were common to N, P, and K starvation. In particular, cis-element analysis of promoter of genes uncovered that members of the WRKY, MYB, bHLH, NF-Y, NAC, Trihelix, and GATA families were more likely to regulate genes involved in catechins, l-theanine, and caffeine biosynthetic pathways. Our results provide a comprehensive insight into the mechanisms of responses to N, P, and K starvation, and a global basis for the improvement of tea quality and molecular breeding.

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“…In low potassium treated tobacco, 3 cytochrome P450 members were also up-regulated [37]. The DEGs belong to cytochrome P450 family were also detected from potassium deficiency tomato [38], low-N polar [39], rice [40], sorghum [41] and wild barley [42]. Cytochrome P450 family genes were reported to participate in the biosynthesis of lignin precursors or hormone homeostasis [43], involved in the formation of cell wall and regulated the plant growth [44].…”

Section: Discussionmentioning

confidence: 99%

Transcriptome Changes Induced by Different Potassium Levels in Banana Roots

Lin

et al. 2019

Plants

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Potassium plays an important role in enhancing plant resistance to biological and abiotic stresses and improving fruit quality. To study the effect of potassium nutrient levels on banana root growth and its regulation mechanism, four potassium concentrations were designed to treat banana roots from no potassium to high potassium. The results indicated that K2 (3 mmol/L K 2 SO 4 ) treatment was a relatively normal potassium concentration for the growth of banana root, and too high or too low potassium concentration was not conducive to the growth of banana root. By comparing the transcriptome data in each treatment in pairs, 4454 differentially expressed genes were obtained. There were obvious differences in gene function enrichment in root systems treated with different concentrations of potassium. Six significant expression profiles (profile 0, 1, 2, 7, 9 and 13) were identified by STEM analysis. The hub genes were FKF1, HsP70-1, NRT1/PTR5, CRY1, and ZIP11 in the profile 0; CYP51 in profile 1; SOS1 in profile 7; THA, LKR/SDH, MCC, C4H, CHI, F3 H, 2 PR1s, BSP, TLP, ICS, RO, chitinase and peroxidase in profile 9. Our results provide a comprehensive and systematic analysis of the gene regulation network in banana roots under different potassium stress.Plants 2020, 9, 11 2 of 24 area [18]. The lack of potassium had a significant effect on the growth of rapeseed, and the lack of potassium significantly inhibited the growth of taproots and lateral roots [19]. Potassium deficiency of tobacco decreased root growth and mainly affected the formation and elongation of primary lateral roots [20]. Low potassium not only significantly reduced the dry weight of cabbage root, but also reduced its leaf area [21]. Therefore, the morphological structure of root system was greatly affected by potassium stress. It is significant to study the response mechanism of root system under potassium stress. There has been extensive research on root structural changes in response to stress of nutrients such as phosphate and nitrate and the signaling pathways that mediate these changes [22], and practical breakthroughs have been made. However, the mechanism of root structural change and response to potassium stress is still unclear.With the purpose to explore the molecular mechanism of plant root response to potassium pressure, there are more and more reports on transcriptome, metabolome and proteomics of potassium stress (especially low potassium stress) in recent years. Transcriptome responses to K starvation in Arabidopsis thaliana [16], rice [4], soybean [23] and wild barley [24] indicated that genes related to ion transport, metabolism, signal transduction and protein phosphorylation significantly changed. Transcriptional analysis of sugarcane under low potassium stress showed significant differences in the expression of transcription factors, ion transporters, protein kinases and genes related to oxidative stress in the Ca 2+ signal and ethylene signal pathways [25]. The results of transcriptome of rice potassium deficient seedlings show...

show abstract

Transcriptome profiling analysis for two Tibetan wild barley genotypes in responses to low nitrogen

Cited by 85 publications

References 66 publications

Transcriptomic response of durum wheat to nitrogen starvation

Transcriptomic response of durum wheat to nitrogen starvation

Transcriptomic Analysis Reveals the Molecular Adaptation of Three Major Secondary Metabolic Pathways to Multiple Macronutrient Starvation in Tea (Camellia sinensis)

Transcriptome Changes Induced by Different Potassium Levels in Banana Roots

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