Transcriptome analysis reveals dynamic changes in the salt stress response in Salix

Zhou, Jie; Huang, Jing; Tian, Xueyao; Zheng, Jiwei; He, Xiaoling

doi:10.1007/s11676-019-00941-w

Cited by 12 publications

(8 citation statements)

References 38 publications

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“…Plant transcriptome studies are becoming an integral part of all analyses aimed at determining the impact of biotic or abiotic stresses on various biological processes, cellular components or molecular functions. There are a growing number of publications examining the transcriptomic responses of tree crops and the impact of factors such as drought ( Pucholt et al., 2015 ; Jia et al., 2020 ; Xu et al., 2021 ), salinity ( Yao et al., 2018 ; Zhou et al., 2020 ; Pang et al., 2022 ) and pest resistance ( Wang et al., 2020 ). To date, however, there are no publications showing differences in gene expression under P-deficient conditions.…”

Section: Discussionmentioning

confidence: 99%

Large effect of phosphate-solubilizing bacteria on the growth and gene expression of Salix spp. at low phosphorus levels

Koczorski,

Furtado,

Baum

et al. 2023

Front. Plant Sci.

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Phosphorus is one of the most important nutrients required for plant growth and development. However, owing to its low availability in the soil, phosphorus is also one of the most difficult elements for plants to acquire. Phosphorus released into the soil from bedrock quickly becomes unavailable to plants, forming poorly soluble complexes. Phosphate-solubilizing bacteria (PSB) can solubilize unavailable phosphorus-containing compounds into forms in which phosphorus is readily available, thus promoting plant growth. In this study, two willow species, Salix dasyclados cv. Loden and Salix schwerinii × Salix viminalis cv. Tora, were inoculated with two selected bacterial strains, Pantoea agglomerans and Paenibacillus spp., to evaluate the plant growth parameters and changes in gene expression in the presence of different concentrations of tricalcium phosphate: 0 mM (NP), 1 mM (LP), and 2 mM (HP). Inoculation with PSB increased root, shoot and leaf biomass, and for the HP treatment, significant changes in growth patterns were observed. However, the growth responses to plant treatments tested depended on the willow species. Analysis of the leaf transcriptomes of the phosphate-solubilizing bacterium-inoculated plants showed a large variation in gene expression between the two willow species. For the Tora willow species, upregulation of genes was observed, particularly for those involved in pathways related to photosynthesis, and this effect was strongly influenced by bacterial phosphate solubilization. The Loden willow species was characterized by a general downregulation of genes involved in pathway activity that included ion transport, transcription regulation and chromosomes. The results obtained in this study provide an improved understanding of the dynamics of Salix growth and gene expression under the influence of PSB, contributing to an increase in yield and phosphorus-use efficiency.

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Section: Discussionmentioning

confidence: 99%

Large effect of phosphate-solubilizing bacteria on the growth and gene expression of Salix spp. at low phosphorus levels

Koczorski,

Furtado,

Baum

et al. 2023

Front. Plant Sci.

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“…Genes with a false discovery rate (FDR) adjusted P value of < 0.05 (FDR = 5%) and absolute fold change ≥ 2 were considered differentially expressed. Annotation of DEGs and KEGG functional enrichment followed the method described by Zhou et al (2020) [62]. The abundance of DEGs were normalized based on the z-score and the heatmap was performed using Omicsmart, a dynamic real-time interactive online platform for data analysis (http:// www.…”

Section: Transcriptome Sequencing and Deg Identificationmentioning

confidence: 99%

Different color regulation mechanism in willow barks determined using integrated metabolomics and transcriptomics analyses

et al. 2022

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Background The rich yellow-orange to vividly deep red bark of willow (Salix spp.) branches have high ornamental and economic value. However, the mechanism underlying the regulation of willow branch color remains unknown. Therefore, we performed metabolomics and transcriptomics analyses of purple, green, and red willow barks to elucidating the mechanisms regulating color development. Results Seven anthocyanins were isolated; pelargonidin, petunidin 3-O-rutinoside, and cyanin chloride were the most abundant in red bark, whereas pelargonin chloride was most abundant in purple bark. The green bark contained the highest level of malvidin; however, the malvidin level was not significantly higher than in the red bark. The purple bark contained the largest amount of canthaxanthin, a carotenoid pigment. The integrated pathways of flavonoid biosynthesis, carotenoid biosynthesis, and porphyrin and chlorophyll metabolism were constructed for the willow barks. Among the three barks, the expression of the structural genes ANS, ANR, and BZ1, which are involved in anthocyanin synthesis, was the highest in red bark, likely causing anthocyanin accumulation. The expression of CrtZ, which participates in the carotenoid pathway, was the highest in purple bark, likely leading to canthaxanthin accumulation. The high expression of DVR, POR, and CRD1 may be associated with green pigment synthesis in the chlorophyll biosynthesis pathway. Conclusions Purple bark color is co-regulated by anthocyanins and carotenoids, whereas red bark is characterized by anthocyanin accumulation and chlorophyll degradation. The green pigment is regulated by maintaining chlorophyll synthesis. BZ1 and CrtZ are candidate genes regulating anthocyanin and canthaxanthin accumulation in red and purple barks respectively. Collectively, our results may facilitate the genetic breeding and cultivation of colorful willows with improved color and luster.

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“…DEGs analysis was performed using DESeq2 software (and by edgeR within a group between two samples). Annotation of DEGs and KEGG functional enrichment followed the method of Zhou [53].…”

Section: Rna Isolation and Transcriptome Sequencingmentioning

confidence: 99%

Integrated Metabolomics and Transcriptomics Analyses Reveal Anthocyanin and Carotenoid Biosynthesis Involved in Color Development in Willow Bark

Zhou

Guo

Chen

et al. 2022

Preprint

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Background The rich yellow-orange to vividly deep red bark of willow (Salix spp.) branches have great ornamental and economic value. The mechanism of willow branch color has not been clarified yet. ResultsTo study the mechanisms regulating color development, we performed metabolomics and transcriptomics analyses using purple, green, and red willow barks. Seven anthocyanins were isolated; pelargonidin, petunidin 3-O-rutinoside, and cyanin chloride were the most abundant in the red bark and pelargonin chloride in the purple bark. Among the barks, green bark had the highest level of malvidin, but its level was not significantly higher than in the red bark; the purple bark had the highest amount of canthaxanthin, a carotenoid pigment. The integrated biosynthetic pathway of flavonoid, carotenoid, and chlorophyll was constructed for willow barks. Among the three barks, the expression of the structural genes ANS, ANR, and BZ1, involved in anthocyanin synthesis, was highest in the red bark, likely causing anthocyanin accumulation. The highest expression of CrtZ, involved in the carotenoid pathway, was observed in the purple bark, likely causing canthaxanthin accumulation. The high expression of DVR, POR, and CRD1 may be associated with the green pigment synthesis in chlorophyll biosynthetic pathway. Our research findings will facilitate genetic breeding to improve the color and luster of willows. ConclusionsIn conclusion, the purple bark is co-regulated by anthocyanins and carotenoids. The red bark is characterized by anthocyanin accumulation and chlorophyll degradation. The green pigment is regulated by maintaining of chlorophyll synthesis. The key regulation genes BZ1, CrtZ could be candidate genes regulating anthocyanin and canthaxanthin accumulation in red and purple barks. Our research findings facilitate the genetic breeding and cultivation of colorful willows with improved color and luster.

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Transcriptome analysis reveals dynamic changes in the salt stress response in Salix

Cited by 12 publications

References 38 publications

Large effect of phosphate-solubilizing bacteria on the growth and gene expression of Salix spp. at low phosphorus levels

Large effect of phosphate-solubilizing bacteria on the growth and gene expression of Salix spp. at low phosphorus levels

Different color regulation mechanism in willow barks determined using integrated metabolomics and transcriptomics analyses

Integrated Metabolomics and Transcriptomics Analyses Reveal Anthocyanin and Carotenoid Biosynthesis Involved in Color Development in Willow Bark

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