A meta-analysis of transcriptomic profiles reveals molecular pathways response to cadmium stress of Gramineae

Fan, Wei; Liu, Changying; Cao, Boning; Ma, Shuyu; Hu, Jie; Zhang, Xiang; Zhao, Aichun

doi:10.1016/j.ecoenv.2020.111816

Cited by 16 publications

(4 citation statements)

References 78 publications

Supporting

Mentioning

Contrasting

Order By: Relevance

“…It also indicates that samples belong to same cluster possess similar biological functions (Bushel at al., 2018). Many transcriptomic studies revealed expression patterns of specific DEGs and various profiles of metal stress tolerance (Fan et al, 2021). These studies also indicated that selective induction and rapid activation of metal tolerance pathways might be the primary reason for metal resistance in specific plants.…”

Section: Discussionmentioning

confidence: 99%

Reprisal of Schima superba to Mn stress and exploration of its defense mechanism through transcriptomic analysis

Liaquat

Munis²,

Arif³

et al. 2022

Front. Plant Sci.

View full text Add to dashboard Cite

One of the most diverse protein families, ATP-binding cassette (ABC) transporters, play a role in disease resistance, heavy metal tolerance, and food absorption.Differentially expressed genes contribute in the investigation of plant defense mechanisms under varying stress conditions. To elucidate the molecular mechanisms involved in Mn metal stress, we performed a transcriptomic analysis to explore the differential gene expression in Schima superba with the comparison of control. A total of 79.84 G clean data was generated and 6558 DEGs were identified in response to Mn metal stress. Differentially expressed genes were found to be involved in defense, signaling pathways, oxidative burst, transcription factors and stress responses. Genes important in metal transport were more expressive in Mn stress than control plants. The investigation of cis-acting regions in the ABC family indicated that these genes might be targeted by a large variety of trans-acting elements to control a variety of stress circumstances. Moreover, genes involved in defense responses, the mitogen-activated protein kinase (MAPK) signaling and signal transduction in S. superba were highly induced in Mn stress. Twenty ABC transporters were variably expressed on 1st, 5th, and 10th day of Mn treatment, according to the qRT PCR data. Inclusively, our findings provide an indispensable foundation for an advanced understanding of the metal resistance mechanisms. Our study will enrich the sequence information of S. superba in a public database and would provide a new understanding of the molecular mechanisms of heavy metal tolerance and detoxification.

show abstract

Section: Discussionmentioning

confidence: 99%

Reprisal of Schima superba to Mn stress and exploration of its defense mechanism through transcriptomic analysis

Liaquat

Munis²,

Arif³

et al. 2022

Front. Plant Sci.

View full text Add to dashboard Cite

show abstract

“…The Cd concentrations used in studying various species varied from 2 to 500 uM or from 3.3 to 100 mg/kg, the Cd concentration accumulated in roots ranged from 1.5 to 5000 mg/kg. Cd concentrations of roots obtained from most of the studies varied from 100 to 1000 mg/kg and only two of the species (Medicago sativa, and Viola) over 3000 mg/kg ( Fan et al., 2021 ). Our study showed the roots of Tartary buckwheat contained a high concentration (2991.17 mg/kg) of Cd and that no chlorosis and necrosis showed in plants, indicating that this species has a high level of tolerance to Cd.…”

Section: Discussionmentioning

confidence: 99%

“…The toxic effects of Cd have been widely reported in many crops like rice, wheat, maize, potatoes, oilseed rape, and soybean ( Pál et al., 2006 ; Rizwan et al., 2016 ; Qin et al., 2018 ). Physiological and molecular mechanism of Cd stress in these crops has been intensively studied ( Pál et al., 2006 ; Rizwan et al., 2016 ; Abedi and Mojiri, 2020 ; Fan et al., 2021 ). Many antioxidant enzymes like peroxidase (POD), superoxide dismutase (SOD), ascorbate peroxidase (APX), glutathione peroxidase (GPX), catalase (CAT), and nonenzymatic antioxidants glutathione (GSH) play important roles in reducing reactive oxygen species (ROS) that may help alleviate oxidative stress.…”

Section: Introductionmentioning

confidence: 99%

Transcriptomic, cytological, and physiological analyses reveal the potential regulatory mechanism in Tartary buckwheat under cadmium stress

Li²,

Liu³

et al. 2022

Front. Plant Sci.

Self Cite

View full text Add to dashboard Cite

Rapid industrialization and urbanization have caused serious cadmium (Cd) pollution in soil. Tartary buckwheat is an important pseudocereal crop with the potential ability to tolerate various stresses. However, the responses to Cd stress in this species are unclear. In this study, we assessed the phenotypic, cytological, physiological, and transcriptomic characteristics of Tartary buckwheat under the various concentrations of Cd treatments to investigate the responses and their regulatory pathways for the first time. The results showed Tartary buckwheat could tolerate the high Cd concentration of 50 mg/L under Cd stress. The average root diameters increased as a result of more cell layers of the endodermis and the bigger size of the pericycle. Cd primarily accumulated in roots and relatively less transferred to leaves. Antioxidant activities and malondialdehyde (MDA) accumulation varied in different tissues and different Cd concentrations of treatments. Meanwhile, Cd stress led to the formation of Casparian strips in roots and damaged the cytoderm and organelles. The weighted gene co-expression and interaction network analyses revealed that 9 core genes induced by Cd stress were involved in metal ion binding, Ca signal transduction, cell wall organization, antioxidant activities, carbohydrate metabolic process, DNA catabolic process, and plant senescence, which regulated a series of phenotypic, cytological, and physiological changes above. These results laid the foundation for a deep understanding of the responses to Cd toxicity in Tartary buckwheat. It’s also a critical reference for the functional characterization of genes for Cd tolerance.

show abstract

“…Moreover, due to its high solubility in soil, cadmium can be easily extracted by the plant root system [ 11 ], from where it is accumulated in the above-ground regions inhibiting plant growth and causing a threat to animal and human health through the food chain [ 12 ]. Cadmium accumulation-related molecules include many transporters, chelators, some amino acids and organic acids, and the genes encoding the corresponding proteins/enzymes were functionally characterized in both A. thaliana and O. sativa [ 13 ]. A group of transmembrane proteins involved in metal transport and homeostasis is represented by the family of NRAMP metal ion transporters which is supposed to be the major transporter family of Cd 2+ from the soil into root cells [ 14 ].…”

Section: Introductionmentioning

confidence: 99%

Global leaf and root transcriptome in response to cadmium reveals tolerance mechanisms in Arundo donax L

et al. 2022

View full text Add to dashboard Cite

The expected increase of sustainable energy demand has shifted the attention towards bioenergy crops. Due to their know tolerance against abiotic stress and relatively low nutritional requirements, they have been proposed as election crops to be cultivated in marginal lands without disturbing the part of lands employed for agricultural purposes. Arundo donax L. is a promising bioenergy crop whose behaviour under water and salt stress has been recently studied at transcriptomic levels. As the anthropogenic activities produced in the last years a worrying increase of cadmium contamination worldwide, the aim of our work was to decipher the global transcriptomic response of A. donax leaf and root in the perspective of its cultivation in contaminated soil. In our study, RNA-seq libraries yielded a total of 416 million clean reads and 10.4 Gb per sample. De novo assembly of clean reads resulted in 378,521 transcripts and 126,668 unigenes with N50 length of 1812 bp and 1555 bp, respectively. Differential gene expression analysis revealed 5,303 deregulated transcripts (3,206 up- and 2,097 down regulated) specifically observed in the Cd-treated roots compared to Cd-treated leaves. Among them, we identified genes related to “Protein biosynthesis”, “Phytohormone action”, “Nutrient uptake”, “Cell wall organisation”, “Polyamine metabolism”, “Reactive oxygen species metabolism” and “Ion membrane transport”. Globally, our results indicate that ethylene biosynthesis and the downstream signal cascade are strongly induced by cadmium stress. In accordance to ethylene role in the interaction with the ROS generation and scavenging machinery, the transcription of several genes (NADPH oxidase 1, superoxide dismutase, ascorbate peroxidase, different glutathione S-transferases and catalase) devoted to cope the oxidative stress is strongly activated. Several small signal peptides belonging to ROTUNDIFOLIA, CLAVATA3, and C-TERMINALLY ENCODED PEPTIDE 1 (CEP) are also among the up-regulated genes in Cd-treated roots functioning as messenger molecules from root to shoot in order to communicate the stressful status to the upper part of the plants. Finally, the main finding of our work is that genes involved in cell wall remodelling and lignification are decisively up-regulated in giant reed roots. This probably represents a mechanism to avoid cadmium uptake which strongly supports the possibility to cultivate giant cane in contaminated soils in the perspective to reserve agricultural soil for food and feed crops.

show abstract

A meta-analysis of transcriptomic profiles reveals molecular pathways response to cadmium stress of Gramineae

Cited by 16 publications

References 78 publications

Reprisal of Schima superba to Mn stress and exploration of its defense mechanism through transcriptomic analysis

Reprisal of Schima superba to Mn stress and exploration of its defense mechanism through transcriptomic analysis

Transcriptomic, cytological, and physiological analyses reveal the potential regulatory mechanism in Tartary buckwheat under cadmium stress

Global leaf and root transcriptome in response to cadmium reveals tolerance mechanisms in Arundo donax L

Contact Info

Product

Resources

About