Transcriptome unveiled the gene expression patterns of root architecture in drought-tolerant and sensitive wheat genotypes

Rasool, Fatima; Khan, Muhammad Ramzan; Schneider, Michael; Uzair, Muhammad; Aqeel, Muhammad; Ajmal, Wajya; Léon, Jens; Naz, Ali Ahmed

doi:10.1016/j.plaphy.2022.02.025

Cited by 15 publications

(9 citation statements)

References 52 publications

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“…76 Similarly, isoflavonoid compounds have the capability in protecting plants from organic pollutants. 77 Thus, these results indicated the key role of CYP450s in the BDE-47 transformation in wheat. In addition, nitrate reductases (NaRs) and glutathione S-transferases (GSTs) were documented to be the key enzymes in plant degradation of PBDEs.…”

Section: ■ Results and Discussionmentioning

confidence: 66%

Novel Insights into Uptake, Translocation, and Transformation Mechanisms of 2,2′,4,4′-Tetra Brominated Diphenyl Ether (BDE-47) in Wheat (Triticum aestivum L.): Implication by Compound-Specific Stable Isotope and Transcriptome Analysis

Wang,

Liu

et al. 2023

Environ. Sci. Technol.

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The uptake, translocation, and transformation of 2,2′,4,4′-tetra brominated diphenyl ether (BDE-47) in wheat (Triticum aestivum L.) were comprehensively investigated by hydroponic experiments using compound-specific stable isotope analysis (CSIA) and transcriptome analysis. The results indicated that BDE-47 was quickly adsorbed on epidermis of wheat roots and then absorbed in roots via water and anion channels as well as an active process dependent on energy. A small fraction of BDE-47 in roots was subjected to translocation acropetally, and an increase of δ 13 C values in shoots than roots implied that BDE-47 in roots had to cross at least one lipid bilayer to enter the vascular bundle via transporters. In addition, accompanied by the decreasing concentrations, δ 13 C values of BDE-47 showed the increasing trend with time in shoots, indicating occurrence of BDE-47 transformation. OH-PBDEs were detected as transformation products, and the hydroxyl group preferentially substituted at the ortho-positions of BDE-47. Based on transcriptome analysis, genes encoding polybrominated diphenyl ether (PBDE)-metabolizing enzymes, including cytochrome P450 enzymes, nitrate reductases, and glutathione S-transferases, were significantly upregulated after exposure to BDE-47 in shoots, further evidencing BDE-47 transformation. This study first reported the stable carbon isotope fractionation of PBDEs during translocation and transformation in plants, and application of CSIA and transcriptome analysis allowed systematically characterize the environmental behaviors of pollutants in plants.

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Section: ■ Results and Discussionmentioning

confidence: 66%

Novel Insights into Uptake, Translocation, and Transformation Mechanisms of 2,2′,4,4′-Tetra Brominated Diphenyl Ether (BDE-47) in Wheat (Triticum aestivum L.): Implication by Compound-Specific Stable Isotope and Transcriptome Analysis

Wang,

Liu

et al. 2023

Environ. Sci. Technol.

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“…For the functional prediction of OsARR‐B genes, GO analysis was performed. Different OsARR‐B genes showed responses in stimulus of environmental stress and they help in survival of the plants by regulating different BPs, MFs, and CCs (Figure 4; Rasool et al, 2022b). Previously it was reported that miRNAs respond against the environmental stress stimuli, and regulate the gene expression by binding on the 3′‐UTR of the mRNA and inhibit the synthesis of proteins (O'Brien et al, 2018; Rasool et al, 2021; Yan et al, 2019).…”

Section: Discussionmentioning

confidence: 99%

Role of the type‐B authentic response regulator gene family in fragrant rice under alkaline salt stress

Rehman

Uzair²,

Chao

et al. 2022

Physiologia Plantarum

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Globally, rice is being consumed as a main staple food and faces different kinds of biotic and abiotic stresses such drought, salinity, and pest attacks. Through the cytokinin signaling, Type‐B authentic response regulators (ARR‐Bs) respond positively towards the environmental stimuli. ARR‐Bs are involved in abiotic stress tolerance and plant development but their molecular mechanisms in fragrant rice are still not fully explored. The current study showed the genome‐wide characterization of OsARR‐B genes under alkaline salt stress. Results showed that in total, 24 OsARR‐B genes were found and divided into four subgroups on the basis of a phylogenetic analysis. These genes were located on all rice chromosomes except 8 and 10. Analysis of gene duplications, gene structure, cis‐elements, protein–protein interactions, and miRNA were performed. Gene ontology analysis showed that OsARR‐B genes are involved in plant development through the regulation of molecular functions, biological processes, and cellular components. Furthermore, 117 and 192 RNA editing sites were detected in chloroplast and mitochondrial genes, respectively, encoding proteins of OsARR‐B. In chloroplast and mitochondrial genes, six and nine types of amino acid changes, respectively, were caused by RNA editing, showing that RNA editing has a role in the alkaline salt stress tolerance in fragrant rice. We also used a comparative transcriptome approach to study the gene expression changes in alkaline tolerant and susceptible genotypes. Under alkaline salt stress, OsARR‐B5, OsARR‐B7, OsARR‐B9, OsARR‐B10, OsARR‐B16, OsARR‐B22, and OsARR‐B23 showed higher transcript levels in alkaline salt tolerant genotypes as compared to susceptible ones. Quantitative RT‐PCR showed upregulation of gene expression in the alkaline tolerant genotypes under alkaline stress. Our study explored the gene expression profiling and RESs of two rice contrasting genotypes, which will help to understand the molecular mechanisms of alkaline salt tolerance in fragrant rice.

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“…Antibiotics are a group of secondary metabolites generated by microorganisms or higher organisms in life processes ( Mohr, 2016 ). “Biosynthesis of antibiotics” pathways were significantly enriched in six wheat genotypes under drought stress ( Rasool et al, 2022 ). The enhancement of pyrimidine nucleoside antibiotics can alleviate abiotic stress in Nicotiana tabacum ( Song et al, 2022 ).…”

Section: Discussionmentioning

confidence: 99%

Integrative proteomic and physiological analyses of the molecular response to dessication-stress in Auricularia fibrillifera

et al. 2022

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Drought stress is one of the main factors influencing the growth and development of an organism. Auricularia fibrillifera has strong dessication resistance. In A. fibrillifera under dessication-stress, the melanin content of fruiting bodies elevated significantly by >10-fold compared with the control. Folate content also increased sharply but decreased significantly after rehydration, and amino acid and biotin levels increased by 40.11 and 22.14%, respectively. In proteomic analysis, 1,572 and 21 differentially abundant proteins (DAPs) were identified under dessication-stress and rehydration, respectively. A large number of DAPs were annotated in “amino acid metabolism,” “carbohydrate metabolism,” and “translation” pathways, and the DAPs related to osmotic regulation and antioxidant enzymes were significantly increased in abundance. Transcriptome-proteome association analysis showed that most DAPs (30) were annotated in the “biosynthesis of antibiotics” pathway. DAPs and corresponding differentially expressed genes were all up-regulated in the “biotin biosynthesis” pathway and associated with “folate biosynthesis” and “phenylalanine, tyrosine, and tryptophan biosynthesis.” In the analysis of protein–protein interactions, the DAPs annotated in the “phenylalanine, tyrosine, and tryptophan biosynthesis” pathway had the strongest interactions with other DAPs. These enriched pathways could enhance amino acid, folate, biotin, and melanin levels during desiccation stress, which is consistent with the physiological data (amino acid, folate, biotin, and melanin contents). In addition, many DAPs related to the cytoskeleton were significantly increased in abundance under dessication-stress. Physiological and transcriptome data were in agreement with proteomic results. This work provides valuable insight into the dessication-tolerant mechanisms of A. fibrillifera.

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Transcriptome unveiled the gene expression patterns of root architecture in drought-tolerant and sensitive wheat genotypes

Cited by 15 publications

References 52 publications

Novel Insights into Uptake, Translocation, and Transformation Mechanisms of 2,2′,4,4′-Tetra Brominated Diphenyl Ether (BDE-47) in Wheat (Triticum aestivum L.): Implication by Compound-Specific Stable Isotope and Transcriptome Analysis

Novel Insights into Uptake, Translocation, and Transformation Mechanisms of 2,2′,4,4′-Tetra Brominated Diphenyl Ether (BDE-47) in Wheat (Triticum aestivum L.): Implication by Compound-Specific Stable Isotope and Transcriptome Analysis

Role of the type‐B authentic response regulator gene family in fragrant rice under alkaline salt stress

Integrative proteomic and physiological analyses of the molecular response to dessication-stress in Auricularia fibrillifera

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