Expression analysis of transcription factors in sugarcane during cold stress

Rehman, Shafee Ur; Muhammad, Khushi; Novaes, Evandro; Que, Youxiong; Din, Abd Rahman Jabir Mohd; Islam, Mohammad Mazharul; Porto, Antônio Carlos Mota; Inamullah, .; Sajid, Muhammad; Ullah, Najeeb; Iqsa, S.

doi:10.1590/1519-6984.242603

Cited by 6 publications

(5 citation statements)

References 44 publications

Supporting

Mentioning

Contrasting

Order By: Relevance

“…Soil salinity tolerance in non-cultivated grasses might revolutionize the grassland conservation and development initiatives, leading to ensuring food security and poverty alleviation on a wide scale. Similar results have been reported for sugarcane gene editing for imparting tolerance against other abiotic stresses including water-logging, cold or chilling stress, and heavy metal toxicity using a precise genome editing technique like CRISR/Cas9 ( Tiwari et al., 2010 ; Rehman et al., 2021 ; Riyazuddin et al., 2022 ).…”

Section: Crispr/cas9 In Sugarcane and Potential Application For Non-c...supporting

confidence: 81%

“…( Hoy, 1994 ; Comstock, 2002 ; Fitch et al., 2001 ; Viswanathan and Rao, 2011 ; Hussain et al., 2018 ) and abiotic stresses (especially drought, heat, salinity, water logging, heavy metal toxicity, etc.) in an environmentally friendly manner ( Gomathi et al., 2015 ; Tiwari and Lata, 2018 ; Baig et al., 2020 ; Rehman et al., 2021 ; Riyazuddin et al., 2022 ). Most importantly, this technique in sugarcane has been utilized for developing high-yielding cultivars that require fewer inputs including water, fertilizers, pesticides, etc.…”

Section: Crispr/cas9 In Sugarcane and Potential Application For Non-c...mentioning

confidence: 99%

See 1 more Smart Citation

Leveraging the sugarcane CRISPR/Cas9 technique for genetic improvement of non-cultivated grasses

Li,

Iqbal

2024

Front. Plant Sci.

View full text Add to dashboard Cite

Under changing climatic scenarios, grassland conservation and development have become imperative to impart functional sustainability to their ecosystem services. These goals could be effectively and efficiently achieved with targeted genetic improvement of native grass species. To the best of our literature search, very scant research findings are available pertaining to gene editing of non-cultivated grass species (switch grass, wild sugarcane, Prairie cordgrass, Bermuda grass, Chinese silver grass, etc.) prevalent in natural and semi-natural grasslands. Thus, to explore this novel research aspect, this study purposes that gene editing techniques employed for improvement of cultivated grasses especially sugarcane might be used for non-cultivated grasses as well. Our hypothesis behind suggesting sugarcane as a model crop for genetic improvement of non-cultivated grasses is the intricacy of gene editing owing to polyploidy and aneuploidy compared to other cultivated grasses (rice, wheat, barley, maize, etc.). Another reason is that genome editing protocols in sugarcane (x = 10–13) have been developed and optimized, taking into consideration the high level of genetic redundancy. Thus, as per our knowledge, this review is the first study that objectively evaluates the concept and functioning of the CRISPR (clustered regularly interspaced short palindromic repeats)/Cas9 technique in sugarcane regarding high versatility, target specificity, efficiency, design simplicity, and multiplexing capacity in order to explore novel research perspectives for gene editing of non-cultivated grasses against biotic and abiotic stresses. Additionally, pronounced challenges confronting sugarcane gene editing have resulted in the development of different variants (Cas9, Cas12a, Cas12b, and SpRY) of the CRISPR tool, whose technicalities have also been critically assessed. Moreover, different limitations of this technique that could emerge during gene editing of non-cultivated grass species have also been highlighted.

show abstract

Section: Crispr/cas9 In Sugarcane and Potential Application For Non-c...supporting

confidence: 81%

Section: Crispr/cas9 In Sugarcane and Potential Application For Non-c...mentioning

confidence: 99%

Leveraging the sugarcane CRISPR/Cas9 technique for genetic improvement of non-cultivated grasses

Li,

Iqbal

2024

Front. Plant Sci.

View full text Add to dashboard Cite

show abstract

“…Transcription factors (TFs) have been reported to play a molecular switch role of many genes in plants under various environmental stresses (biotic and abiotic) ( Rehman et al., 2021 ; Liu et al., 2022 ). As one of the most critical TFs functioning in the low-temperature signal transduction, C-repeat binding factors (CBFs) regulate the downstream gene expression, promote the synergy of multiple functional genes, and enhance the adaptability and resistance of plants ( Gilmour et al., 2000 ; Liu et al., 2022 ).…”

Section: Discussionmentioning

confidence: 99%

Integrated analysis of transcriptomics and metabolomics of peach under cold stress

Tian

Wang

et al. 2023

Front. Plant Sci.

View full text Add to dashboard Cite

Low temperature is one of the environmental factors that restrict the growth and geographical distribution of peach (Prunus persica L. Batsch). To explore the molecular mechanisms of peach brunches in response to cold, we analyzed the metabolomics and transcriptomics of ‘Donghe No.1’ (cold-tolerant, CT) and ‘21st Century’ (cold-sensitive, CS) treated by different temperatures (-5 to -30°C) for 12 h. Some cold-responsive metabolites (e.g., saccharides, phenolic acids and flavones) were identified with upregulation only in CT. Further, we identified 1991 cold tolerance associated genes in these samples and they were significantly enriched in the pathways of ‘galactose metabolism’, ‘phenylpropanoid biosynthesis’ and ‘flavonoids biosynthesis’. Weighted gene correlation network analysis showed that soluble sugar, flavone, and lignin biosynthetic associated genes might play a key role in the cold tolerance of peach. In addition, several key genes (e.g., COMT, CCR, CAD, PER and F3’H) were substantially expressed more in CT than CS under cold stress, indicating that they might be major factors during the adaptation of peach to low temperature. This study will not only improve our understanding towards the molecular mechanisms of peach trees under cold stress but also contribute to the screening and breeding program of peach in the future.

show abstract

“…Volcanos were conducted by using R package "ggscatter" (Wodrich et al, 2021). To further understand the potential mechanisms of the signature of different stage of PLGC, Gene Set Enrichment Analysis (GSEA), pathway enrichment analysis were performed (Rehman et al, 2021).…”

Section: Identification Of Key Genes Associated With Plgcmentioning

confidence: 99%

Manpixiao Decoction Halted the Malignant Transformation of Precancerous Lesions of Gastric Cancer: From Network Prediction to In-Vivo Verification

Chen

et al. 2022

Front. Pharmacol.

View full text Add to dashboard Cite

Manpixiao decoction (MPX), a traditional Chinese medicine formula, is mainly used to improve the gastric mucosal pathology and stomach discomfort in patients with gastric precancerous lesions. Precancerous lesion of gastric cancer (PLGC) refers to intestinal metaplasia and/or dysplasia based on gastric mucosal atrophy. Effective prevention and treatment of PLGC is of great significance to reduce the incidence of gastric cancer. Because of the complexity of the etiology and pathogenesis of PLGC, there is no unified and effective treatment plan in western medicine. In recent years, traditional Chinese medicine has shown obvious advantages in the treatment of PLGC and the prevention of its further progression to gastric cancer, relying on its multi-approach and multi-target comprehensive intervention characteristics. This study is designed to examine the protective effect of MPX against PLGC and further to reveal the engaged mechanism via integrating network pharmacology and in vivo experimental evidence. Network pharmacology results demonstrated that inflammation, immune responses, and angiogenesis might be associated with the efficacy of MPX in the treatment of PLGC, in which the PI3K-Akt, cellular senescence, P53 and protein processing in endoplasmic reticulum were involved. Then, we established a rat model of PLGC using a combination of N-methyl-N′-nitro-N-nitrosoguanidine (MNNG), sodium salicylate, irregular fasting, and ranitidine, and observed the effects after MPX treatment. Our result showed that MPX improved the pathological condition of gastric mucosa in PLGC rats and reduced the incidence of gastric cancer. Next, the analysis of serum inflammatory cytokines showed that MPX reduced the inflammation-related cytokines (such as IL-1α, IL-7, CSF-1, and CSF-3) in the serum. Additionally, MPX also had a regulation effect on the “protein/protein phosphorylation-signaling pathway” network in the core region of the PLGC rats. It is showed that MPX can inhibit the phosphorylation of PI3K-AKT, and downregulates the EGFR, β-catenin, and N-cadherin protein levels. These results indicate that MPX halted the PLGC progression through inhibiting EGFR-PI3K-AKT related epithelial-mesenchymal transition process.

show abstract

Expression analysis of transcription factors in sugarcane during cold stress

Cited by 6 publications

References 44 publications

Leveraging the sugarcane CRISPR/Cas9 technique for genetic improvement of non-cultivated grasses

Leveraging the sugarcane CRISPR/Cas9 technique for genetic improvement of non-cultivated grasses

Integrated analysis of transcriptomics and metabolomics of peach under cold stress

Manpixiao Decoction Halted the Malignant Transformation of Precancerous Lesions of Gastric Cancer: From Network Prediction to In-Vivo Verification

Contact Info

Product

Resources

About