Construction of Saline-Alkali Tolerance Evaluation System and Isolation of Differentially Expressed Genes in High-Oleic Peanut (Arachis hypogaea L.)

As an important source of vegetable oil, peanut (Arachis hypogea L.) with both adequate tolerance and high-oleate could be a profitable choice in saline-alkali soil. In our study, two high-oleic peanut lines derived from the same cross and differing in saline-alkali response were initially identified from our previous field evaluation. In this study they were subjected to saline-alkali stress in pot culture, and their transcriptomes were analyzed. 16L1 possessed multiple characteristics related to saline-alkali stress tolerant, including well-developed green leaves, more pods, elevated proline, high levels of superoxide dismutase, catalase, peroxidase and strong photosynthetic capacity. According to the correlation of various indicators, we have established high-oleic peanut biological saline-alkali tolerance and physiological saline-alkali evaluation system. Ten differentially expressed genes (DEGs) responding to saline-alkali stress were characterized and confirmed by quantitative realtime reverse transcription PCR. A series of analyses of DEGs revealed the importance of secondary metabolites, osmotic adjustment substances, plant hormone signal transduction, and protein kinase in peanut saline-alkali tolerance. The output of this study will help to understand the saline-alkali tolerant mechanism and provide a reference for peanut saline-alkali tolerance.

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Integration of mRNA and miRNA Analysis Reveals the Molecular Mechanism Underlying Salt and Alkali Stress Tolerance in Tobacco

International Journal of Molecular Sciences ◽

10.3390/ijms20102391 ◽

2019 ◽

Vol 20 (10) ◽

pp. 2391 ◽

Cited By ~ 3

Author(s):

Jiayang Xu ◽

Qiansi Chen ◽

Pingping Liu ◽

Wei Jia ◽

Zheng Chen ◽

...

Keyword(s):

Salinity Stress ◽

Regulatory Networks ◽

Molecular Mechanisms ◽

Crop Yields ◽

Antioxidant Activities ◽

Expression Patterns ◽

Differentially Expressed ◽

Alkali Stress ◽

Rna Seq ◽

Alkali Tolerance

Salinity is one of the most severe forms of abiotic stress and affects crop yields worldwide. Plants respond to salinity stress via a sophisticated mechanism at the physiological, transcriptional and metabolic levels. However, the molecular regulatory networks involved in salt and alkali tolerance have not yet been elucidated. We developed an RNA-seq technique to perform mRNA and small RNA (sRNA) sequencing of plants under salt (NaCl) and alkali (NaHCO3) stress in tobacco. Overall, 8064 differentially expressed genes (DEGs) and 33 differentially expressed microRNAs (DE miRNAs) were identified in response to salt and alkali stress. A total of 1578 overlapping DEGs, which exhibit the same expression patterns and are involved in ion channel, aquaporin (AQP) and antioxidant activities, were identified. Furthermore, genes involved in several biological processes, such as “photosynthesis” and “starch and sucrose metabolism,” were specifically enriched under NaHCO3 treatment. We also identified 15 and 22 miRNAs that were differentially expressed in response to NaCl and NaHCO3, respectively. Analysis of inverse correlations between miRNAs and target mRNAs revealed 26 mRNA-miRNA interactions under NaCl treatment and 139 mRNA-miRNA interactions under NaHCO3 treatment. This study provides new insights into the molecular mechanisms underlying the response of tobacco to salinity stress.

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Identification of Immune-Related Risk Characteristics and Prognostic Value of Immunophenotyping in TNBC

Frontiers in Genetics ◽

10.3389/fgene.2021.730442 ◽

2021 ◽

Vol 12 ◽

Author(s):

Jiarong Yi ◽

Zeyu Shuang ◽

Wenjing Zhong ◽

Haoming Wu ◽

Jikun Feng ◽

...

Keyword(s):

Breast Cancer ◽

Differentially Expressed Genes ◽

Triple Negative Breast Cancer ◽

Evaluation System ◽

Triple Negative ◽

Breast Cancer Subtype ◽

The Cancer Genome Atlas ◽

Differentially Expressed ◽

Evaluation Tool ◽

Her 2

Background: Triple-negative breast cancer (TNBC) is not sensitive to targeted therapy with HER-2 monoclonal antibody and endocrine therapy due to lack of ER, PR, and HER-2 receptors. TNBC is a breast cancer subtype with the worst prognosis and the highest mortality rate compared with other subtypes.Materials and Methods: Breast cancer-related data were retrieved from The Cancer Genome Atlas (TCGA) database, and 116 cases of triple-negative breast cancer were identified from the data. GSE31519 dataset was retrieved from Gene Expression Omnibus (GEO) database, comprising a total of 68 cases with TNBC. Survival analysis was performed based on immune score, infiltration score and mutation score to explore differences in prognosis of different immune types. Analysis of differentially expressed genes was conducted and GSEA analysis based on these genes was conducted to explore the potential mechanism.Results: The findings showed that comprehensive immune typing is highly effective and accurate in assessing prognosis of TNBC patients. Analysis showed that MMP9, CXCL9, CXCL10, CXCL11 and CD7 are key genes that may affect immune typing of TNBC patients and play an important role in prediction of prognosis in TNBC patients.Conclusion: The current study presents an evaluation system based on immunophenotyping, which provides a more accurate prognostic evaluation tool for TNBC patients. Differentially expressed genes can be targeted to improve treatment of TNBC.

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