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 Resources>>Transcriptomics Analysis>>Drought Tolerance:
I. Phenotype for drought tolerance

Sample instruction: Morphological responses of sensitive (DS) and tolerant (DT) sesame genotypes. The leaves of DS suffer more damage than those of DT during stress. d0, d1, d2, d3 and d4: plants stressed for 0, 3, 7, 11 days and 3 days of recovery after rewatering, respectively [1].

II. Expression analysis among different samples in sesame

In this project, we employed Bowtie 2 to calculate the expression values of sesame genes among 10 samples, including sesame sensitive (DS) and tolerant (DT) samples [2]. After curation, 21,577 genes, representing 79.483% of all sesame genes (27,148), were detected to express among 10 samples in sesame.

III. Co-expression analysis by WGCNA

WGCNA is a comprehensive collection of R functions for performing various aspects of weighted correlation network analysis. The package includes functions for network construction, module detection, gene selection, calculations of topological properties, data simulation, visualization, and interfacing with external software. Along with the R package we also present R software tutorials. While the methods development was motivated by gene expression data, the underlying data mining approach can be applied to a variety of different settings [3].

In this project, the members of module were confirmed with the parameter: kME > 0.7, FPKM > 1 and minimum module size: 30. After curation, 6,116 genes were used to perform co-expression analysis of sesame genes among 10 samples.

Note: Click the different color blocks on the left side of below pictures to get co-expression genes in this experiments

 
Reference:

1. Komivi Dossa, Donghua Li, Linhai Wang, Xiaomin Zheng, Aili Liu, Jingyin Yu, Xin Wei, Rong Zhou, Daniel Fonceka, Diaga Diouf, Boshou Liao, Ndiaga Cissé & Xiurong Zhang. Transcriptomic, biochemical and physio-anatomical investigations shed more light on responses to drought stress in two contrasting sesame genotypes. Scientific Reports 2017, 7: 8755, DOI:10.1038/s41598-017-09397-6.

2. Langmead, B. & Salzberg, S. L. Fast gapped-read alignment with Bowtie 2. Nat. Methods. 2012, 9, 357–359.

3. Haiyang Zhang, Hongmei Miao, Lei Wang, Lingbo Qu, Hongyan Liu, Qiang Wang and Meiwang Yue.Genome sequencing of the important oilseed crop Sesamum indicum L. Genome Biology 2013, 14:401, http://genomebiology.com/2013/14/1/401

 

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