|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,
|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 . 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 .
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
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,