Abstract
Chickpea (Cicer arietinum L.) seeds are valued for their nutritional scores and limited information on the molecular mechanisms of chickpea fertilization and seed development is available. In the current work, comparative transcriptome analysis was performed on two different stages of chickpea ovules (pre- and post-fertilization) to identify key regulatory transcripts. Two-staged transcriptome sequencing was generated and over 208 million reads were mapped to quantify transcript abundance during fertilization events. Mapping to the reference genome showed that the majority (92.88%) of high-quality Illumina reads were aligned to the chickpea genome. Reference-guided genome and transcriptome assembly yielded a total of 28,783 genes. Of these, 3399 genes were differentially expressed after the fertilization event. These involve upregulated genes including a protease-like secreted in CO(2) response (LOC101500970), amino acid permease 4-like (LOC101506539), and downregulated genes MYB-related protein 305-like (LOC101493897), receptor like protein 29 (LOC101491695). WGCNA analysis and pairwise comparison of datasets, successfully constructed four co-expression modules. Transcription factor families including bHLH, MYB, MYB-related, C2H2 zinc finger, ERF, WRKY and NAC transcription factor were also found to be activated after fertilization. Activation of these genes and transcription factors results in the accumulation of carbohydrates and proteins by enhancing their trafficking and biosynthesis. Total 17 differentially expressed genes, were randomly selected for qRT-PCR for validation of transcriptome analysis and showed statistically significant correlations with the transcriptome data. Our findings provide insights into the regulatory mechanisms underlying changes in fertilized chickpea ovules. This work may come closer to a comprehensive understanding of the mechanisms that initiate developmental events in chickpea seeds after fertilization.
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Data availability
The transcriptome data deposited into the Gene Expression Omnibus database under accession number GSE217186 and are available at the following URL: https://www.ncbi.nlm.nih.gov/geo/query/acc.cgi?acc=GSE217186.
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Authors would like to express gratitude to the Vice chancellor of Central University of Punjab, India for unconditional support during this course of work. RS acknowledged UGC for JRF fellowship for her doctoral work.
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VK acknowledged the UGC-BSR research Start-Up-Grant for sponsoring this work.
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VK and SKY conceived and designed present work. VK, RS and RS, analyzed the data, RS and VK wrote the manuscript. All authors read and approved the manuscript.
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Singh, R., Shankar, R., Yadav, S.K. et al. Transcriptome analysis of ovules offers early developmental clues after fertilization in Cicer arietinum L.. 3 Biotech 13, 177 (2023). https://doi.org/10.1007/s13205-023-03599-8
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DOI: https://doi.org/10.1007/s13205-023-03599-8