Abstract
The full-length single-molecular sequencing and short reads Illumina sequencing were combined to generate the transcripts of adzuki bean with high-quality. A total of 17,636 loci and 60,454 transcripts were detected in this study. To characterize the drought-responsive genes during seed germination in adzuki bean, two varieties, i.e., tolerant and sensitive to drought stress, were selected to conduct analysis of alternative splicing dynamics (AS) and differentially expressed genes (DEGs) by combining the newly assembled draft genome and public adzuki bean reference genome. AS analysis indicated that both the two varieties underwent a little more AS events under control conditions than under drought stress. Among the AS events, IR (intron retention) predominately accounted for 34.3%, whereas AD (alternative donor site) was the least frequent with 15.8%. Meanwhile, 562 long non-coding RNAs, 409 fusion genes and 1208 transcription factors were identified. Moreover, a total of 5,337 DEGs were identified in comparison of the two varieties with drought or control treatments. Notably, 82 DEGs were discovered in the two varieties under drought stress, which might be the candidate in regulation of seed germination to answer for different drought tolerance. The DEGs encoded proteins involved in primary or second metabolism, plant hormone signal transduction, transcript or translation processes, ubiquitin proteasome system, transcription factor, transporters, and so on. The results facilitate to increase the knowledge about the mechanism of drought tolerance during crop seed germination, and provide reference for the breeding of drought-tolerant adzuki bean.
Highlights
Adzuki bean (Vigna angularis L.) is widely planted in East Asian countries such as China, Japan and Korea as a second-most important crop of legume (Lestari et al, 2014)
A total of 269,311,737 paired-end short reads were produced across all libraries by NGS, and 456,416, 374,530 circular consensus sequence reads were yielded for s17033 and s17235 by SMART sequencing, respectively (Supplementary Table S1)
The full length and non-chimeric (FLNC) reads were distinguished by the inclusion of 5 primer, 3 primer, and 3 poly(A) tails from the circular consensus sequence reads
Summary
Adzuki bean (Vigna angularis L.) is widely planted in East Asian countries such as China, Japan and Korea as a second-most important crop of legume (Lestari et al, 2014). Adzuki bean can be used to make desserts or pastry filling (Chen et al, 2015) as well as Adzuki Bean Drought Responsive Transcriptome medicine such as adiuretic and antidote. It is a nutritious food and one significant raw material of food and beverage industry for people’s life and health. Drought stress can decrease crop yield and reduce the water available in the soil (Orsenigo et al, 2017). In many crops, seed germination is one critical phase that is greatly influenced by drought in plant life (Ribeiro et al, 2018). The completion of genome sequencing paved the way for the genomic and functional studies in adzuki bean (Yang et al, 2015)
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