Biotechnology and Climate Change Group, National Research Centre on Plant Biotechnology (ICAR-NRCPB), New Delhi, 110012, India.
Department of Agricultural Microbiology, Faculty of Agricultural Sciences, Aligarh Muslim University, Aligarh, 202002, India.
Sci Rep. 2018 Feb 5;8(1):2406. doi: 10.1038/s41598-018-20548-1.
Ziziphus nummularia (Burm.f.) Wight & Arn., a perennial shrub that thrives in the arid regions, is naturally tolerant to drought. However, there are limited studies on the genomics of drought tolerance in Ziziphus sp. In this study, RNA-sequencing of one month old seedlings treated with PEG 6000 was performed using Roche GS-FLX454 Titanium pyrosequencing. A total of 367,176 raw sequence reads were generated, and upon adapter trimming and quality filtration 351,872 reads were assembled de novo into 32,739 unigenes. Further characterization of the unigenes indicated that 73.25% had significant hits in the protein database. Kyoto encyclopedia of genes and genomes database (KEGG) identified 113 metabolic pathways from the obtained unigenes. A large number of drought-responsive genes were obtained and among them differential gene expression of 16 highly induced genes was validated by qRT-PCR analysis. To develop genic-markers, 3,425 simple sequence repeats (SSRs) were identified in 2,813 unigene sequences. The data generated shall serve as an important reservoir for the identification and characterization of drought stress responsive genes for development of drought tolerant crops.
酸枣（Ziziphus nummularia (Burm.f.) Wight & Arn.）是一种多年生灌木，生长在干旱地区，具有天然的耐旱性。然而，关于酸枣属植物耐旱性的基因组学研究还很有限。本研究采用罗氏 GS-FLX454 Titanium 焦磷酸测序对 PEG 6000 处理一个月大的幼苗进行了 RNA-seq 分析。共生成了 367,176 条原始序列读段，经过接头修剪和质量过滤后，有 351,872 条读段被从头组装成 32,739 条非冗余基因。对非冗余基因的进一步特征分析表明，73.25%的基因在蛋白质数据库中有显著的匹配。京都基因与基因组百科全书（KEGG）从获得的非冗余基因中鉴定出 113 条代谢途径。获得了大量的耐旱相关基因，其中 16 个高度诱导基因的差异基因表达通过 qRT-PCR 分析进行了验证。为了开发基因标记，在 2,813 条非冗余基因序列中鉴定出了 3,425 个简单重复序列（SSR）。生成的数据将作为鉴定和表征耐旱胁迫响应基因的重要资源，以开发耐旱作物。
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