Bioinformatics Centre, School of Biotechnology, University of Jammu, Jammu 180006, India; Genome Research Laboratory, School of Biotechnology, University of Jammu, Jammu 180006, India.
Centre for Agricultural Bioinformatics (CABin), ICAR-Indian Agricultural Statistics Research Institute, New Delhi 110012, India.
Genomics. 2020 Jan;112(1):99-107. doi: 10.1016/j.ygeno.2019.07.014. Epub 2019 Jul 26.
Snow Mountain Garlic grows in the high altitudes of the Himalayas under low temperature conditions. It contains various bioactive compounds whose metabolic pathways have not been worked out at genomic level. The present work is the first report on the transcriptome sequencing of this plant. >43 million paired-end reads (301 × 2) were generated using Illumina Miseq sequencing technology. Assembling of the sequencing data resulted in 326,785 transcripts. Differentially expressed genes between the clove and leaf tissues were identified and characterized. Besides, greater emphasis was laid on the genes, which were highly expressed in clove since the latter is assumed to contain high content of the bioactive compounds. Further analysis led to the identification of the genes plausibly involved in the organosulfur metabolism. We also identified several simple sequence repeats and single nucleotide polymorphism. These constitute valuable genetic resource for research and further genetic improvement of the plant.
雪蒜生长在喜马拉雅山的高海拔地区，处于低温环境中。它含有各种生物活性化合物，其代谢途径尚未在基因组水平上阐明。本工作首次对该植物进行了转录组测序。使用 Illumina Miseq 测序技术生成了 >4300 万对末端读段（301×2）。测序数据的组装产生了 326785 个转录本。鉴定并表征了鳞茎和叶片组织之间差异表达的基因。此外，由于鳞茎被认为含有高含量的生物活性化合物，因此更加重视在鳞茎中高度表达的基因。进一步的分析导致了与有机硫代谢可能相关的基因的鉴定。我们还鉴定了几个简单序列重复和单核苷酸多态性。这些为该植物的研究和进一步遗传改良提供了有价值的遗传资源。
