De novoassembly and characterization of the transcriptome and development of microsatellite markers in a Chinese endemicEuphorbia kansui
De novoassembly and characterization of the transcriptome and development of microsatellite markers in a Chinese endemicEuphorbia kansui
复制标题
中国特有甘遂大戟转录组的从头组装和表征以及微卫星标记的开发
DOI：
10.1080/13102818.2020.1788992
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发表时间：
2020
影响因子：
1.4
通讯作者：
Xia Cai
中科院分区：
文献类型：
--
作者：
Xueyan Zhao;Meng Wang;Jia Chai;Qian Li;Yafu Zhou;Yan Li;Xia Cai
甘遂是我国特有的传统药用植物。尽管它的价值，。关西有限公司。在本研究中，使用Illumina配对末端测序技术共生成了43，211，690个高质量读数。组装后，回收了58，362个单一基因，其中N50长度为1，683 bp。36,396.这些unigenes中有62.36%至少有一个爆炸击中多个公共数据库。基于KEGG途径分析，发现unigenes编码催化萜类化合物backone和二萜类化合物形成的已知酶。此外，单基因与催化主要活性成分形成的casbene合酶有关。（二萜类）在E. kansui，被识别。从6，150个单基因中筛选出7，016个微卫星标记，并随机选择40个微卫星标记在两个居群中进行扩增。关西。共扩增出28个位点，其中23个位点表现出多态性。each.locus的等位基因数为2 ~ 8个，平均每个位点的等位基因数为3.391个。观察杂合度和期望杂合度分别为0.100 ~ 1.000和0.099 ~ 0.809。这些微卫星标记的建立将为该特有种的群体遗传学研究提供有用的信息。此外，转录组的信息也将为今后的代谢、萜类化合物的调控、生物合成、遗传和蛋白质组学研究提供有用的资源。关西。
Euphorbia kansui Liou is an endemic and traditional medicinal plant in China. Despite its value,.the genomic and transcriptomic information of E. kansui is limited. In the present study, a total.of 43,211,690 high-quality reads were generated using Illumina paired-end sequencing technology..After assembly, 58,362 unigenes were recovered with an N50 length of 1,683 bp. 36,396.(62.36%) of these unigenes had at least one blast hit against the multiple public databases..Based on KEGG pathway analyses, unigenes were discovered to encode known enzymes that.catalyze the formation of the terpenoid backone and diterpenoid. In addition, the unigenes.related to casbene synthase, which catalyzes the formation of the major active constituents.(diterpenoids) in E. kansui, were identified. For functional marker development, 7,016 candidate.simple sequence repeats (SSR, microsatellites) were identified from 6,150 unigenes, and 40 SSR.loci were selected randomly and amplified in two populations of E. kansui. A total of 28 loci.were amplified successfully and 23 loci exhibited polymorphisms. The number of alleles of each.locus ranged from 2 to 8 alleles and the mean number of alleles per locus was 3.391. The.observed heterozygosity and expected heterozygosity varied from 0.100 to 1.000 and 0.099 to.0.809, respectively. The microsatellite markers developed here will be useful for studies on.population genetics of this endemic species. Moreover, the information of the transcriptome will.provide a useful resource for the future research on metabolism, regulation of the terpenoid.biosynthesis, genetic and proteome studies of E. kansui.