饭甑青冈(Cyclobalanopsisfleuryi)是中国及越南的常绿树种,具有重要的经济和药用价值.该研究以饭甑青冈叶片为材料,通过Illumina HiSeq X ten高通量测序平台,对其叶绿体基因组进行测序、组装和注释.结果表明,饭甑青冈叶绿体全基因组具有典型的四分体结构,全长为160 796 bp,共注释129个基因,其中包括83个蛋白编码基因、38个tRNA基因和8个rRNA基因.密码子偏好性分析表明饭甑青冈的密码子使用模式偏向以A或U结尾,亮氨酸(Leu)密码子使用频率最高,半胱氨酸(Cys)使用率最低.重复序列分析共检测到292个SSR位点,其中单碱基重复的SSR位点最多,有183个,无六碱基重复.壳斗科叶绿体基因组比较分析显示,反向重复区的位置和边界区域的基因分布无明显的收缩与扩张现象.系统发育分析表明,饭甑青冈与云山青冈(C.sessilifolia)、小叶青冈(C.myrsinifolia)亲缘关系密切.该研究为饭甑青冈的分子标记、物种鉴定、遗传多样性分析等研究提供了基础.
Chloroplast genome and characteristics analysis of Cyclobalanopsis fleuryi
Cyclobalanopsis fleuryi is an evergreen tree in south China and Vietnam with high economic and pharmaceutical values.In this study,the chloroplast genome of C.fleuryi was sequenced,assembled,and annotated using Illumina HiSeq X ten sequence platform.The results showed that the C.fleuryi chloroplast genome had a typical tetrad structure,with a total length of 160 796 bp,which contained 129 genes,classified into 83 protein-coding genes,38 tRNA genes and 8 rRNA genes.Codon preference analysis revealed that the codon with A or U endings were preferred,with the highest fre-quency of Leu and the lowest frequency of Cys.In the chloroplast genomes,292 SSR loci were identified,with the highest number of single nucleotide repeats(183)and no hexanucleotide repeats.Comparison of the chloroplast genome among Fa-gaceae family showed that there were no obvious expansion or contraction at IR boundaries.The results of phylogenetic anal-ysis indicated that C.fleuryi was closely related to C.sessilifolia and C.myrsinifolia.This study provides useful resources for molecular markers development,species identification,and genetic diversity analysis of C.fleuryi.
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万方数据
