| 邓演文，刘晓洲，卓定龙，曾 凤.肖蒲桃叶绿体基因组结构特征及系统发育关系[J].广东农业科学,2021,48(6):38-46 |
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肖蒲桃叶绿体基因组结构特征及系统发育关系 |
| Structural Characteristics and Phylogenetic Relationship of Chloroplast Genome of Syzygium acuminatissimum |
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| DOI：10.16768/j.issn.1004-874X.2021.06.006 |
| 中文关键词: 肖蒲桃 叶绿体 系统进化 桃金娘科 蒲桃属 |
| 英文关键词: Syzygium acuminatissimum chloroplast phylogeny Myrtaceae Syzygium |
| 基金项目:广州普邦园林股份有限公司，广东 广州 510627 |
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| 中文摘要: |
| 【目的】肖蒲桃（Syzygium acuminatissimum）是我国南方高价值的硬木树种之一，适宜作为行道
树或园景树。研究揭示肖蒲桃叶绿体基因组的结构特征及系统发育关系，对蒲桃属甚至桃金娘科的分类学研究
具有重要意义。【方法】使用 CTAB 法提取肖蒲桃叶片基因组 DNA。利用 Illumina HiSeq X TEN 平台进行高通量
测序，在 SPAdes v3.13.0 上组装叶绿体基因组，并通过 GeSeq 注释肖蒲桃的完整叶绿体基因组。分析了肖蒲桃叶
绿体基因组的结构特征、序列特征及系统发育关系。【结果】肖蒲桃完整的叶绿体基因组长度为 159 352 bp，共
有 109 个基因，包括 78 个蛋白质编码基因、27 个 tRNA 基因和 4 个 rRNA 基因，其中 17 个基因具有内含子；检
测到 21 379 个密码子，其中丝氨酸密码子最丰富、蛋氨酸密码子最匮乏；检测到 47 个 RNA 可编辑位点，其中
ndhB 基因最多（10 个）；检测到 48 个长片段重复序列，其中 18 个正向重复、6 个反向重复、22 个回文重复和
2 个互补重复；检测到 230 个简单重复序列，其中绝大多数为单核苷酸（205 个）。基因组比较分析结果表明，
4 个蒲桃属植物的 IR 边界有较小差异，核苷酸多样性高于 0.015 的区间有 7 个。系统发育分析结果表明，肖蒲
桃与丁香蒲桃（S. aromaticum）关系密切。【结论】研究结果有助于开展后续的蒲桃属系统发育研究和物种鉴定
工作。 |
| 英文摘要: |
| 【Objective】Syzygium acuminatissimum is a high-value hardwood tree species in southern China. It is
suitable to be planted as a street tree or landscape tree. The study revealed the structural characteristics and phylogenetic
relationship of the chloroplast genome of S. acuminatissimum, which will be of great importance for the taxonomic researches
of Syzygium and even Myrtaceae.【Method】The CTAB method was used to extract genomic DNA from the leaves of S.
acuminatissimum. High-throughput sequencing was conducted through the Illumina HiSeq X TEN platform, the chloroplast
genome was assembled on SPAdes v3.13.0, and the complete chloroplast genome of S. acuminatissimum was annotated
on GeSeq. Then, the structural characteristics, sequence characteristics and phylogenetic relationship of the chloroplast
genome of S. Acuminatissimum were analyzed.【Result】The complete chloroplast genome of S. acuminatissimum was
159 352 bp in length, with 109 annotated genes, including 78 protein-coding genes, 27 tRNA genes and 4 rRNA genes,
of which 17 genes had introns. A total of 21 379 codons were detected, of which serine codons were the most abundant
and methionine codons were the least. 47 RNA editable sites were detected, of which the ndhB genes were the most （10）. 48 long repeat sequences were detected, of which 18 were forward repeats, 6 inverted repeats, 22 palindrome repeats
and 2 complementary repeats. 230 simple repeats were detected, most of which were single nucleotides（205）. Results of
genome comparison analysis showed that the IR boundaries of the 4 Syzygium plants were slightly different, and there were 7
regions with nucleotide diversity higher than 0.015. Results of the phylogenetic analysis showed that S. acuminatissimum and
S. aromaticum were closely related. 【Conclusion】The research results will help to carry out the follow-up researches on the
phylogeny and species identification of Syzygium. |
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