植物学报 ›› 2019, Vol. 54 ›› Issue (4): 441-454.DOI: 10.11983/CBB18191
赵月梅1,杨振艳2,赵永平1,李筱玲1,赵志新1,赵桂仿3,*()
收稿日期:
2018-09-06
接受日期:
2019-04-23
出版日期:
2019-07-10
发布日期:
2020-01-08
通讯作者:
赵桂仿
基金资助:
Yuemei Zhao1,Zhenyan Yang2,Yongping Zhao1,Xiaoling Li1,Zhixin Zhao1,Guifang Zhao3,*()
Received:
2018-09-06
Accepted:
2019-04-23
Online:
2019-07-10
Published:
2020-01-08
Contact:
Guifang Zhao
摘要:
木犀科11属19个种叶绿体基因组的一般特征和变异特征的比较分析显示, 结果表明, 该科叶绿体基因组大小为154-165 kb, 其差异主要是大单拷贝(LSC)长度的差异所致。Jasminum属3个物种的叶绿体基因组长度与其余物种有较大差异, 该属clpP基因内含子和accD基因丢失。共线性分析表明, Jasminum属3个物种多个基因出现基因重排现象, 倒位可能是重排的主要原因。Jasminum属在IRb/SSC和SSC/IRa边界的基因均与其它物种不同; 重复序列与SSR数量检测结果表明, Jasminum属与其余物种在数量及重复长度上差异较大。基于CDS数据构建的系统发育树表明, Abeliophyllum distichum和Forsythia suspensa为木犀科中较早分化的类群。
赵月梅,杨振艳,赵永平,李筱玲,赵志新,赵桂仿. 木犀科植物叶绿体基因组结构特征和系统发育关系. 植物学报, 2019, 54(4): 441-454.
Yuemei Zhao,Zhenyan Yang,Yongping Zhao,Xiaoling Li,Zhixin Zhao,Guifang Zhao. Chloroplast Genome Structural Characteristics and Phylogenetic Relationships of Oleaceae. Chinese Bulletin of Botany, 2019, 54(4): 441-454.
Species | petD | rps12 | clpP | rpoC1 | rps16 |
---|---|---|---|---|---|
1 | 483/1196 | 372/908 | 591/2047 | 2064/2821 | 267/1132 |
2 | 483/1218 | 372/908 | 591/2043 | 2073/2834 | 267/1147 |
3 | 483/1230 | 375/911 | 591/2045 | 2052/2820 | 267/1134 |
4 | 483/1261 | 381/917 | 591/2043 | 2073/2827 | 267/1153 |
5 | 483/1134 | 372/908 | 591/2045 | 2052/2811 | 255/1147 |
6 | 483/1148 | 372/908 | 591/2053 | 2073/2830 | 267/1136 |
7 | 483/1217 | 372/908 | 591/2039 | 2073/2834 | 267/1142 |
8 | 483/1196 | 372/908 | 588/2045 | 2064/2822 | 267/1131 |
9 | 483/1196 | 381/917 | 660 | 2076/2844 | 267/1162 |
10 | 483/1203 | 387/923 | 786 | 2052/2808 | 267/1154 |
11 | 483/1213 | 387/923 | 786 | 2052/2807 | 267/1161 |
12 | 483/1215 | 381/917 | 591/2041 | 2073/2833 | 267/1143 |
13 | 483/1217 | 372/908 | 591/2043 | 2073/2830 | 267/1143 |
14 | 483/1215 | 372/908 | 591/2046 | 2073/2832 | 267/1141 |
15 | 483/1213 | 371/907 | 591/2043 | 2073/2831 | 267/1142 |
16 | 483/1213 | 372/908 | 591/2044 | 2073/2831 | 267/1142 |
17 | 483/1215 | 373/909 | 591/2041 | 2073/2833 | 267/1141 |
18 | 483/1203 | 372/908 | 591/2047 | 2073/2834 | 267/1147 |
19 | 483/1199 | 372/913 | 591/2041 | 2073/2784 | 237/1115 |
表2 叶绿体基因组中含内含子蛋白编码基因的编码区长度和基因全长
Table 2 Length of coding region and complete gene of intron-contained protein-coding genes of chloroplast genomes
Species | petD | rps12 | clpP | rpoC1 | rps16 |
---|---|---|---|---|---|
1 | 483/1196 | 372/908 | 591/2047 | 2064/2821 | 267/1132 |
2 | 483/1218 | 372/908 | 591/2043 | 2073/2834 | 267/1147 |
3 | 483/1230 | 375/911 | 591/2045 | 2052/2820 | 267/1134 |
4 | 483/1261 | 381/917 | 591/2043 | 2073/2827 | 267/1153 |
5 | 483/1134 | 372/908 | 591/2045 | 2052/2811 | 255/1147 |
6 | 483/1148 | 372/908 | 591/2053 | 2073/2830 | 267/1136 |
7 | 483/1217 | 372/908 | 591/2039 | 2073/2834 | 267/1142 |
8 | 483/1196 | 372/908 | 588/2045 | 2064/2822 | 267/1131 |
9 | 483/1196 | 381/917 | 660 | 2076/2844 | 267/1162 |
10 | 483/1203 | 387/923 | 786 | 2052/2808 | 267/1154 |
11 | 483/1213 | 387/923 | 786 | 2052/2807 | 267/1161 |
12 | 483/1215 | 381/917 | 591/2041 | 2073/2833 | 267/1143 |
13 | 483/1217 | 372/908 | 591/2043 | 2073/2830 | 267/1143 |
14 | 483/1215 | 372/908 | 591/2046 | 2073/2832 | 267/1141 |
15 | 483/1213 | 371/907 | 591/2043 | 2073/2831 | 267/1142 |
16 | 483/1213 | 372/908 | 591/2044 | 2073/2831 | 267/1142 |
17 | 483/1215 | 373/909 | 591/2041 | 2073/2833 | 267/1141 |
18 | 483/1203 | 372/908 | 591/2047 | 2073/2834 | 267/1147 |
19 | 483/1199 | 372/913 | 591/2041 | 2073/2784 | 237/1115 |
图1 19种木犀科植物叶绿体基因组中重复序列类型和比例 (A) 3种重复类型的数目; (B) 3种重复类型的比例; (C) SSR类型的比例; (D) SSR的数目和类型
Figure 1 The type and percentage of repeated sequences in the chloroplast genomes of 19 species in Oleaceae (A) Number of three type repeats; (B) Percentage of three type repeats; (C) Percentage of SSR types; (D) Number and types of SSRs
图3 木犀科19个物种叶绿体基因组的比对分析 物种编号1-19同表1。以Abeliophyllum distichum叶绿体基因组序列为参考序列(x轴), 各物种叶绿体基因组与参考序列一致度范围为50%-100%(y轴)。箭头表示基因及转录方向。
Figure 3 Graphic view of the alignment of chloroplast genomes from 19 species in Oleaceae The species number 1-19 same as Table 1. Sequence identity varying between 50% and 100% are drawn on the y axis of the plot, the x axis corresponds to the coordinates on the Abeliophyllum distichum chloroplast genome. Arrows indicate the annotated genes and their transcriptional direction.
图4 木犀科19种植物的叶绿体基因组共线性分析 物种编号1-19同表1。
Figure 4 Synteny analyses of chloroplast genomes from 19 species in Oleaceae The species number 1-19 same as Table 1.
图5 基于木犀科19个物种共有蛋白编码基因构建的系统发育树 每个节点附近的数字分别表示ML树的自展支持率和BI树的后验概率。以Cornus controversa、Echites umbellatus和Catharanthus roseus为外类群。ML: 最大似然法; BI: 贝叶斯法
Figure 5 Phylogenetic relationship of 19 species in Oleaceae inferred from ML and BI analyses based on shared protein-coding genes The numbers near each node are bootstrap support values in ML and posterior probability in BI. The outgroups are Cornus controversa, Echites umbellatus and Catharanthus roseus. ML: Maximum likelihood; BI: Bayesian inference
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