XIONG Haiyan,ZHOU Mei,LI Zhengmin,et al.Characteristics and Genetic Relationships of Chloroplast Genomes of 47 Wild Germplasm Resources of Hydrangea Genus[J].Northern Horticulture,2026,(12):1-10.[doi:10.11937/bfyy.20254421]
四十七种绣球属原生种质叶绿体基因组特征与亲缘关系
- Title:
- Characteristics and Genetic Relationships of Chloroplast Genomes of 47 Wild Germplasm Resources of Hydrangea Genus
- 文章编号:
- 1001-0009(2026)12-0001-10
- Keywords:
- Hydrangea; chloroplast genome; codon usage bias; phylogenetic tree
- 分类号:
- S685.99
- 文献标志码:
- A
- 摘要:
- 以47种绣球原生种质（37个野生原种和10个变种）为试材，采用二代高通量测序方法，对其叶绿体基因组（cpDNA）进行测序与注释，研究了绣球属叶绿体基因组基本结构、密码子偏好性及系统发育聚类特征，以期为绣球种质的遗传育种提供参考依据。结果表明：研究材料叶绿体基因组均为典型四分体结构，基因功能与位置具高度保守性，密码子偏好性不显著；ENC、GC3~GC12、PR2-bias-plot分析显示，47种绣球ENC均大于35，显著性值为0.603~0.623，中性绘图与奇偶偏好分析表明其密码子偏好性主要受自然选择影响；广东绣球（Hydrangea kwangtungensis）、灰绒绣球（Hydrangea mandarinorum）GC含量（38.61%）及GC3（28.59%）存在轻微分化，共筛选出21个最优密码子，且以AU结尾的密码子使用频率最高；叶绿体基因组聚类分析显示，47种绣球主要分为3支，传统分类学各组亲缘关系相近，而叶绿体基因组分类亲缘关系较远，二者存在显著差异，需结合二者优势构建更精准的绣球属分类系统。
- Abstract:
- Taking forty-seven native germplasms of Hydrangea (37 wild species and 10 varieties) as the test materials,next-generation high-throughput sequencing was employed to sequence and annotate their chloroplast genomes (cpDNA).The basic structure,codon usage bias,and phylogenetic clustering characteristics of Hydrangea chloroplast genomes were studied,in order to provide references for the genetic breeding of Hydrangea germplasms.The results showed that all the chloroplast genomes of the studied materials exhibited a typical quadripartite structure,with highly conserved gene functions and positions,and no significant codon usage bias.ENC,GC3-GC12,and PR2-bias-plot analyses revealed that the ENC values of all 47 Hydrangea species were greater than 35,with significance values ranging from 0.603 to 0.623,indicated weak codon usage bias.Neutrality plots and parity preference analyses demonstrated that natural selection was the main force driving codon usage bias.Slight differentiation was observed in the GC content (38.61%) and GC3 (28.59%) of Hydrangea kwangtungensis and Hydrangea mandarinorum.A total of 21 optimal codons were identified,with the highest frequency of AU-ending codons.Phylogenetic clustering analysis of chloroplast genomes showed that the 47 Hydrangea species were mainly divided into three clades.The phylogenetic relationships among groups in traditional taxonomy were close,while those based on chloroplast genome classification were distant,showing significant differences between the two systems.Therefore,combining the advantages of both is necessary to construct a more precise taxonomic system for the genus Hydrangea.
参考文献/References:
［1］谭巍.北方地区八仙花温室繁殖及盆栽管理技术［J］.北方园艺,2024(17):150-154.［2］张启翔.中国绣球属植物资源与分类研究［J］.园艺学报,2008,35(10):1427-1436.［3］刘燕.中国绣球属野生种质资源调查与收集［J］.中国园林,2015,31(5):102-106.［4］SUEOKA N.Directional mutation pressure and neutral molecular evolution［J］.Proceedings of the National Academy of Sciences of the United States of America,1988,85(8):2653-2657.［5］WANG Z X,et al.Research progress on codon usage patterns and influencing factors of plant chloroplast genomes［J］.Chinese Bulletin of Botany,2022,57(3):321-332.［6］PARK S,et al.Complete chloroplast genome sequence of Hydrangea macrophylla and phylogenetic analysis of Hydrangeaceae［J］.Mitochondrial DNA Part B,2019,4(2):3456-3457.［7］王中煊.植物叶绿体基因组密码子使用模式及影响因素研究进展［J］.植物学报,2022,57(3):321-332.［8］ZHANG Q X,et al.Research on resources and classification of Hydrangea plants in China［J］.Acta Horticulturae Sinica,2008,35(10):1427-1436.［9］LIU Y.Investigation and collection of wild germplasm resources of Hydrangea in China［J］.Chinese Landscape Architecture,2015,31(5):102-106.［10］刘霞,孙冲,黄勤琴,等.九叶青花椒叶绿体基因组结构及系统进化分析［J］.林业科学研究,2023,36(1):100-108.［11］徐贝.巴山松及其近缘种的叶绿体基因组比较分析［D］.西安:西北大学,2021.［12］段祥光,于涛,曹萌,等.樟叶槭叶绿体基因组序列密码子偏性分析［J］.西北林学院学报,2023,38(1):102-107.［13］汤晨茜,仇志欣,檀超,等.陕甘花楸叶绿体基因组及其与爪瓣花楸的系统关系［J］.园艺学报,2022,49(3):641-654.［14］郑祎,张卉,王钦美,等.大花君子兰叶绿体基因组及其特征［J］.园艺学报,2020,47(12):2439-2450.［15］刘文丽,王智勇,田春育，等.赖草属叶绿体基因组密码子偏好性分析［J］.中国草地学报,2024,46(2):14-23.［16］杨蕾,董泽阳,王洋,等.白毛银露梅叶绿体全基因组密码子偏好性分析［J］.分子植物育种,2022,20(4):1095-1103.［17］丁祥青,陈丝雨,陈佳婷,等.11种金花茶叶绿体基因组密码子偏好性分析［J］.福建农林大学学报(自然科学版),2023,52(4):473-479.［18］毛立彦,黄秋伟,龙凌云,等.7种睡莲属植物叶绿体基因组密码子偏好性分析［J］.西北林学院学报,2022,37(2):98-107.［19］刘霞, 孙冲, 黄勤琴, 等. 九叶青花椒叶绿体基因组结构及系统进化分析［J］.林业科学研究,2023,36(1):100-108.［20］穆赢通,樊东昌,吕丽娟,等.毛茛科和芍药科叶绿体基因组密码子特征和系统发育比较［J］.植物研究,2022,42(6):964-975.［21］杨晨,姚雪莹,陈志祥,等.红花变豆菜叶绿体基因组结构及同属种间关系研究［J］.植物研究,2022,42(3):437-445.［22］赵飞亚,张捷,尹成龙,等.3种扁核木属植物叶绿体基因组序列及密码子偏好性分析［J］.西南林业大学学报(自然科学),2026,46(2):116-124.
相似文献/References:
[1]孙强,虞秀明,姚红军.绣球属品种资源收集及扦插生根能力比较[J].北方园艺,2016,40(11):71.[doi:10.11937/bfyy.201611019]
SUN Qiang,YU Xiuming,YAO Hongjun.Resource Collection and Comparison of Cuttings Rooting Ability for Hydrangea L.[J].Northern Horticulture,2016,40(12):71.[doi:10.11937/bfyy.201611019]
[2]吴东洋,业宁,徐逸卿,等.狗枣猕猴桃叶绿体基因组微卫星特征分析[J].北方园艺,2018,42(09):30.[doi:10.11937/bfyy.20174592]
WU Dongyang,YE Ning,XU Yiqing,et al.Microsatellite Characteristic Analysis of Chloroplast Genome of Actinidia kolomikta[J].Northern Horticulture,2018,42(12):30.[doi:10.11937/bfyy.20174592]
[3]王继玥,白禹,石登红,等.桑科植物叶绿体基因组研究进展[J].北方园艺,2021,(08):124.[doi:10.11937/bfyy.20200520]
WANG Jiyue,BAI Yu,SHI Denghong,et al.Reseach Progress on Chloroplast Genome of Moraceae Plant[J].Northern Horticulture,2021,(12):124.[doi:10.11937/bfyy.20200520]
[4]李昂,金亮,朱惠琴,等.田葛缕子叶绿体基因组微卫星特征分析[J].北方园艺,2023,(16):96.[doi:10.11937/bfyy.20224010]
LI Ang,JIN Liang,ZHU Huiqin,et al.Characterization Analysis of Microsatellite in Chloroplast Genome of Carum buriaticum Turcz.[J].Northern Horticulture,2023,(12):96.[doi:10.11937/bfyy.20224010]
[5]王宏霞,郑文霞.韭（Allium tuberosum）叶绿体基因组及其特征分析[J].北方园艺,2023,(24):16.[doi:10.11937/bfyy.20231522]
WANG Hongxia,ZHENG Wenxia.Chloroplast Genome and Characteristics Analysis of Allium tuberosum[J].Northern Horticulture,2023,(12):16.[doi:10.11937/bfyy.20231522]
备注/Memo
第一作者简介：熊海燕（1999-）,女,硕士研究生,研究方向为风景园林。E-mail:971726577@qq.com.责任作者：王超（1980-）,男,博士,副教授,现主要从事园林植物资源保护与利用方向等研究工作。E-mail:47188127@qq.com.基金项目：云南省重大科技专项计划资助项目(202202AE090028)；云南省基础研究专项面上资助项目（202401AT070274）；云南省教育厅自然科学资助项目(2025Y0866)；云南省大学生创新创业训练资助项目（20200554052）。收稿日期：2025-12-24