[1]陆叶,翁禹豪,郑雪燕,等.翻白叶树叶绿体基因组及特征分析[J].江苏林业科技,2025,52(04):1-7.[doi:10.3969/j.issn.1001-7380.2025.04.001]
　Lu Ye,Weng Yuhao,Zheng Xueyan,et al.The chloroplast genome and characteristics analysis of Pterospermum heterophyllum[J].Journal of Jiangsu Forestry Science &Technology,2025,52(04):1-7.[doi:10.3969/j.issn.1001-7380.2025.04.001]
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翻白叶树叶绿体基因组及特征分析()
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《江苏林业科技》[ISSN:1001-7380/CN:32-1236/S]

卷:
第52卷
期数:
2025年04期
页码:
1-7
栏目:
试验研究
出版日期:
2025-08-31

文章信息/Info

Title:
The chloroplast genome and characteristics analysis of Pterospermum heterophyllum
文章编号:
1001-7380（2025）04-0001-07
作者:
陆叶1; 翁禹豪1; 郑雪燕2; 李勇2; 叶代全2*
1.南京林业大学林木遗传与生物技术省部共建教育部重点实验室、南方现代林业协同创新中心、南京林业大学林草学院，江苏 南京 210037;
2. 福建省洋口林场国家杉木种质资源库,福建 南平 353200
Author(s):
Lu Ye1;  Weng Yuhao1;  Zheng Xueyan2;  Li Yong2;  Ye Daiquan2*
1. Key Laboratory of Forest Genetics & Biotechnology of Ministry of Education of China, Co-Innovation Center for Sustainable Forestry in Southern China, College of Forestry and Grassland, Nanjing Forestry University, Nanjing 210037,China;
2. National Germplasm Bank of Chinese Fir at Fujian Yangkou Forest Farm, Nanping 353200, China
关键词:
翻白叶树;  叶绿体基因组;  密码子偏好性;  系统发育分析
Keywords:
Pterospermum heterophyllum;  Chloroplast genome;  Codon preference;  Phylogenetic analysis
分类号:
Q732；Q75；Q789
DOI:
10.3969/j.issn.1001-7380.2025.04.001
文献标志码:
A
摘要:
翻白叶树是中国南方的常绿树种，具有重要的经济和药用价值。通过Illumina HiSeq X ten高通量测序平台，对翻白叶树叶绿体基因组进行测序、组装和注释，分析翻白叶树的叶绿体基因组特征及系统发育关系。结果表明，翻白叶树叶绿体全基因组具有典型的四分体结构，全长为162 843 bp，共注释126个基因，其中包括81个蛋白编码基因、37个tRNA和8个rRNA。密码子偏好性分析表明，翻白叶树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284个SSR位点，其中单碱基重复的SSR位点最多，有171个，6碱基重复最少，仅有2个。翅子树属叶绿体基因组比较分析显示，反向重复区域的位置和边界区域的基因分布存在收缩与扩张的现象。系统发育分析表明，翻白叶树与景东翅子树、勐仑翅子树、截裂翅子树和蚬木亲缘关系较近。该研究为翻白叶树的分子标记开发、物种鉴定以及遗传多样性评估等研究提供重要的理论依据。
Abstract:
Pterospermum heterophyllum is an evergreen tree in south China with high economic and pharmaceutical values. In this study, the chloroplast genome was sequenced, assembled, and annotated using Illumina HiSeq X ten sequence platform. The results showed that the P. heterophyllum chloroplast genome have a typical tetrad structure, with a total length of 162 843 bp, which incode 126 genes, including 81 protein-coding genes, 37 tRNA and 8 rRNA. Codon preference analysis showed that the codon with A or U endings were preferred, with the highest frequency of Leu and the lowest of Cys. In the chloroplast genomes, 284 SSR loci were identified, with the highest number of single nucleotide repeats 171 and the lowest number of hexanucleotide repeats 2. Comparison of the chloroplast genome among four Pterospermum species indicated that there were expansion and contraction at IR boundaries. Phylogenetic analysis revealed that P. heterophyllum was closely related to P. kingtungense, P. menglunense, P. truncatolobatum, and Excentrodendron hsienmu. This study provides a theoretical foundation for research on the development of molecular markers, species identification, and genetic diversity assessment of P. heterophyllum.

参考文献/References:

[1]DANIELL H,LIN C S,YU M,et al.Chloroplast genomes: diversity,evolution, and applications in genetic engineering[J].Genome Biology,2016,17(1):134.

[2]BOBIK K,BURCH-SMITH M T.Chloroplast signaling within,between and beyond cells [J].Frontiers in Plant Science,2015,6:781.
[3]XIONG A S,PENG R H,ZHUANG J,et al.Gene duplication,transfer,and evolution in the chloroplast genome[J].Biotechnology Advances,2009,27(4):340-347.
[4]DANIELLH,JIN S,ZHU X G,et al.Green giant—a tiny chloroplast genome with mighty power to produce high-value proteins:history and phylogeny[J].Plant Biotechnol Journal,2021,19(3):430-477.
[5]BYNG J W,CHASE M W,CHRISTENHUSZ M J M,et al.An update of the angiosperm phylogeny group classification for the orders and families of flowering plants:APG IV[J].Botanical Journal of the Linnean Society,2016,181(1):1-20.
[6]中国科学院中国植物志委员会.中国植物志[M].北京:科学出版社,1984.?/div>
[7]李东飞,李敏华,李远,等.变脸树——翻白叶树[J].中国木材,2011(3):12-13.
[8]YANG L,LIU R H,FAN A G,et al.Chemical composition of Pterospermum heterophyllum root and its anti-arthritis effect on adjuvant-induced arthritis in rats via modulation of inflammatory responses [J].Frontiers in Pharmacology,2020,11:584849.
[9]石妍,李帅,李红玉,等.翻白叶树根化学成分的研究[J].中国中药杂志,2008,33(16): 1994-1996.
[10]王蒙蒙,李帅,罗光明,等.翻白叶树根的化学成分研究[J].中草药,2012,43(9):1699-1703.
[11]LI S,SHI Y,SHANG X Y,et al.Triterpenoids from the roots of Pterospermum heterophyllum Hance [J].Journal of Asian Natural Products Research,2009,11(7):652-657.
[12]LI D X,YIN Y P,LI J,et al.Bibenzyl and phenolic glycosides from Pterospermum heterophyllum[J].Phytochemistry Letters,2015,11:220-223.
[13]姚振生,刘贤旺,刘庆华,等.半枫荷类药用植物的种类及鉴别[J].江西中医学院学报,1994, (2):38-39,46.
[14]ALEMAN J L F,OUFASKA Y.SAMTool,a tool for deducing and implementing loop patterns[C]//Proceedings of the Fifteenth Annual Conference on Innovation and Technology in Computer Science Education. Ankara: Bilkent University Press, 2010:68-72.
[15]CHEN S F,ZHOU Y Q,CHEN Y R,et al.Fastp: an ultra-fast all-in-one FASTQ preprocessor [J].Bioinformatics,2018,34(17):884-890.
[16]ZERBINO D R,BIRNEY E.Velvet: Algorithms for de novo short read assembly using de Bruijn graphs[J].Genome Research,2008,18(5):821-829.
[17]CHAN P P,LOWE T M.tRNAscan-SE:searching for tRNA genes in genomic sequences[J]. Gene Prediction:Methods in Molecular Biology,2019,1962:1-14.
[18]SIEVERS F,HIGGINS D G. Clustal Omega for making accurate alignments of many protein sequences[J].Protein Science,2018,27(1):135-145.
[19]STAMATAKIS A.RAxML version 8:a tool for phylogenetic analysis and post-analysis of large phylogenies[J].Bioinformatics,2014,30(9):1312-1313.
[20]褚振州,古丽巴哈尔·依斯拉木,屈泽众,等.同域分布的3种木蓼属植物叶绿体基因组比较[J].植物学报,2023,58(3):417-432.
[21]DIEKMANN K,HODKINSON T R,BARTH S.New chloroplast microsatellite markers suitable for assessing genetic diversity of Lolium perenne and other related grass species[J].Annals of Botany,2012,110(6):1327-1339.
[22]ZHU M,FENG P P,PING J Y,et al.Phylogenetic significance of the characteristics of simple sequence repeats at the genus level based on the complete chloroplast genome sequences of Cyatheaceae[J].Ecology and Evolution,2021,11(20):14327–14340.
[23]倪梁红,赵志礼,米玛.药用植物叶绿体基因组研究进展[J].中药材,2015,38(9):1990-1994.
[24]DOBROGOJSKI J,ADAMIEC M, LUCINSKI R.The chloroplast genome: a review[J].Acta Physiologiae Plantarum,2020,42(6):98.
[25]刘潮,吕雁秋,施枝丽,等.蒿属植物叶绿体基因组特征及进化[J].西北林学院学报,2023,38(3):78-86.
[26]王飞,赵文植,董章宏,等.丝兰属6种植物叶绿体基因组特征分析[J].植物研究,2023,43(1):109-119.
[27]蒋礼玲,王琳超,黄新荣,等.藜属植物叶绿体基因组结构与系统进化[J].应用与环境生物学报,2022,28(5):1255-1261.

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备注/Memo

备注/Memo:
收稿日期：2025-05-07;修回日期：2025-06-13
基金项目：福建省种业创新项目“福建省杉木高世代良种创新与产业化开发”（ZYCX-LY-202101）
作者简介：陆叶（1982- ），女，江苏镇江人，实验师，硕士。主要研究方向为林木遗传育种。E-mail：luye@njfu.edu.cn
*通信作者：叶代全（1975- ），男，福建建瓯人，正高级工程师，大学本科毕业。主要研究方向为林木遗传育种与种苗繁育技术推广。E-mail：yklcydq@163.com
更新日期/Last Update: 2025-11-05