论著

山东图兰扇头蜱线粒体基因组全序列测定与分析

  • 于莲琪 ,
  • 苏杭丽 ,
  • 王爽 ,
  • 王志涛 ,
  • 卜灿灿 ,
  • 吕文祥 ,
  • 王新梅 ,
  • 刘丽娟 ,
  • 盛兆安 ,
  • 张本光
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  • 1 山东第一医科大学(山东省医学科学院),山东省寄生虫病防治研究所,山东 济宁 272033
    2 山东第一医科大学(山东省医学科学院)公共卫生与健康管理学院,山东 济南 250117
    3 济宁医学院基础医学院病原生物学教研室,山东 济宁 272067
    4 山东第一医科大学(山东省医学科学院)生物医学科学学院(省医药生物技术研究中心),山东 济南 250117
于莲琪(ORCID:0009-0009-6317-1521),女,硕士研究生,从事寄生虫病分子生物学与防控研究。E-mail:13009789089@163.com
*张本光(ORCID:0000-0002-9522-4757),男,硕士,研究员,从事寄生虫病分子生物学与防控研究。E-mail:benguangzhang@163.com;
盛兆安(ORCID:0000-0002-6309-3203),男,博士,讲师,从事寄生虫病分子生物学与防控研究。E-mail:sza9135@163.com

收稿日期: 2025-01-22

  修回日期: 2025-03-18

  网络出版日期: 2025-06-09

基金资助

国家自然科学基金(81902096);济宁医学院贺林院士新医学临床转化工作站科研基金(JYHL2021MS22)

Sequencing and analysis of the complete mitochondrial genome of Rhipicephalus turanicus in Shandong Province

  • YU Lianqi ,
  • SU Hangli ,
  • WANG Shuang ,
  • WANG Zhitao ,
  • BU Cancan ,
  • LV Wenxiang ,
  • WANG Xinmei ,
  • LIU Lijuan ,
  • SHENG Zhaoan ,
  • ZHANG Benguang
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  • 1 Shandong First Medical University and Shandong Academy of Medical Sciences, Shandong Institute of Parasitic Diseases, Jining 272033, Shandong, China
    2 School of Public Health, Shandong First Medical University and Shandong Academy of Medical Sciences, Jinan 250117, Shandong, China
    3 Department of Pathogenic Biology, School of Basic Medical Sciences, Jining Medical College, Jining 272067, Shandong, China
    4 School of Biomedical Sciences (Provincial Pharmaceutical Biotechnology Research Centre), Shandong First Medical University (Shandong Provincial Academy of Medical Sciences), Jinan 250117, Shandong, China

Received date: 2025-01-22

  Revised date: 2025-03-18

  Online published: 2025-06-09

Supported by

National Natural Scienee Foundation of China(81902096);Jining Medical College He Lin Academician New Medicine Clinical Translation Workstation Research Fund(JYHL2021MS22)

摘要

目的 解析图兰扇头蜱(Rhipicephalus turanicus)线粒体全基因组的结构特征与系统发育关系,揭示不同地理种群之间的遗传分化,为进一步开展物种鉴定和系统发育分析等研究提供数据支撑。 方法 2023年8月,于山东省济宁市微山县马坡镇的一只家犬体表采集并鉴定图兰扇头蜱雄蜱1只,提取基因组DNA,采用Illumina测序平台二代测序技术进行测序,并利用Novoplasty软件进行序列组装,拼接完整的线粒体基因组全序列,使用MITOS软件对线粒体基因组进行初步功能注释。基于13个蛋白质编码基因(protein-coding gene,PCG)序列,应用最大似然法构建系统进化树。 结果 测序结果显示,图兰扇头蜱线粒体基因组全长为14 718 bp(GenBank登录号:PV416795),由13个PCG、22个转运RNA基因、2个核糖体RNA和2个非编码区(NCR)组成。线粒体基因组基因之间存在重叠或基因间隔区,碱基组成呈现明显A + T偏向性。PCG以ATA、ATC、ATG和ATT等4种典型的ATN序列作为起始密码子,TAA、TAG、TA、T为终止密码子。在22个tRNA基因二级结构中,除trnC、trnF、trnS1缺少二氢尿嘧啶臂(DHU臂)和二氢尿嘧啶环(DHU环)导致不能形成完整的三叶草结构外,其余均能形成典型的三叶草结构。系统进化分析表明,本研究采集的山东图兰扇头蜱与北京种群(登录号:OM368330)、新疆种群(登录号:KY996841、NC035946、OM368326)共同聚为一支,并与来自以色列(登录号:OQ184023)和沙特阿拉伯(登录号:PP919886)的种群共同构成一个强支持的单系分支。不同地理种群图兰扇头蜱聚为同一高度支持的系统发育分支,表明其具有较强的遗传保守性,同时也显示出一定的地域性遗传分化趋势。 结论 本研究获得了山东图兰扇头蜱线粒体基因组全序列,符合硬蜱科线粒体基因组特征,不同地理种群间存在潜在的遗传分化趋势。

本文引用格式

于莲琪 , 苏杭丽 , 王爽 , 王志涛 , 卜灿灿 , 吕文祥 , 王新梅 , 刘丽娟 , 盛兆安 , 张本光 . 山东图兰扇头蜱线粒体基因组全序列测定与分析[J]. 中国寄生虫学与寄生虫病杂志, 2025 , 43(3) : 377 -384 . DOI: 10.12140/j.issn.1000-7423.2025.03.012

Abstract

Objective To decipher the mitochondrial genome structure and phylogenetic relationships of Rhipicephalus turanicus and investigate the genetic differentiation among different geographical populations of R. turanicus, so as to provide data supports to species identification and phylogenetic analysis. Methods A male R. turanicus tick was collected and identified from the body surface of a domestic dog in Mapo Township, Weishan County, Jining City, Shandong Province on August 2023, and genomic DNA was extracted from the tick for second-generation sequencing on an Illumina high-throughput platform. The complete mitochondrial genome of R. turanicus was assembled using Novoplasty software and the functions of the complete mitochondrial genome were preliminarily annotated with the MITOS software. In addition, phylogenetic trees were constructed using the maximum likelihood method based on the sequences of 13 protein-coding genes (PCGs). Results Second-generation sequencing showed that the complete mitochondrial genome of R. turanicus was 14 718 bp in length (GenBank accession No.: PV416795), which was consisted of 13 PCGs, 22 transfer RNA (tRNA) genes, 2 ribosomal RNA (rRNA) genes, and 2 non-coding regions (NCRs). The complete mitochondrial genome contained overlapping regions or intergenic regions, and the base composition exhibited a clear A + T preference. The PCGs initiated with four typical start codons ATN (ATA, ATC, ATG, and ATT), and terminated with stop codons TAA, TAG, TA and T. Among the secondary structures of 22 tRNA gene, all formed a typical cloverleaf structure except for trnC, trnF, and trnS1, which lacked the dihydrouracil (DHU) arm and DHU loop, resulting in failure in formation of a complete cloverleaf structure. Phylogenetic analysis revealed that the R. turanicus sampled from Shandong Province in this study was clustered with tick populations from Beijing (GenBank accession No.: OM368330) and Xinjiang (GenBank accession No.: KY996841, NC035946, OM368326) into the same clade branch, and was grouped into a strongly supported monophyletic clade with populations from Israel (GenBank accession No.: OQ184023) and Saudi Arabia (GenBank accession No.: PP919886). The R. turanicus populations from different geographic regions were clustered into a highly supported phylogenetic clade, suggesting a high degree of genetic conservation and a tendency towards regional genetic differentiation. Conclusion The complete mitochondrial genome sequence of R. turanicus from Shandong Province has been obtained, which conforms to the mitochondrial genome characteristics of the Ixodidae family, and there is a tendency towards potential genetic differentiation among different geographic populations of R. turanicus.

参考文献

[1] 刘永宏, 李贝贝, 李凯瑞, 等. 新疆南部图兰扇头蜱及卵携带R. raoultii的分子检测[J]. 中国农业科学, 2018, 51(15): 207-215.
  Liu YH, Li BB, Li KR, et al. Molecular detection of R. turanicus and its eggs carrying R. raoultii in southern Xinjiang[J]. Sci Agric Sin, 2018, 51(15): 207-215. (in Chinese)
[2] 马爱军, 金依璇, 刘诗语, 等. 新疆阿克苏地区羊体表硬蜱种属鉴定及进化分析[J]. 动物医学进展, 2024, 45(12): 26-31.
  Ma AJ, Jin YX, Liu SY, et al. Identification and evolutionary analysis of Ixodidae species on sheep in Aksu Region, Xinjiang[J]. Prog Vet Med, 2024, 45(12): 26-31. (in Chinese)
[3] Millán J, Rodríguez-Pastor R, Estrada-Peña A. Description of Rhipicephalus hibericus sp. nov. (Ixodoidea : Ixodidae), a species of the Rhipicephalus sanguineus group in southwestern Europe[J]. Ticks Tick Borne Dis, 2024, 15(4): 102340.
[4] 武军元, 程尚鹏, 闫峰峰, 等. 新疆边境库车县图兰扇头蜱形态学及分子生物学鉴定[J]. 江苏农业科学, 2017, 45(5): 149-151.
  Wu JY, Cheng SP, Yan FF, et al. Morphological and molecular biological identification of the scallop tick in Kuqa County, Xinjiang[J]. Jiangsu Agric Sci, 2017, 45(5): 149-151. (in Chinese)
[5] Ali A, Shehla S, Zahid H, et al. Molecular survey and spatial distribution of Rickettsia spp. in ticks infesting free-ranging wild animals in Pakistan (2017-2021)[J]. Pathogens, 2022, 11(2): 162.
[6] Keve G, Sándor AD, Hornok S. Hard ticks (Acari : Ixodidae) associated with birds in Europe: Review of literature data[J]. Front Vet Sci, 2022, 9: 928756.
[7] Bakkes DK, Chitimia-Dobler L, Matloa D, et al. Integrative taxo-nomy and species delimitation of Rhipicephalus turanicus (Acari : Ixodida : Ixodidae)[J]. Int J Parasitol, 2020, 50(8): 577-594.
[8] 乌尼尔, 白翠兰, 翟景波, 等. 内蒙古自治区蜱种类及分布研究概况[J]. 寄生虫与医学昆虫学报, 2024, 31(1): 33-41.
  Wu NE, Bai CL, Zhai JB, et al. Overview of tick species and their distribution in the Inner Mongolia Autonomous Region, China[J]. Acta Parasitol Med Entomol Sin, 2024, 31(1): 33-41. (in Chinese)
[9] 古莱姆拜尔•谢日普, 任冀超, 王笑笑, 等. 新疆阿克苏地区部分养殖场户绵羊体表硬蜱种类鉴定及携带病原检测[J]. 中国动物检疫, 2024, 41(6): 20-26.
  Gulaimubaier XRP, Ren JC, Wang XX, et al. Species identification of ixodid ticks on sheep and detection of their carryon pathogens in Aksu, Xinjiang[J]. China Anim Health Insp, 2024, 41(6): 20-26. (in Chinese)
[10] Li HY, Zhao SS, Hornok S, et al. Morphological and molecular divergence of Rhipicephalus turanicus tick from Albania and China[J]. Exp Appl Acarol, 2017, 73(3/4): 493-499.
[11] Latrofa MS, Dantas-Torres F, Annoscia G, et al. Comparative analyses of mitochondrial and nuclear genetic markers for the molecular identification of Rhipicephalus spp.[J]. Infect Genet Evol, 2013, 20: 422-427.
[12] 刘雅芳, 陈彬, 芦新焱, 等. 云南微小扇头蜱线粒体基因组全序列测定与分析[J]. 中国寄生虫学与寄生虫病杂志, 2022, 40(5): 677-681.
  Liu YF, Chen B, Lu XY, et al. Complete mitochondrial genome sequence of Rhipicephalus microplus[J]. Chin J Parasitol Parasit Dis, 2022, 40(5): 677-681. (in Chinese)
[13] 李红雨. 图兰扇头蜱线粒体基因组序列分析及其种内鉴定新基因标志物的建立[D]. 石河子: 石河子大学, 2017: 12-27.
  Li HY. The analysis on complete mitochondrial genome sequence of Rhipicephalus turanicus and construction of novel genetic marker for intraspecies identification of R.turanicus[D]. Shihezi: Shihezi University, 2017: 12-27. (in Chinese)
[14] 邓国藩, 姜在阶. 中国经济昆虫志, 第三十九册, 蜱螨亚纲, 硬蜱科[M]. 北京: 科学出版社, 1991: 1-359.
  Deng GP, Jiang ZZ. Economic insects of China, volume 39, Acari, Ixodidae[J]. Beijing: Science Press, 1991: 1-359. (in Chinese)
[15] 陈泽, 杨晓军. 蜱的系统分类学[M]. 北京: 科学出版社, 2021: 626-629.
  Chen Z, Yang XJ. Systematic taxonomy of ticks[M]. Beijing: Science Press, 2021: 626-629. (in Chinese)
[16] Dierckxsens N, Mardulyn P, Smits G. NOVOPlasty: de novo assembly of organelle genomes from whole genome data[J]. Nucleic Acids Res, 2017, 45(4): e18.
[17] Kumar S, Stecher G, Tamura K. MEGA7: Molecular evolutionary genetics analysis version 7.0 for bigger datasets[J]. Mol Biol Evol, 2016, 33(7): 1870-1874.
[18] Perna NT, Kocher TD. Patterns of nucleotide composition at fourfold degenerate sites of animal mitochondrial genomes[J]. J Mol Evol, 1995, 41(3): 353-358.
[19] Latif AA, Putterill JF, de Klerk DG, et al. Nuttalliella namaqua (Ixodoidea : Nuttalliellidae): First description of the male, immature stages and re-description of the female[J]. PLoS One, 2012, 7(7): e41651.
[20] 唐莉娟, 王远志, 刘丹, 等. 新疆主要蜱种分布及蜱传病原的研究进展[J]. 中国动物传染病学报, 2022, 30(4): 211-216.
  Tang LJ, Wang YZ, Liu D, et al. Tick distribution in Xinjiang and research progress of tick-borne diseases[J]. Chin J Anim Infect Dis, 2022, 30(4): 211-216. (in Chinese)
[21] Black WC 4th, Roehrdanz RL. Mitochondrial gene order is not conserved in arthropods: Prostriate and metastriate tick mitochondrial genomes[J]. Mol Biol Evol, 1998, 15(12): 1772-1785.
[22] Deng YP, Yi JN, Fu YT, et al. Comparative analyses of the mitochondrial genomes of the cattle tick Rhipicephalus microplus clades A and B from China[J]. Parasitol Res, 2022, 121(6): 1789-1797.
[23] Yuan ML, Wei DD, Zhang K, et al. Genetic diversity and population structure of Panonychus citri (Acari : Tetranychidae), in China based on mitochondrial COI gene sequences[J]. J Econ Entomol, 2010, 103(6): 2204-2213.
[24] 袁明龙, 王进军. 蜱螨线粒体基因组研究进展[J]. 昆虫学报, 2012, 55(4): 472-481.
  Yuan ML, Wang JJ. Progress in the complete mitochondrial genomes of the Acari[J]. Acta Entomol Sin, 2012, 55(4): 472-481. (in Chinese)
[25] 刘静, 边迅. 直翅目昆虫线粒体基因组的特征及应用[J]. 广西师范大学学报(自然科学版), 2021, 39(1): 17-28.
  Liu J, Bian X. Characteristics of the Orthoptera mitogenome and its application[J]. J Guangxi Norm Univ Nat Sci Ed, 2021, 39(1): 17-28. (in Chinese)
[26] Ojala D, Montoya J, Attardi G. tRNA punctuation model of RNA processing in human mitochondria[J]. Nature, 1981, 290(5806): 470-474.
[27] Jühling F, Mörl M, Hartmann RK, et al. tRNAdb 2009: Compilation of tRNA sequences and tRNA genes[J]. Nucleic Acids Res, 2009, 37(Database issue): D159-D162.
[28] Williams-Newkirk AJ, Burroughs M, Changayil SS, et al. The mitochondrial genome of the lone star tick (Amblyomma americanum)[J]. Ticks Tick Borne Dis, 2015, 6(6): 793-801.
[29] Jühling F, Pütz J, Bernt M, et al. Improved systematic tRNA gene annotation allows new insights into the evolution of mitochondrial tRNA structures and into the mechanisms of mitochondrial genome rearrangements[J]. Nucleic Acids Res, 2012, 40(7): 2833-2845.
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