The Complete Mitochondrial Genome of the Chinese White Wax Scale Insect, Ericerus pela Chavannes (Hemiptera: Coccidae), with Novel Gene Arrangement and Truncated tRNA Genes

被引:3
作者
An, Jia-Qi [1 ,2 ]
Yu, Shu-Hui [3 ]
Wei, Shu-Jun [4 ]
Zhang, Hong-Ping [3 ]
Shi, Yuan-Chong [1 ]
Zhao, Qiu-Yu [3 ]
Fu, Zuo-Yi [1 ]
Yang, Pu [1 ,5 ]
机构
[1] Chinese Acad Forestry, Inst Highland Forest Sci, Kunming 650224, Peoples R China
[2] Nanjing Forestry Univ, Coll Biol & Environm, Nanjing 210037, Peoples R China
[3] Kunming Univ, Coll Agr & Life Sci, Kunming 650214, Peoples R China
[4] Beijing Acad Agr & Forestry Sci, Inst Plant Protect, Beijing 100097, Peoples R China
[5] Natl Forestry & Grassland Adm, Key Lab Breeding & Utilizat Resource Insects, Kunming 650224, Peoples R China
基金
中国国家自然科学基金;
关键词
Coccoidea superfamily; mitochondrial genome; PacBio sequencing; gene rearrangement; STERNORRHYNCHA; ANNOTATION; MORPHOLOGY; PHYLOGENY; SEQUENCE;
D O I
10.3390/insects14030290
中图分类号
Q96 [昆虫学];
学科分类号
摘要
Simple Summary Ericerus pela Chavannes (Hemiptera: Coccoidea) is one of the most economically valuable resource insects in China. Its mitochondrial genome provides essential information for the molecular identification and genetic study of this species. In this paper, we assembled the mitochondrial genome of E. pela. Gene rearrangement analysis showed that compared to other scale insects, E. pela's atp6, atp8, and a few tRNAs were obviously rearranged. Moreover, there were nine tRNAs identified to have obvious truncated structures. Synteny analysis based on the whole mitochondrial genomes showed that a significant rearrangement of homologous blocks had occurred within this Coccoidea species. The results revealed great variations in the intergenic regions among Coccoidea species and novel gene arrangement and truncated tRNA genes in the mitochondrial genome of E. pela. The Chinese white wax scale insect, Ericerus pela Chavannes (Hemiptera: Coccidae), is one of the scale insects with great economic value and has been dispersed and reared in China for over one thousand years. Its mitochondrial genome provides essential information for the molecular identification and genetic study of this species. We assembled the complete mitochondrial genome of E. pela based on PacBio sequencing and analyzed its genomic features. The genome was 17,766 bp in length with 13 protein-coding genes, 22 tRNAs, and two rRNA genes. The analysis results showed E. pela had significant gene rearrangements involving tRNAs compared with other Coccoidea species. Furthermore, E. pela's nine tRNAs were identified to have obvious truncated structures. The phylogenetic tree compiled of the species showed a long branch of the Coccoidea lineage, which indicated the high evolutionary rate in this group. Our study revealed the mitochondrial characteristics of E. pela and enriched the mitochondrial genetic information on Coccoidea species. It also determined the occurrence of gene rearrangement for the species in this superfamily.
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页数:14
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共 48 条
[1]   Accurate annotation of protein-coding genes in mitochondrial genomes [J].
Al Arab, Marwa ;
zu Siederdissen, Christian Hoener ;
Tout, Kifah ;
Sahyoun, Abdullah H. ;
Stadler, Peter F. ;
Bernt, Matthias .
MOLECULAR PHYLOGENETICS AND EVOLUTION, 2017, 106 :209-216
[2]  
Amoldi FGC, 2007, GENE, V405, P1, DOI [10.1016/j.gen.e.2007.07.035, 10.1016/j.gene.2007.07.035]
[3]   SPAdes: A New Genome Assembly Algorithm and Its Applications to Single-Cell Sequencing [J].
Bankevich, Anton ;
Nurk, Sergey ;
Antipov, Dmitry ;
Gurevich, Alexey A. ;
Dvorkin, Mikhail ;
Kulikov, Alexander S. ;
Lesin, Valery M. ;
Nikolenko, Sergey I. ;
Son Pham ;
Prjibelski, Andrey D. ;
Pyshkin, Alexey V. ;
Sirotkin, Alexander V. ;
Vyahhi, Nikolay ;
Tesler, Glenn ;
Alekseyev, Max A. ;
Pevzner, Pavel A. .
JOURNAL OF COMPUTATIONAL BIOLOGY, 2012, 19 (05) :455-477
[4]   Animal mitochondrial genomes [J].
Boore, JL .
NUCLEIC ACIDS RESEARCH, 1999, 27 (08) :1767-1780
[5]   SOAPnuke: a MapReduce acceleration-supported software for integrated quality control and preprocessing of high-throughput sequencing data [J].
Chen, Yuxin ;
Chen, Yongsheng ;
Shi, Chunmei ;
Huang, Zhibo ;
Zhang, Yong ;
Li, Shengkang ;
Li, Yan ;
Ye, Jia ;
Yu, Chang ;
Li, Zhuo ;
Zhang, Xiuqing ;
Wang, Jian ;
Yang, Huanming ;
Fang, Lin ;
Chen, Qiang .
GIGASCIENCE, 2017, 7 (01) :1-6
[6]   Review of the family Coccidae (Hemiptera: Coccomorpha) in Laos [J].
Choi, Jinyeong ;
Soysouvanh, Pheophanh ;
Lee, Seunghwan ;
Hong, Ki-Jeong .
ZOOTAXA, 2018, 4460 (01) :1-62
[7]   A preliminary phylogeny of the scale insects (Hemiptera: Sternorrhyncha: Coccoidea) based on nuclear small-subunit ribosomal DNA [J].
Cook, LG ;
Gullan, PJ ;
Trueman, HE .
MOLECULAR PHYLOGENETICS AND EVOLUTION, 2002, 25 (01) :43-52
[8]   The first mitochondrial genome of scale insects (Hemiptera: Coccoidea) [J].
Deng, Jun ;
Lu, Congcong ;
Huang, Xiaolei .
MITOCHONDRIAL DNA PART B-RESOURCES, 2019, 4 (02) :2094-2095
[9]   The complete mitochondrial genome of the sexual oribatid mite Steganacarus magnus: genome rearrangements and loss of tRNAs [J].
Domes, Katja ;
Maraun, Mark ;
Scheu, Stefan ;
Cameron, Stephen L. .
BMC GENOMICS, 2008, 9 (1)
[10]   MUSCLE: multiple sequence alignment with high accuracy and high throughput [J].
Edgar, RC .
NUCLEIC ACIDS RESEARCH, 2004, 32 (05) :1792-1797