Comparison of complete mitochondrial DNA sequences between old and new world strains of the cowpea aphid, Aphis craccivora (Hemiptera: Aphididae)

Q1 Agricultural and Biological Sciences

Agri Gene Pub Date : 2017-06-01 DOI:10.1016/j.aggene.2017.03.003

Weilin Sun , Bao-Lam Huynh , James Adebayo Ojo , Brad S. Coates , Francis Kusi , Philip A. Roberts , Barry R. Pittendrigh

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引用次数: 8

Abstract

Mitochondrial DNA provides useful tools for inferring population genetic structure within a species and phylogenetic relationships between species. The complete mitogenome sequences were assembled from strains of the cowpea aphids, Aphis craccivora, from the old (15,308 bp) and new world (15,305 bp) using shotgun Illumina HiSeq 2500 sequence reads. The A. craccivora mitogenomes have 13 protein coding genes (PCGs), 22 transfer RNAs and 2 ribosomal RNAs in the same order and orientation found among Insecta. The two A. craccivora mitogenomes do not contain long intergenic repeats as found in other members of the family Aphididae. Comparisons between strains indicated a 99.7% sequence identity, wherein 57 and 11 substitutions were respectively predicted among reads from new and old world strains. Among these substitutions, 31 and 2 were in PCGs of new world and old world aphids, respectively, and out of which 28 and 2 were nonsynonymous. A majority of the substitutions were in NADH Dehydrogenase subunit 1. Phylogenetic analysis of full mitogenomes sequences predicted that Aphididae as monophyletic and clustered with Pterocommatinae and Aphidinae at subfamily level.

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豇豆蚜(半翅目:蚜虫科)新旧品系线粒体DNA全序列的比较

线粒体DNA为推测物种内的种群遗传结构和物种间的系统发育关系提供了有用的工具。利用shotgun Illumina HiSeq 2500测序试剂盒，对来自旧世界(15308 bp)和新世界(15305 bp)的豇豆蚜(Aphis craccivora)的有丝分裂基因组进行了完整测序。在昆虫类中，有13个蛋白质编码基因(PCGs)、22个转移rna和2个核糖体rna具有相同的顺序和取向。这两个A. craccivora有丝分裂基因组不像在蚜虫科的其他成员中发现的那样包含长基因间重复。菌株间的序列一致性为99.7%，其中新世界菌株和旧世界菌株的reads中分别有57个和11个替换。其中，新世界蚜虫和旧世界蚜虫的PCGs分别有31个和2个替换，其中28个和2个替换为非同义替换。大多数取代发生在NADH脱氢酶亚基1。全有丝分裂基因组序列的系统发育分析预测蚜科为单系，在亚科水平上与梁凤蝶科和蚜科聚类。

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来源期刊

Agri Gene Agricultural and Biological Sciences-Agricultural and Biological Sciences (miscellaneous)

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期刊介绍： Agri Gene publishes papers that focus on the regulation, expression, function and evolution of genes in crop plants, farm animals, and agriculturally important insects and microorganisms. Agri Gene strives to be a diverse journal and topics in multiple fields will be considered for publication so long as their main focus is on agriculturally important organisms (plants, animals, insects, or microorganisms). Although not limited to the following, some examples of potential topics include: Gene discovery and characterization. Genetic markers to guide traditional breeding. Genetic effects of transposable elements. Evolutionary genetics, molecular evolution, population genetics, and phylogenetics. Profiling of gene expression and genetic variation. Biotechnology and crop or livestock improvement. Genetic improvement of biological control microorganisms. Genetic control of secondary metabolic pathways and metabolic enzymes of crop pathogens. Transcription analysis of beneficial or pest insect developmental stages Agri Gene encourages submission of novel manuscripts that present a reasonable level of analysis, functional relevance and/or mechanistic insight. Agri Gene also welcomes papers that have predominantly a descriptive component but improve the essential basis of knowledge for subsequent functional studies, or which provide important confirmation of recently published discoveries provided that the information is new.