Mitochondrial genome organization and phylogeny of two vespid wasps

Cameron, Stephen L.; Dowton, Mark; Castro, Lyda R.; Ruberu, Kalani; Whiting, Michael F.; Austin, A. D.; Diement, Kieren DiementK.; Stevens, Julia StevensJ.

doi:10.1139/g08-066

Cited by 96 publications

(76 citation statements)

References 68 publications

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“…This difference could be explained by deletions of tandem sections in the POR, which has been reported in other insects (De Ré et al, 2014;Elbrecht et al, 2013). Nevertheless, a more plausible explanation for this result is the apparent difficulty of the 454 sequencing approach to recover the mitochondrial control region in insects, basically due to the presence of complex repeats that are difficult to sequence and/or assemble (Cameron et al, 2008;Mao et al, 2012;Ramakodi et al, 2014).…”

Section: Mitogenome Architecture Of Aegorhinus Superciliosusmentioning

confidence: 90%

Phylogenetic analysis of the complete mitogenome sequence of the raspberry weevil, Aegorhinus superciliosus (Coleoptera: Curculionidae), supports monophyly of the tribe Aterpini

Cabrera-Brandt

Gaitán‐Espitía

2015

Gene

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Section: Mitogenome Architecture Of Aegorhinus Superciliosusmentioning

confidence: 90%

Phylogenetic analysis of the complete mitogenome sequence of the raspberry weevil, Aegorhinus superciliosus (Coleoptera: Curculionidae), supports monophyly of the tribe Aterpini

Cabrera-Brandt

Gaitán‐Espitía

2015

Gene

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“…Based on these records,~1000 bases of the control region were not part of the assemblies for either taxon. However, the difficulties of sequencing and assembling the mitochondrial control region of insects have long been known [40,41] and the potential drawbacks of our method in this area are discussed below. That being said, all other aspects of genome organization, gene arrangements and gene lengths of C. hominivorax and H. irritans 454-based assemblies are the same as in the previously published versions.…”

Section: Hominivorax and H Irritans Mtgenome Assemblies Versus Prmentioning

confidence: 99%

A 454 sequencing approach to dipteran mitochondrial genome research

et al. 2015

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The availability of complete mitochondrial genome (mtgenome) data for Diptera, one of the largest metazoan orders, in public databases is limited. The advent of high throughput sequencing technology provides the potential to generate mtgenomes for many species affordably and quickly. However, these technologies need to be validated for dipterans as the members of this clade play important economic and research roles. Illumina and 454 sequencing platforms are widely used in genomic research involving non-model organisms. The Illumina platform has already been utilized for generating mitochondrial genomes without using conventional long range PCR for insects whereas the power of 454 sequencing for generating mitochondrial genome drafts without PCR has not yet been validated for insects. Thus, this study examines the utility of 454 sequencing approach for dipteran mtgenomic research. We generated complete or nearly complete mitochondrial genomes for Cochliomyia hominivorax, Haematobia irritans, Phormia regina and Sarcophaga crassipalpis using a 454 sequencing approach. Comparisons between newly obtained and existing assemblies for C. hominivorax and H. irritans revealed no major discrepancies and verified the utility of 454 sequencing for dipteran mitochondrial genomes. We also report the complete mitochondrial sequences for two forensically important flies, P. regina and S. crassipalpis, which could be used to provide useful information to legal personnel. Comparative analyses revealed that dipterans follow similar codon usage and nucleotide biases that could be due to mutational and selection pressures. This study illustrates the utility of 454 sequencing to obtain complete mitochondrial genomes for dipterans without the aid of conventional molecular techniques such as PCR and cloning and validates this method of mtgenome sequencing in arthropods.

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“…The alignment parameters were the default settings for all genes. The Clustal W alignment parameters were as specified in Cameron et al (2008). The MUSCLE alignment parameters for the rRNA genes were gap open penalty = -400, gap extend penalty = 0; and for the protein-coding genes were gap open penalty = -2.9, gap extend penalty = 0.…”

Section: Sequence Alignmentmentioning

confidence: 99%

“…For example, the monophyly of the Proctotrupomorpha (sensu Rasnitsyn 1988) is well supported by recent studies, but the relationships among the proctotrupomorph families are still controversial (Dowton and Austin 2001;Rasnitsyn and Zhang 2010;Heraty et al 2011). Several analyses have demonstrated that the whole mt genome is a useful tool to resolve hymenopteran evolutionary relationships (Castro and Dowton 2007;Cameron et al 2008;Dowton et al 2009a;Wei et al 2010a). To date, 18 complete mt genomes and 15 nearly complete mt genomes have been successfully sequenced in the Hymenoptera, with 18 taxa added in the last 3 years.…”

Section: Introductionmentioning

confidence: 99%

The first mitochondrial genome for the wasp superfamily Platygastroidea: the egg parasitoidTrissolcus basalis

Mao

Valerio

Austin

et al. 2012

Genome

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The nearly complete mitochondrial (mt) genome of an egg parasitoid, Trissolcus basalis (Wollaston), was sequenced using both 454 and Illumina next-generation sequencing technologies. A portion of the noncoding region remained unsequenced, possibly owing to the presence of repeats. The sequenced portion of the genome is 15 768 bp and has a high A+T content (84.2%), as is typical for hymenopteran mt genomes. A total of 36 of the 37 genes normally present in animal mt genomes were located. The one exception was trnR; a truncated version of this gene is present between trnS1 and nd5, but it is unclear whether this gene fragment could code for the entire trnR gene. The mt gene arrangement of T. basalis is different from other Proctotrupomorpha mt genomes, with a number of trn genes in different positions. However, no shared derived gene rearrangements were identified in the present study. Bayesian analyses of mt genomes from 29 hymenopteran taxa and seven other orders of holometabolous insects support some uncontroversial evolutionary relationships, but indicate that much higher levels of taxonomic sampling are necessary for the resolution of family and superfamily relationships. AbstractThe nearly complete mitochondrial (mt) genome of an egg parasitoid, Trissolcus basalis (Wollaston), was sequenced. This genome is 15768 bp in size and has a high A+T content (84.2%).In the protein-coding genes, the A+T content is as high as 92.3% in the third codon position. Four of the protein-coding genes have incomplete termination codons: TA or T. All transfer RNA (trn) genes have the typical cloverleaf structure except for trnS 2 . The mt gene arrangement of T.basalisis is different from other Proctotrupomorpha mt genomes. Bayesian analyses of mt genomes from 29 hymenopteran taxa and 7 other orders of holometabolous insects support some uncontroversial evolutionary relationships, but indicate that much higher levels of taxonomic sampling are necessary for the resolution of family and superfamily relationships.

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Mitochondrial genome organization and phylogeny of two vespid wasps

Cited by 96 publications

References 68 publications

Phylogenetic analysis of the complete mitogenome sequence of the raspberry weevil, Aegorhinus superciliosus (Coleoptera: Curculionidae), supports monophyly of the tribe Aterpini

Phylogenetic analysis of the complete mitogenome sequence of the raspberry weevil, Aegorhinus superciliosus (Coleoptera: Curculionidae), supports monophyly of the tribe Aterpini

A 454 sequencing approach to dipteran mitochondrial genome research

The first mitochondrial genome for the wasp superfamily Platygastroidea: the egg parasitoidTrissolcus basalis

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