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Comparative Mitogenomic Analysis of Species Representing Six Subfamilies in the Family Tenebrionidae

To better understand the architecture and evolution of the mitochondrial genome (mitogenome), mitogenomes of ten specimens representing six subfamilies in Tenebrionidae were selected, and comparative analysis of these mitogenomes was carried out in this study. Ten mitogenomes in this family share a...

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Autores principales: Zhang, Hong-Li, Liu, Bing-Bing, Wang, Xiao-Yang, Han, Zhi-Ping, Zhang, Dong-Xu, Su, Cai-Na
Formato: Online Artículo Texto
Lenguaje:English
Publicado: MDPI 2016
Materias:
Acceso en línea:https://www.ncbi.nlm.nih.gov/pmc/articles/PMC4926375/
https://www.ncbi.nlm.nih.gov/pubmed/27258256
http://dx.doi.org/10.3390/ijms17060841
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author Zhang, Hong-Li
Liu, Bing-Bing
Wang, Xiao-Yang
Han, Zhi-Ping
Zhang, Dong-Xu
Su, Cai-Na
author_facet Zhang, Hong-Li
Liu, Bing-Bing
Wang, Xiao-Yang
Han, Zhi-Ping
Zhang, Dong-Xu
Su, Cai-Na
author_sort Zhang, Hong-Li
collection PubMed
description To better understand the architecture and evolution of the mitochondrial genome (mitogenome), mitogenomes of ten specimens representing six subfamilies in Tenebrionidae were selected, and comparative analysis of these mitogenomes was carried out in this study. Ten mitogenomes in this family share a similar gene composition, gene order, nucleotide composition, and codon usage. In addition, our results show that nucleotide bias was strongly influenced by the preference of codon usage for A/T rich codons which significantly correlated with the G + C content of protein coding genes (PCGs). Evolutionary rate analyses reveal that all PCGs have been subjected to a purifying selection, whereas 13 PCGs displayed different evolution rates, among which ATPase subunit 8 (ATP8) showed the highest evolutionary rate. We inferred the secondary structure for all RNA genes of Tenebrio molitor (Te2) and used this as the basis for comparison with the same genes from other Tenebrionidae mitogenomes. Some conserved helices (stems) and loops of RNA structures were found in different domains of ribosomal RNAs (rRNAs) and the cloverleaf structure of transfer RNAs (tRNAs). With regard to the AT-rich region, we analyzed tandem repeat sequences located in this region and identified some essential elements including T stretches, the consensus motif at the flanking regions of T stretch, and the secondary structure formed by the motif at the 3′ end of T stretch in major strand, which are highly conserved in these species. Furthermore, phylogenetic analyses using mitogenomic data strongly support the relationships among six subfamilies: ((Tenebrionidae incertae sedis + (Diaperinae + Tenebrioninae)) + (Pimeliinae + Lagriinae)), which is consistent with phylogenetic results based on morphological traits.
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spelling pubmed-49263752016-07-06 Comparative Mitogenomic Analysis of Species Representing Six Subfamilies in the Family Tenebrionidae Zhang, Hong-Li Liu, Bing-Bing Wang, Xiao-Yang Han, Zhi-Ping Zhang, Dong-Xu Su, Cai-Na Int J Mol Sci Article To better understand the architecture and evolution of the mitochondrial genome (mitogenome), mitogenomes of ten specimens representing six subfamilies in Tenebrionidae were selected, and comparative analysis of these mitogenomes was carried out in this study. Ten mitogenomes in this family share a similar gene composition, gene order, nucleotide composition, and codon usage. In addition, our results show that nucleotide bias was strongly influenced by the preference of codon usage for A/T rich codons which significantly correlated with the G + C content of protein coding genes (PCGs). Evolutionary rate analyses reveal that all PCGs have been subjected to a purifying selection, whereas 13 PCGs displayed different evolution rates, among which ATPase subunit 8 (ATP8) showed the highest evolutionary rate. We inferred the secondary structure for all RNA genes of Tenebrio molitor (Te2) and used this as the basis for comparison with the same genes from other Tenebrionidae mitogenomes. Some conserved helices (stems) and loops of RNA structures were found in different domains of ribosomal RNAs (rRNAs) and the cloverleaf structure of transfer RNAs (tRNAs). With regard to the AT-rich region, we analyzed tandem repeat sequences located in this region and identified some essential elements including T stretches, the consensus motif at the flanking regions of T stretch, and the secondary structure formed by the motif at the 3′ end of T stretch in major strand, which are highly conserved in these species. Furthermore, phylogenetic analyses using mitogenomic data strongly support the relationships among six subfamilies: ((Tenebrionidae incertae sedis + (Diaperinae + Tenebrioninae)) + (Pimeliinae + Lagriinae)), which is consistent with phylogenetic results based on morphological traits. MDPI 2016-05-31 /pmc/articles/PMC4926375/ /pubmed/27258256 http://dx.doi.org/10.3390/ijms17060841 Text en © 2016 by the authors; licensee MDPI, Basel, Switzerland. This article is an open access article distributed under the terms and conditions of the Creative Commons Attribution (CC-BY) license (http://creativecommons.org/licenses/by/4.0/).
spellingShingle Article
Zhang, Hong-Li
Liu, Bing-Bing
Wang, Xiao-Yang
Han, Zhi-Ping
Zhang, Dong-Xu
Su, Cai-Na
Comparative Mitogenomic Analysis of Species Representing Six Subfamilies in the Family Tenebrionidae
title Comparative Mitogenomic Analysis of Species Representing Six Subfamilies in the Family Tenebrionidae
title_full Comparative Mitogenomic Analysis of Species Representing Six Subfamilies in the Family Tenebrionidae
title_fullStr Comparative Mitogenomic Analysis of Species Representing Six Subfamilies in the Family Tenebrionidae
title_full_unstemmed Comparative Mitogenomic Analysis of Species Representing Six Subfamilies in the Family Tenebrionidae
title_short Comparative Mitogenomic Analysis of Species Representing Six Subfamilies in the Family Tenebrionidae
title_sort comparative mitogenomic analysis of species representing six subfamilies in the family tenebrionidae
topic Article
url https://www.ncbi.nlm.nih.gov/pmc/articles/PMC4926375/
https://www.ncbi.nlm.nih.gov/pubmed/27258256
http://dx.doi.org/10.3390/ijms17060841
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