The complete mitochondrial genomes of sixteen ardeid birds revealing the evolutionary process of the gene rearrangements

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	The complete mitochondrial genomes of sixteen ardeid birds revealing the evolutionary process of the gene rearrangements
	Zhou, Xiaoping ; Lin, Qingxian ; Fang, Wenzhen ; Chen, Xiaolin ; Zhou XP(周晓平) ; Lin QX(林清贤) ; Fang WZ(方文珍) ; Chen XL(陈小麟)
刊名	http://dx.doi.org/10.1186/1471-2164-15-573
	2014-07-08
关键词	MULTIPLE INDEPENDENT ORIGINS COMPLETE NUCLEOTIDE-SEQUENCE CONTROL-REGION CONCERTED EVOLUTION PHYLOGENETIC ANALYSIS TANDEM DUPLICATION AVES BUCEROTIDAE DNA ORDER RECOMBINATION
英文摘要	National Natural Science Foundation of China [30970380, 40876077, 31272333, 31000963]; Fujian Natural Science Foundation of China [2012 J01149, 2010Y2007]; Fundamental Research Funds for the Xiamen Universities [2011121038]; Background: The animal mitochondrial genome is generally considered to be under selection for both compactness and gene order conservation. As more mitochondrial genomes are sequenced, mitochondrial duplications and gene rearrangements have been frequently identified among diverse animal groups. Although several mechanisms of gene rearrangement have been proposed thus far, more observational evidence from major taxa is needed to validate specific mechanisms. In the current study, the complete mitochondrial DNA of sixteen bird species from the family Ardeidae was sequenced and the evolution of mitochondrial gene rearrangements was investigated. The mitochondrial genomes were then used to review the phylogenies of these ardeid birds. Results: The complete mitochondrial genome sequences of the sixteen ardeid birds exhibited four distinct mitochondrial gene orders in which two of them, named as "duplicate tRNA(Glu)-CR" and "duplicate tRNA(Thr)-tRNA(Pro) and CR", were newly discovered. These gene rearrangements arose from an evolutionary process consistent with the tandem duplication - random loss model (TDRL). Additionally, duplications in these gene orders were near identical in nucleotide sequences within each individual, suggesting that they evolved in concert. Phylogenetic analyses of the sixteen ardeid species supported the idea that Ardea ibis, Ardea modesta and Ardea intermedia should be classified as genus Ardea, and Ixobrychus flavicollis as genus Ixobrychus, and indicated that within the subfamily Ardeinae, Nycticorax nycticorax is closely related to genus Egretta and that Ardeola bacchus and Butorides striatus are closely related to the genus Ardea. Conclusions: The duplicate tRNAThr-CR gene order is found in most ardeid lineages, suggesting this gene order is the ancestral pattern within these birds and persisted in most lineages via concerted evolution. In two independent lineages, when the concerted evolution stopped in some subsections due to the accumulation of numerous substitutions and deletions, the duplicate tRNAThr-CR gene order was transformed into three other gene orders. The phylogenetic trees produced from concatenated rRNA and protein coding genes have high support values in most nodes, indicating that the mitochondrial genome sequences are promising markers for resolving the phylogenetic issues of ardeid birds when more taxa are added.
语种	英语
出版者	BIOMED CENTRAL LTD
内容类型	期刊论文
源URL	[http://dspace.xmu.edu.cn/handle/2288/90751]
专题	生命科学－已发表论文
推荐引用方式 GB/T 7714	Zhou, Xiaoping,Lin, Qingxian,Fang, Wenzhen,et al. The complete mitochondrial genomes of sixteen ardeid birds revealing the evolutionary process of the gene rearrangements[J]. http://dx.doi.org/10.1186/1471-2164-15-573,2014.
APA	Zhou, Xiaoping.,Lin, Qingxian.,Fang, Wenzhen.,Chen, Xiaolin.,周晓平.,...&陈小麟.(2014).The complete mitochondrial genomes of sixteen ardeid birds revealing the evolutionary process of the gene rearrangements.http://dx.doi.org/10.1186/1471-2164-15-573.
MLA	Zhou, Xiaoping,et al."The complete mitochondrial genomes of sixteen ardeid birds revealing the evolutionary process of the gene rearrangements".http://dx.doi.org/10.1186/1471-2164-15-573 (2014).