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Int J Mol Sci. 2015 Oct 20;16(10):25031-49. doi: 10.3390/ijms161025031.

Comparative Mitogenomics of the Genus Odontobutis (Perciformes: Gobioidei: Odontobutidae) Revealed Conserved Gene Rearrangement and High Sequence Variations.

Ma Z1, Yang X2,3, Bercsenyi M4, Wu J5, Yu Y6, Wei K7,8, Fan Q9,10, Yang R11,12.

Author information

1
Key Lab of Freshwater Animal Breeding Certificated by Ministry of Agriculture, College of Fisheries, Huazhong Agricultural University, Wuhan 430070, China. simohorse@163.com.
2
Key Lab of Freshwater Animal Breeding Certificated by Ministry of Agriculture, College of Fisheries, Huazhong Agricultural University, Wuhan 430070, China. xfy@mail.hzau.edu.cn.
3
Freshwater Aquaculture Collaborative Innovation Center of Hubei Province, Wuhan 430070, China. xfy@mail.hzau.edu.cn.
4
Georgikon Faculty, University of Pannonia, Keszthely 8360, Hungary. miklosbercsenyi77@gmail.com.
5
Key Lab of Freshwater Animal Breeding Certificated by Ministry of Agriculture, College of Fisheries, Huazhong Agricultural University, Wuhan 430070, China. wujunjie@webmail.hzau.edu.cn.
6
Key Lab of Freshwater Animal Breeding Certificated by Ministry of Agriculture, College of Fisheries, Huazhong Agricultural University, Wuhan 430070, China. yuyongyao@webmail.hzau.edu.cn.
7
Key Lab of Freshwater Animal Breeding Certificated by Ministry of Agriculture, College of Fisheries, Huazhong Agricultural University, Wuhan 430070, China. kjwei@mail.hzau.edu.cn.
8
Freshwater Aquaculture Collaborative Innovation Center of Hubei Province, Wuhan 430070, China. kjwei@mail.hzau.edu.cn.
9
Key Lab of Freshwater Animal Breeding Certificated by Ministry of Agriculture, College of Fisheries, Huazhong Agricultural University, Wuhan 430070, China. fanqixue@mail.hzau.edu.cn.
10
Freshwater Aquaculture Collaborative Innovation Center of Hubei Province, Wuhan 430070, China. fanqixue@mail.hzau.edu.cn.
11
Key Lab of Freshwater Animal Breeding Certificated by Ministry of Agriculture, College of Fisheries, Huazhong Agricultural University, Wuhan 430070, China. rbyang@mail.hzau.edu.cn.
12
Freshwater Aquaculture Collaborative Innovation Center of Hubei Province, Wuhan 430070, China. rbyang@mail.hzau.edu.cn.

Abstract

To understand the molecular evolution of mitochondrial genomes (mitogenomes) in the genus Odontobutis, the mitogenome of Odontobutis yaluensis was sequenced and compared with those of another four Odontobutis species. Our results displayed similar mitogenome features among species in genome organization, base composition, codon usage, and gene rearrangement. The identical gene rearrangement of trnS-trnL-trnH tRNA cluster observed in mitogenomes of these five closely related freshwater sleepers suggests that this unique gene order is conserved within Odontobutis. Additionally, the present gene order and the positions of associated intergenic spacers of these Odontobutis mitogenomes indicate that this unusual gene rearrangement results from tandem duplication and random loss of large-scale gene regions. Moreover, these mitogenomes exhibit a high level of sequence variation, mainly due to the differences of corresponding intergenic sequences in gene rearrangement regions and the heterogeneity of tandem repeats in the control regions. Phylogenetic analyses support Odontobutis species with shared gene rearrangement forming a monophyletic group, and the interspecific phylogenetic relationships are associated with structural differences among their mitogenomes. The present study contributes to understanding the evolutionary patterns of Odontobutidae species.

KEYWORDS:

codon usage; control region; gene order; mitochondrial genome; phylogeny; tandem repeats

PMID:
26492246
PMCID:
PMC4632788
DOI:
10.3390/ijms161025031
[Indexed for MEDLINE]
Free PMC Article

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