http://informahealthcare.com/mdn ISSN: 1940-1736 (print), 1940-1744 (electronic) Mitochondrial DNA, Early Online: 1–2 ! 2014 Informa UK Ltd. DOI: 10.3109/19401736.2013.865169
MITOGENOME ANNOUNCEMENT
Complete mitochondrial genome sequence of Romanogobio tenuicorpus (Amur whitefin gudgeon) Fang Dong1,2, Guang-Xiang Tong2, You-Yi Kuang2, and Xiao-Wen Sun1,2
Mitochondrial DNA Downloaded from informahealthcare.com by Universitat Autonoma Barcelona on 04/14/15 For personal use only.
1
College of Fisheries and Life Science, Shanghai Ocean University, Shanghai, People’s Republic of China and 2Heilongjiang River Fisheries Research Institute, Chinese Academy of Fisheries Sciences, Harbin, People’s Republic of China Abstract
Keywords
Amur whitefin gudgeon (Romanogobio tenuicorpus) belongs to the family Cyprinidae, it is freshwater aquaculture species in China. In the report, we determined the complete mitochondrial genome sequence of Romanogobio tenuicorpus, which is 16,600 bp long circular molecule with 13 protein-coding genes, 22 tRNA genes, 2 rRNA genes and a control region, the conserved sequence blocks, CSB1, CSB2 and CSB3 were also detected.
Genome, mitochondrial DNA, Romanogobio tenuicorpus
Amur whitefin gudgeon (Romanogobio tenuicorpus) is a freshwater fish belonging to the family Cyprinidae. It is most distribute in Mongolia and from Amur to Luang Ho drainages in Asia. The size of this fish is small and it is usually found in the bottom aquifer. In our study, we reported the complete mitochondrial genome sequence of R. tenuicorpus (GeneBank accession number: KF647873). Specimens of R. tenuicorpus were collected from Heilongjiang River in Heilongjiang Province, China. Total genomic DNA was extracted by the chloroform method (Taggart et al., 1992). The nucleotide sequences were amplified by 32 pairs of primers and 5 pairs of specific designed primers using the PCR technique. The complete mitochondrial genome sequence was found to be 16,600 bp in length, which contains 13 protein-coding genes, 22 tRNA genes, 2 rRNA genes and a control region. Like other vertebrates, in these genes, 9 of the 38 are on the heavy strand (ND6 gene and eight tRNA genes), the other 26 are encoded on the light strand (Table 1). The overall nucleotide composition is 30.02% A, 26.73% C, 17.18% G and 26.07% T, the content of AT is 56.09%. Lengths of 12S rRNA and 16 S rRNA, which are separated by the tRNA-Val gene are 958 bp and 1689 bp, respectively. Eight of the 13 proteincoding genes in R. tenuicorpus end with complete stop codons. The rests genes (COX2, COX3, ND3, ND4 and CYTB) end with incomplete stop codons, which are presumably created post-transcriptionally by polyadenylation of mRNA (Anderson et al., 1981). Twenty-two tRNA genes were determined with the size ranging from 68 bp (tRNA-Cys) to 76 bp (tRNA-Lys). The non-coding sequence are located in the control region (D-loop) in the positions 15,677–16,600 bp. Similar to most vertebrates fishes (Yang et al., 2008), the CSB1, CSB2 and CSB3, which are conserved sequence blocks, were identified in the positions 16,251–16,270, 16,363–16,379 and
Correspondence: Xiao-Wen Sun, Heilongjiang River Fisheries Research Institute, Chinese Academy of Fisheries Sciences, Harbin, People’s Republic of China. E-mail: [email protected]
History Received 25 September 2013 Accepted 10 November 2013 Published online 10 January 2014
Table 1. Mitogenome organization of R. tenuicorpus.
Gene tRNAPhe 12S rRNA tRNAVal 16S rRNA tRNALeu ND1 tRNAIle tRNAGln tRNAMet ND2 tRNATrp tRNAAla tRNAAsn tRNACys tRNATyr COX1 tRNASer tRNAAsp COX2 tRNALys ATP8 ATP6 COX3 tRNAGly ND3 tRNAArg ND4L ND4 tRNAHis tRNASer tRNALeu ND5 ND6 tRNAGlu Cytb tRNAThr tRNAPro D-loop
Location
Size (bp)
1–69 70–1027 1028–1099 1100–2788 2789–2864 2866–3840 3845–3916 3915–3985 3987–4055 4056–5101 5108–5178 5175–5243 5245–5317 5349–5416 5419–5488 5490–7040 7041–7111 7115–7186 7200–7890 7891–7966 7968–8132 8126–8809 8809–9592 9593–9664 9665–10,014 10,015–10,083 10,084–10,380 10,374–11,755 11,756–11,824 11,825–11,893 11,895–11,967 11,968–13,803 13,800–14,321 14,322–14,390 14,395–15,535 15,536–15,607 15,607–15,676 15,677–16,600
69 958 72 1689 76 975 72 71 69 1046 71 69 73 68 70 1551 71 72 691 76 165 684 784 72 350 69 297 1383 69 69 73 1836 522 69 1141 72 70 924
Start Stop Intergenic codon codon nucletides Strand
ATG
TAG
ATG
TAG
GTG
TAA
ATG
T
ATG ATG ATG
TAG TAA T
ATG
TA
ATG ATG
TAA TA
ATG ATG
TAG T
ATG
T
0 0 0 0 1 4 2 1 0 6 4 1 1 2 1 0 3 13 0 1 7 1 0 0 0 0 7 0 0 1 0 4 0 4 0 1 0
H H H H H H H L H H H L L L L H L H H H H H H H H H H H H H H H L L H H L H
2
F. Dong et al.
16,405–16,423 bp, respectively. Like most vertebrates, it is found within a cluster of five tRNA genes (Seutin et al., 1994), the region is 50 -GCCGGGGCTTTTCCCGCCTTTTAGGCCAACGG CGGGAAAAGTAGA-30 , it is between tRNA-Asn and tRNA-Cys genes. The study of mitogenome of R. tenuicorpus would help us learn more about the phylogenetic of Gobioninae.
Declaration of interest
Mitochondrial DNA Downloaded from informahealthcare.com by Universitat Autonoma Barcelona on 04/14/15 For personal use only.
The authors report no conflicts of interest. The authors alone are responsible for the content and writing of the paper. This work was supported by National High Technology Research and Development Program of China (2011AA100402).
Mitochondrial DNA, Early Online: 1–2
References Anderson S, Bankier AT, Barrell BG, De Bruijn MH, Coulson AR, Drouin J, Eperon IC, et al. (1981). Sequence and organization of the human mitochondrial genome. Nature 290:457–65. Seutin G, Lang BF, Mindell DP, Morais R. (1994). Evolution of the WANCY region in amniote mitochondrial DNA. Mol Biol Evol 11: 329–40. Taggart JB, Hynes RA, Prodoh PA, Ferguson A. (1992). A simplified protocol for routine total DNA isolation from salmonid fishes. J Fish Biol 40:963–5. Yang B, Chen XY, Yang JX. (2008). Structure of the mitochondrial DNA control region and population genetic diversity analysis of Anabarilius grahami (Regan). Zool Res 29:379–85.
MITOGENOME ANNOUNCEMENT
Complete mitochondrial genome sequence of Romanogobio tenuicorpus (Amur whitefin gudgeon) Fang Dong1,2, Guang-Xiang Tong2, You-Yi Kuang2, and Xiao-Wen Sun1,2
Mitochondrial DNA Downloaded from informahealthcare.com by Universitat Autonoma Barcelona on 04/14/15 For personal use only.
1
College of Fisheries and Life Science, Shanghai Ocean University, Shanghai, People’s Republic of China and 2Heilongjiang River Fisheries Research Institute, Chinese Academy of Fisheries Sciences, Harbin, People’s Republic of China Abstract
Keywords
Amur whitefin gudgeon (Romanogobio tenuicorpus) belongs to the family Cyprinidae, it is freshwater aquaculture species in China. In the report, we determined the complete mitochondrial genome sequence of Romanogobio tenuicorpus, which is 16,600 bp long circular molecule with 13 protein-coding genes, 22 tRNA genes, 2 rRNA genes and a control region, the conserved sequence blocks, CSB1, CSB2 and CSB3 were also detected.
Genome, mitochondrial DNA, Romanogobio tenuicorpus
Amur whitefin gudgeon (Romanogobio tenuicorpus) is a freshwater fish belonging to the family Cyprinidae. It is most distribute in Mongolia and from Amur to Luang Ho drainages in Asia. The size of this fish is small and it is usually found in the bottom aquifer. In our study, we reported the complete mitochondrial genome sequence of R. tenuicorpus (GeneBank accession number: KF647873). Specimens of R. tenuicorpus were collected from Heilongjiang River in Heilongjiang Province, China. Total genomic DNA was extracted by the chloroform method (Taggart et al., 1992). The nucleotide sequences were amplified by 32 pairs of primers and 5 pairs of specific designed primers using the PCR technique. The complete mitochondrial genome sequence was found to be 16,600 bp in length, which contains 13 protein-coding genes, 22 tRNA genes, 2 rRNA genes and a control region. Like other vertebrates, in these genes, 9 of the 38 are on the heavy strand (ND6 gene and eight tRNA genes), the other 26 are encoded on the light strand (Table 1). The overall nucleotide composition is 30.02% A, 26.73% C, 17.18% G and 26.07% T, the content of AT is 56.09%. Lengths of 12S rRNA and 16 S rRNA, which are separated by the tRNA-Val gene are 958 bp and 1689 bp, respectively. Eight of the 13 proteincoding genes in R. tenuicorpus end with complete stop codons. The rests genes (COX2, COX3, ND3, ND4 and CYTB) end with incomplete stop codons, which are presumably created post-transcriptionally by polyadenylation of mRNA (Anderson et al., 1981). Twenty-two tRNA genes were determined with the size ranging from 68 bp (tRNA-Cys) to 76 bp (tRNA-Lys). The non-coding sequence are located in the control region (D-loop) in the positions 15,677–16,600 bp. Similar to most vertebrates fishes (Yang et al., 2008), the CSB1, CSB2 and CSB3, which are conserved sequence blocks, were identified in the positions 16,251–16,270, 16,363–16,379 and
Correspondence: Xiao-Wen Sun, Heilongjiang River Fisheries Research Institute, Chinese Academy of Fisheries Sciences, Harbin, People’s Republic of China. E-mail: [email protected]
History Received 25 September 2013 Accepted 10 November 2013 Published online 10 January 2014
Table 1. Mitogenome organization of R. tenuicorpus.
Gene tRNAPhe 12S rRNA tRNAVal 16S rRNA tRNALeu ND1 tRNAIle tRNAGln tRNAMet ND2 tRNATrp tRNAAla tRNAAsn tRNACys tRNATyr COX1 tRNASer tRNAAsp COX2 tRNALys ATP8 ATP6 COX3 tRNAGly ND3 tRNAArg ND4L ND4 tRNAHis tRNASer tRNALeu ND5 ND6 tRNAGlu Cytb tRNAThr tRNAPro D-loop
Location
Size (bp)
1–69 70–1027 1028–1099 1100–2788 2789–2864 2866–3840 3845–3916 3915–3985 3987–4055 4056–5101 5108–5178 5175–5243 5245–5317 5349–5416 5419–5488 5490–7040 7041–7111 7115–7186 7200–7890 7891–7966 7968–8132 8126–8809 8809–9592 9593–9664 9665–10,014 10,015–10,083 10,084–10,380 10,374–11,755 11,756–11,824 11,825–11,893 11,895–11,967 11,968–13,803 13,800–14,321 14,322–14,390 14,395–15,535 15,536–15,607 15,607–15,676 15,677–16,600
69 958 72 1689 76 975 72 71 69 1046 71 69 73 68 70 1551 71 72 691 76 165 684 784 72 350 69 297 1383 69 69 73 1836 522 69 1141 72 70 924
Start Stop Intergenic codon codon nucletides Strand
ATG
TAG
ATG
TAG
GTG
TAA
ATG
T
ATG ATG ATG
TAG TAA T
ATG
TA
ATG ATG
TAA TA
ATG ATG
TAG T
ATG
T
0 0 0 0 1 4 2 1 0 6 4 1 1 2 1 0 3 13 0 1 7 1 0 0 0 0 7 0 0 1 0 4 0 4 0 1 0
H H H H H H H L H H H L L L L H L H H H H H H H H H H H H H H H L L H H L H
2
F. Dong et al.
16,405–16,423 bp, respectively. Like most vertebrates, it is found within a cluster of five tRNA genes (Seutin et al., 1994), the region is 50 -GCCGGGGCTTTTCCCGCCTTTTAGGCCAACGG CGGGAAAAGTAGA-30 , it is between tRNA-Asn and tRNA-Cys genes. The study of mitogenome of R. tenuicorpus would help us learn more about the phylogenetic of Gobioninae.
Declaration of interest
Mitochondrial DNA Downloaded from informahealthcare.com by Universitat Autonoma Barcelona on 04/14/15 For personal use only.
The authors report no conflicts of interest. The authors alone are responsible for the content and writing of the paper. This work was supported by National High Technology Research and Development Program of China (2011AA100402).
Mitochondrial DNA, Early Online: 1–2
References Anderson S, Bankier AT, Barrell BG, De Bruijn MH, Coulson AR, Drouin J, Eperon IC, et al. (1981). Sequence and organization of the human mitochondrial genome. Nature 290:457–65. Seutin G, Lang BF, Mindell DP, Morais R. (1994). Evolution of the WANCY region in amniote mitochondrial DNA. Mol Biol Evol 11: 329–40. Taggart JB, Hynes RA, Prodoh PA, Ferguson A. (1992). A simplified protocol for routine total DNA isolation from salmonid fishes. J Fish Biol 40:963–5. Yang B, Chen XY, Yang JX. (2008). Structure of the mitochondrial DNA control region and population genetic diversity analysis of Anabarilius grahami (Regan). Zool Res 29:379–85.
