Mitochondrial DNA The Journal of DNA Mapping, Sequencing, and Analysis
ISSN: 1940-1736 (Print) 1940-1744 (Online) Journal homepage: http://www.tandfonline.com/loi/imdn20
The complete mitochondrial genome of the Daimio tethys (Lepidoptera: Hesperoidea: Hesperiidae) Ni Zuo, Shanshan Gan, Yanhong Chen & Jiasheng Hao To cite this article: Ni Zuo, Shanshan Gan, Yanhong Chen & Jiasheng Hao (2014): The complete mitochondrial genome of the Daimio tethys (Lepidoptera: Hesperoidea: Hesperiidae), Mitochondrial DNA To link to this article: http://dx.doi.org/10.3109/19401736.2014.930840
Published online: 30 Jun 2014.
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Full Terms & Conditions of access and use can be found at http://www.tandfonline.com/action/journalInformation?journalCode=imdn20 Download by: [University of Lethbridge]
Date: 06 November 2015, At: 13:30
http://informahealthcare.com/mdn ISSN: 1940-1736 (print), 1940-1744 (electronic) Mitochondrial DNA, Early Online: 1–2 ! 2014 Informa UK Ltd. DOI: 10.3109/19401736.2014.930840
MITOGENOME ANNOUNCEMENT
The complete mitochondrial genome of the Daimio tethys (Lepidoptera: Hesperoidea: Hesperiidae) Ni Zuo, Shanshan Gan, Yanhong Chen, and Jiasheng Hao
Downloaded by [University of Lethbridge] at 13:30 06 November 2015
Laboratory of Molecular Evolution and Biodiversity, College of Life Sciences, Anhui Normal University, Wuhu, People’s Republic of China
Abstract
Keywords
The complete mitochondrial genome of Daimio tethys (Hesperoidea: Hesperiidae) is a circular molecule of 15,341 bp in length, containing 37 typical animal mitochondrial genes: 13 protein coding genes (ATP6, ATP8, COI-III, ND1-6, ND4L, Cytb), 2 rRNA genes, 22 tRNA genes and a noncoding AT-rich region. Its gene order and content are identical to all other available butterfly mitogenomes. All PCGs initiate with typical ATN codons, except for COI, which is initiated by the CGA codon as observed in other butterfly species. Ten PCGs use complete termination codons TAA or TAG, whereas the COI, COII and ND5 genes end with a single T. A total of 179 bp of intergenic spacers are interspersed in 11 regions, ranging in size from 1 to 82 bp. The AT-rich region is 415 bp long and contains some conserved structures characteristic of the lepidopteran mitogenomes, including the motif ATAGA followed by a 17 bp poly-T stretch and a microsatellite-like (AT)8 element preceded by the ATTA motif.
Complete mitochondrial genome, daimio tethys, hesperiidae, hesperoidea
Hesperiidae is one of the major groups in lepidopterans, including about 3600 described species (Gorbunov, 2001). Due to its special morphological and behavioral characteristics, they are commonly proposed to represent a separate group that is distinct from butterflies/moths in lepidopterans (Chiba & Eliot, 1991). In recent decades, mitochondrial DNA has been widely used as an informative molecular marker for diverse evolutionary studies (Boore, 1999). However, up to the present, only 4 complete mitochondrial genomes of the Hesperiidae have been reported, including Celaenorrhinus maculosus (Wang et al., 2013a), Ctenoptilum vasava (Hao et al., 2012), Erynnis montanus (Wang et al., 2013b) and Parnara guttata (Shao et al., 2014). Here, we present the complete mitogenome sequence of Daimio tethys, one representative species of the subfamily Hesperiidae, with the aim of providing more mitogenomic data for the taxonomic and phylogenetic studies of Hesperiidae. The whole mitogenome was a circular molecule of 15,341 bp in length, containing typical 13 protein-coding genes (PCGs), 22 transfer RNA genes (tRNAs), 2 ribosomal RNA genes (lrRNA and srRNA) and a non-coding AT-rich region, and its gene order and content are identical to all other available butterfly mitogenomes (Table 1). Like those of the vast majority of other insect groups, the nucleotide composition of the Daimio tethys mitogenome was significantly biased toward AT (79.2%). Besides the AT-rich region, 11 intergenic spacers (179 bp in total) and 11 overlapping regions (25 bp in total) are dispersed throughout the whole genome (Table 1).
Correspondence: J.-S. Hao, Laboratory of Molecular Evolution and Biodiversity, College of Life Sciences, Anhui Normal University, Wuhu, 241000, P.R. China. Tel: +86 553 3818721. E-mail: [email protected]
History Received 30 May 2014 Accepted 1 June 2014 Published online 26 December 2014
Table 1. Organization of the complete mitochondrial genome in D. tethys.
Gene tRNAMet tRNAlle tRNAGln ND2 tRNATrp tRNACys tRNATyr COI tRNALeu (UUR) COII tRNALys tRNAAsp ATP8 ATP6 COIII tRNAGly ND3 tRNAAla tRNAArg tRNAAsn tRNASer(AGN) tRNAGlu tRNAPhe ND5 tRNAHis ND4 ND4L tRNAThr tRNAPro ND6 Cytb tRNASer(UCN) ND1
Direction
Position
F F R F F R R F F F F F F F F F F F F F F F R R R R R F R F F F R
1–68 73–136 136–204 287–1300 1299–1365 1358–1423 1424–1488 1491–3021 3022–3088 3089–3764 3765–3835 3858–3924 3925–4092 4086–4763 4763–5548 5551–5616 5617–5970 5971–6034 6034–6098 6099–6164 6174–6235 6269–6334 6333–6398 6399–8145 8146–8212 8212–9552 9553–9834 9840–9904 9905–9969 9972–10,490 10,490–11,641 11,641–11,704 11,722–12,660
Size Intergenic Start Stop (bp) length codon codon 68 64 69 1014 67 66 65 1531 67 676 71 67 168 678 786 66 354 70 64 66 62 66 66 1747 67 1341 282 65 65 519 1152 64 939
0 4 1 82 2 8 0 2 0 0 0 22 0 7 1 2 0 0 1 0 9 33 2 0 0 1 0 5 0 2 1 1 17
– – – – – – ATT TAA – – – – – – CGA T-tRNA – – ATT T-tRNA – – – – ATC TAA ATG TAA ATG TAA – – ATT TAA – – – – – – – – – – – – ATT T-tRNA – – ATG TAA ATG TAG – – – – ATT TAA ATG TAA – – ATG TAG (continued )
2
N. Zuo et al.
Mitochondrial DNA, Early Online: 1–2
Table 1. Continued
Gene tRNALeu(CUN) lrRNA tRNAVal srRNA A+T-rich region
Direction R R R R R
Position
Size Intergenic Start Stop (bp) length codon codon
12,662–12,729 68 12,730–14,094 1365 14,095–14,159 65 14,160–14,926 767 14,927–15,341 415
1 0 0 0 0
– – – – –
– – – – –
Downloaded by [University of Lethbridge] at 13:30 06 November 2015
In the column intergenic length, the positive number indicates interval base pairs between genes, while the negative number indicates the overlapping base pairs between genes.
Thirteen PCGs was totally 11,187 bp in length, with the AT content of 77.3%. All PCGs were initiated by typical ATN codons (6 ATG, 5 ATT and 1 ATC), with the exception of COI gene that was initiated by CGA codon. This unconventional start codon was also reported in other available lepidopteran mitogenomes (Hao et al., 2013; Shi et al., 2012; Wang et al., 2011). Ten PCGs used TAA or TAG as their stop codons, while the remaining three COI, COII and ND5 ended with a single T (Table 1). All tRNAs harbor the typical predicted secondary cloverleaf structures except for tRNASer(AGN), whose dihydrouridine (DHU) arm was replaced by a simple loop, as seen in all other determined butterflies (Hao et al., 2013; Hong et al., 2009; Hu et al., 2010; Shi et al., 2012, 2013). The large and small subunit rRNA genes are 1365 bp and 767 bp, with their A+T contents of 84.1% and 83.9%, respectively. The 415 bp AT-rich region was located between the srRNA gene and the tRNAMet–tRNAIle–tRNAGln (M–I–Q) gene cluster, with the highest of AT content (91.4%) of any region of the whole genome, and contains several structures characteristic of lepidopteran insects, such as the motif ATAGA followed by a 17 bp poly-T stretch and a microsatellite-like (AT)8 preceded by the ATTA motif.
Nucleotide sequence accession number The complete genome sequence of Daimio tethys has been assigned GenBank accession number KJ813807.
Declaration of interest This work was supported by the National Science Foundation of China (Grant No. 41172004) and the Opening Funds from the State Key Laboratory of Palaeobiology and Stratigraphy, Nanjing
Institute of Geology and Palaeontology, Chinese Academy of Sciences (Grant No. 104143). The authors report no conflicts of interest. The authors alone are responsible for the content and writing of the article.
References Boore JL. (1999). Animal mitochondrial genomes. Nucleic Acids Res 27: 1767–80. Chiba H, Eliot JN. (1991). A review of the genus Parnara Moore (Lepidoptera: Hesperiidae), with special reference to the Asian species. Tyo to Ga 42:179–94. Gorbunov PY. (2001). The butterflies of Russia: Classification, genitalia, keys for identification (Lepidoptera: Hesperioidea and Papilionoidea), Ph.D. Thesis, Tezis Izdatel Stvo, Ekaterinburg, Russia. Hao JS, Sun ME, Shi QH, Sun XY, Shao LL, Yang Q. (2013). Complete mitogenomes of Euploea mulciber (Nymphalidae: Danainae) and Libythea celtis (Nymphalidae: Libytheinae) and their phylogenetic implications. ISRN Genomics 491636:1–14. Hao JS, Sun QQ, Zhao HB, Sun XY, Gai YH, Yang Q. (2012). The complete mitochondrial genome of Ctenoptilum vasava (Lepidoptera: Hesperiidae: Pyrginae) and its phylogenetic implication. Comp Funct Genomics 328049:1–13. Hong GY, Jiang ST, Yu M, Yang Y, Li F, Xue FS, Wei ZJ. (2009). The complete nucleotide sequence of the mitochondrial genome of the cabbage butterfly, Artogeia melete (Lepidoptera: Pieridae). Acta Biochim Biophys Sin 41:446–55. Hu J, Zhang DX, Hao JS, Huang DY, Cameron S, Zhu CD. (2010). The complete mitochondrial genome of the yellow coaster, Acraea issoria (Lepidoptera: Nymphalidae: Heliconiinae: Acraeini): sequence, gene organization and a unique tRNA translocation event. Mol Biol Rep 37: 3431–8. Shao LL, Sun QQ, Hao JS. (2014). The complete mitochondrial genome of Parara guttata (Lepidoptera: Hesperiidae). Mitochondrial DNA 1–2. Shi QH, Xia J, Sun XY, Hao JS, Yang Q. (2012). Complete mitogenome of the Painted Jezebel, Delias hyparete Linnaeus (Lepidoptera: Pieridae) and its comparison with other butterfly species. Zool Res 33:E111–20. Shi QH, Huang DY, Wang YL, Hao JS. (2013). The complete mitochondrial genome of Blue pansy, Junonia orithya (Lepidoptera: Nymphalidae: Nymphalinae). Mitochondrial DNA 24:492–4. Wang AR, Jeong HC, Han YS, Kim I. (2013b). The complete mitochondrial genome of the mountainous duskywing, Erynnis montanus (LepidopteraL: Hesperiidae): A new gene arrangement in Lepidoptera. Mitochondrial DNA. Available at: http://informahealthcare.com/doi/abs/10.3109/19401736.2013.784752 (Accessed 16 April 2013). Wang K, Hao JS, Zhao HB. (2013a). Characterization of complete mitochondrial genome of the skipper butterfly, Celaenorrhinus maculosus (Lepidoptera: Hesperiidae). Mitochondrial DNA 1–2. Wang XC, Sun XY, Sun QQ, Zhang DX, Hu J, Yang Q, Hao JS. (2011). The complete mitochondrial genome of the laced fritillary Argyreus hyperbius (Lepidoptera: Nymphalidae). Zool Res 32:465–75.
ISSN: 1940-1736 (Print) 1940-1744 (Online) Journal homepage: http://www.tandfonline.com/loi/imdn20
The complete mitochondrial genome of the Daimio tethys (Lepidoptera: Hesperoidea: Hesperiidae) Ni Zuo, Shanshan Gan, Yanhong Chen & Jiasheng Hao To cite this article: Ni Zuo, Shanshan Gan, Yanhong Chen & Jiasheng Hao (2014): The complete mitochondrial genome of the Daimio tethys (Lepidoptera: Hesperoidea: Hesperiidae), Mitochondrial DNA To link to this article: http://dx.doi.org/10.3109/19401736.2014.930840
Published online: 30 Jun 2014.
Submit your article to this journal
Article views: 10
View related articles
View Crossmark data
Full Terms & Conditions of access and use can be found at http://www.tandfonline.com/action/journalInformation?journalCode=imdn20 Download by: [University of Lethbridge]
Date: 06 November 2015, At: 13:30
http://informahealthcare.com/mdn ISSN: 1940-1736 (print), 1940-1744 (electronic) Mitochondrial DNA, Early Online: 1–2 ! 2014 Informa UK Ltd. DOI: 10.3109/19401736.2014.930840
MITOGENOME ANNOUNCEMENT
The complete mitochondrial genome of the Daimio tethys (Lepidoptera: Hesperoidea: Hesperiidae) Ni Zuo, Shanshan Gan, Yanhong Chen, and Jiasheng Hao
Downloaded by [University of Lethbridge] at 13:30 06 November 2015
Laboratory of Molecular Evolution and Biodiversity, College of Life Sciences, Anhui Normal University, Wuhu, People’s Republic of China
Abstract
Keywords
The complete mitochondrial genome of Daimio tethys (Hesperoidea: Hesperiidae) is a circular molecule of 15,341 bp in length, containing 37 typical animal mitochondrial genes: 13 protein coding genes (ATP6, ATP8, COI-III, ND1-6, ND4L, Cytb), 2 rRNA genes, 22 tRNA genes and a noncoding AT-rich region. Its gene order and content are identical to all other available butterfly mitogenomes. All PCGs initiate with typical ATN codons, except for COI, which is initiated by the CGA codon as observed in other butterfly species. Ten PCGs use complete termination codons TAA or TAG, whereas the COI, COII and ND5 genes end with a single T. A total of 179 bp of intergenic spacers are interspersed in 11 regions, ranging in size from 1 to 82 bp. The AT-rich region is 415 bp long and contains some conserved structures characteristic of the lepidopteran mitogenomes, including the motif ATAGA followed by a 17 bp poly-T stretch and a microsatellite-like (AT)8 element preceded by the ATTA motif.
Complete mitochondrial genome, daimio tethys, hesperiidae, hesperoidea
Hesperiidae is one of the major groups in lepidopterans, including about 3600 described species (Gorbunov, 2001). Due to its special morphological and behavioral characteristics, they are commonly proposed to represent a separate group that is distinct from butterflies/moths in lepidopterans (Chiba & Eliot, 1991). In recent decades, mitochondrial DNA has been widely used as an informative molecular marker for diverse evolutionary studies (Boore, 1999). However, up to the present, only 4 complete mitochondrial genomes of the Hesperiidae have been reported, including Celaenorrhinus maculosus (Wang et al., 2013a), Ctenoptilum vasava (Hao et al., 2012), Erynnis montanus (Wang et al., 2013b) and Parnara guttata (Shao et al., 2014). Here, we present the complete mitogenome sequence of Daimio tethys, one representative species of the subfamily Hesperiidae, with the aim of providing more mitogenomic data for the taxonomic and phylogenetic studies of Hesperiidae. The whole mitogenome was a circular molecule of 15,341 bp in length, containing typical 13 protein-coding genes (PCGs), 22 transfer RNA genes (tRNAs), 2 ribosomal RNA genes (lrRNA and srRNA) and a non-coding AT-rich region, and its gene order and content are identical to all other available butterfly mitogenomes (Table 1). Like those of the vast majority of other insect groups, the nucleotide composition of the Daimio tethys mitogenome was significantly biased toward AT (79.2%). Besides the AT-rich region, 11 intergenic spacers (179 bp in total) and 11 overlapping regions (25 bp in total) are dispersed throughout the whole genome (Table 1).
Correspondence: J.-S. Hao, Laboratory of Molecular Evolution and Biodiversity, College of Life Sciences, Anhui Normal University, Wuhu, 241000, P.R. China. Tel: +86 553 3818721. E-mail: [email protected]
History Received 30 May 2014 Accepted 1 June 2014 Published online 26 December 2014
Table 1. Organization of the complete mitochondrial genome in D. tethys.
Gene tRNAMet tRNAlle tRNAGln ND2 tRNATrp tRNACys tRNATyr COI tRNALeu (UUR) COII tRNALys tRNAAsp ATP8 ATP6 COIII tRNAGly ND3 tRNAAla tRNAArg tRNAAsn tRNASer(AGN) tRNAGlu tRNAPhe ND5 tRNAHis ND4 ND4L tRNAThr tRNAPro ND6 Cytb tRNASer(UCN) ND1
Direction
Position
F F R F F R R F F F F F F F F F F F F F F F R R R R R F R F F F R
1–68 73–136 136–204 287–1300 1299–1365 1358–1423 1424–1488 1491–3021 3022–3088 3089–3764 3765–3835 3858–3924 3925–4092 4086–4763 4763–5548 5551–5616 5617–5970 5971–6034 6034–6098 6099–6164 6174–6235 6269–6334 6333–6398 6399–8145 8146–8212 8212–9552 9553–9834 9840–9904 9905–9969 9972–10,490 10,490–11,641 11,641–11,704 11,722–12,660
Size Intergenic Start Stop (bp) length codon codon 68 64 69 1014 67 66 65 1531 67 676 71 67 168 678 786 66 354 70 64 66 62 66 66 1747 67 1341 282 65 65 519 1152 64 939
0 4 1 82 2 8 0 2 0 0 0 22 0 7 1 2 0 0 1 0 9 33 2 0 0 1 0 5 0 2 1 1 17
– – – – – – ATT TAA – – – – – – CGA T-tRNA – – ATT T-tRNA – – – – ATC TAA ATG TAA ATG TAA – – ATT TAA – – – – – – – – – – – – ATT T-tRNA – – ATG TAA ATG TAG – – – – ATT TAA ATG TAA – – ATG TAG (continued )
2
N. Zuo et al.
Mitochondrial DNA, Early Online: 1–2
Table 1. Continued
Gene tRNALeu(CUN) lrRNA tRNAVal srRNA A+T-rich region
Direction R R R R R
Position
Size Intergenic Start Stop (bp) length codon codon
12,662–12,729 68 12,730–14,094 1365 14,095–14,159 65 14,160–14,926 767 14,927–15,341 415
1 0 0 0 0
– – – – –
– – – – –
Downloaded by [University of Lethbridge] at 13:30 06 November 2015
In the column intergenic length, the positive number indicates interval base pairs between genes, while the negative number indicates the overlapping base pairs between genes.
Thirteen PCGs was totally 11,187 bp in length, with the AT content of 77.3%. All PCGs were initiated by typical ATN codons (6 ATG, 5 ATT and 1 ATC), with the exception of COI gene that was initiated by CGA codon. This unconventional start codon was also reported in other available lepidopteran mitogenomes (Hao et al., 2013; Shi et al., 2012; Wang et al., 2011). Ten PCGs used TAA or TAG as their stop codons, while the remaining three COI, COII and ND5 ended with a single T (Table 1). All tRNAs harbor the typical predicted secondary cloverleaf structures except for tRNASer(AGN), whose dihydrouridine (DHU) arm was replaced by a simple loop, as seen in all other determined butterflies (Hao et al., 2013; Hong et al., 2009; Hu et al., 2010; Shi et al., 2012, 2013). The large and small subunit rRNA genes are 1365 bp and 767 bp, with their A+T contents of 84.1% and 83.9%, respectively. The 415 bp AT-rich region was located between the srRNA gene and the tRNAMet–tRNAIle–tRNAGln (M–I–Q) gene cluster, with the highest of AT content (91.4%) of any region of the whole genome, and contains several structures characteristic of lepidopteran insects, such as the motif ATAGA followed by a 17 bp poly-T stretch and a microsatellite-like (AT)8 preceded by the ATTA motif.
Nucleotide sequence accession number The complete genome sequence of Daimio tethys has been assigned GenBank accession number KJ813807.
Declaration of interest This work was supported by the National Science Foundation of China (Grant No. 41172004) and the Opening Funds from the State Key Laboratory of Palaeobiology and Stratigraphy, Nanjing
Institute of Geology and Palaeontology, Chinese Academy of Sciences (Grant No. 104143). The authors report no conflicts of interest. The authors alone are responsible for the content and writing of the article.
References Boore JL. (1999). Animal mitochondrial genomes. Nucleic Acids Res 27: 1767–80. Chiba H, Eliot JN. (1991). A review of the genus Parnara Moore (Lepidoptera: Hesperiidae), with special reference to the Asian species. Tyo to Ga 42:179–94. Gorbunov PY. (2001). The butterflies of Russia: Classification, genitalia, keys for identification (Lepidoptera: Hesperioidea and Papilionoidea), Ph.D. Thesis, Tezis Izdatel Stvo, Ekaterinburg, Russia. Hao JS, Sun ME, Shi QH, Sun XY, Shao LL, Yang Q. (2013). Complete mitogenomes of Euploea mulciber (Nymphalidae: Danainae) and Libythea celtis (Nymphalidae: Libytheinae) and their phylogenetic implications. ISRN Genomics 491636:1–14. Hao JS, Sun QQ, Zhao HB, Sun XY, Gai YH, Yang Q. (2012). The complete mitochondrial genome of Ctenoptilum vasava (Lepidoptera: Hesperiidae: Pyrginae) and its phylogenetic implication. Comp Funct Genomics 328049:1–13. Hong GY, Jiang ST, Yu M, Yang Y, Li F, Xue FS, Wei ZJ. (2009). The complete nucleotide sequence of the mitochondrial genome of the cabbage butterfly, Artogeia melete (Lepidoptera: Pieridae). Acta Biochim Biophys Sin 41:446–55. Hu J, Zhang DX, Hao JS, Huang DY, Cameron S, Zhu CD. (2010). The complete mitochondrial genome of the yellow coaster, Acraea issoria (Lepidoptera: Nymphalidae: Heliconiinae: Acraeini): sequence, gene organization and a unique tRNA translocation event. Mol Biol Rep 37: 3431–8. Shao LL, Sun QQ, Hao JS. (2014). The complete mitochondrial genome of Parara guttata (Lepidoptera: Hesperiidae). Mitochondrial DNA 1–2. Shi QH, Xia J, Sun XY, Hao JS, Yang Q. (2012). Complete mitogenome of the Painted Jezebel, Delias hyparete Linnaeus (Lepidoptera: Pieridae) and its comparison with other butterfly species. Zool Res 33:E111–20. Shi QH, Huang DY, Wang YL, Hao JS. (2013). The complete mitochondrial genome of Blue pansy, Junonia orithya (Lepidoptera: Nymphalidae: Nymphalinae). Mitochondrial DNA 24:492–4. Wang AR, Jeong HC, Han YS, Kim I. (2013b). The complete mitochondrial genome of the mountainous duskywing, Erynnis montanus (LepidopteraL: Hesperiidae): A new gene arrangement in Lepidoptera. Mitochondrial DNA. Available at: http://informahealthcare.com/doi/abs/10.3109/19401736.2013.784752 (Accessed 16 April 2013). Wang K, Hao JS, Zhao HB. (2013a). Characterization of complete mitochondrial genome of the skipper butterfly, Celaenorrhinus maculosus (Lepidoptera: Hesperiidae). Mitochondrial DNA 1–2. Wang XC, Sun XY, Sun QQ, Zhang DX, Hu J, Yang Q, Hao JS. (2011). The complete mitochondrial genome of the laced fritillary Argyreus hyperbius (Lepidoptera: Nymphalidae). Zool Res 32:465–75.
