Mitochondrial DNA The Journal of DNA Mapping, Sequencing, and Analysis

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Complete mitochondrial DNA genome of Polytremis nascens (Lepidoptera: Hesperiidae) Weibin Jiang, Jianqing Zhu, Qichang Yang, Huidong Zhao, Minghan Chen, Haiyan He & Weidong Yu To cite this article: Weibin Jiang, Jianqing Zhu, Qichang Yang, Huidong Zhao, Minghan Chen, Haiyan He & Weidong Yu (2015): Complete mitochondrial DNA genome of Polytremis nascens (Lepidoptera: Hesperiidae), Mitochondrial DNA To link to this article: http://dx.doi.org/10.3109/19401736.2015.1007298

Published online: 18 Feb 2015.

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Date: 05 October 2015, At: 08:07

http://informahealthcare.com/mdn ISSN: 1940-1736 (print), 1940-1744 (electronic) Mitochondrial DNA, Early Online: 1–2 ! 2015 Informa UK Ltd. DOI: 10.3109/19401736.2015.1007298

MITOGENOME ANNOUNCEMENT

Complete mitochondrial DNA genome of Polytremis nascens (Lepidoptera: Hesperiidae) Weibin Jiang1, Jianqing Zhu2, Qichang Yang1, Huidong Zhao1, Minghan Chen1, Haiyan He1, and Weidong Yu1 Shanghai Normal University, College of Life and Environmental Sciences, Shanghai, People’s Republic of China and 2Department of Herbivore, Shanghai Zoological Park, Changning, Shanghai, People’s Republic of China

Downloaded by [McMaster University] at 08:07 05 October 2015

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Abstract

Keywords

In this study, the complete mitochondrial DNA (mtDNA) sequence of Polytremis nascens (Lepidoptera: Hesperiidae) was determined. The 15,392 bp mitogenome with GenBank accession number KM981865 contained 13 protein genes, 22 tRNAs, 2 rRNAs, and a noncoding control region (D-loop). All the 37 typical animal mitochondrial genes were found. The overall base composition was 39.7% A, 40.7% T, 7.7% G and 11.9% C, with a high A + T content (80.4%). This complete mitogenome of P. nascens provides a basic data for studies on species identification, molecular systematics and conservation genetics.

Hesperiidae, Lepidoptera, mitogenome, Polytremis nascens

Polytremis nascens Leech, 1893 is widely distributed in mountainous regions (1000–2400 m in elevation) from western to eastern China and considered an important rice insect pest because the larvae feed on many field crops (Leech, 1892–1894; Zhu et al., 2012). There are some previous studies related to its morphological identification (Huang & Xue, 2004), population distribution (Chou, 1994; Evans, 1949), taxonomic status (Zhu, 2012), microsatellite loci (Jiang et al., 2014a), Wolbachia infection status and population genetic structure (Jiang et al., 2014b). However, we do not yet have an available mitogenome sequence of this species so far. The study of mitochondrial DNA (mtDNA) may provide not only more information about mitochondrial genome but also insight into the molecular identification, phylogenetic analysis and conservation genetics. In this study, the complete mtDNA sequence of P. nascens was successfully determined using a polymerase chain reaction (PCR)-based method (GenBank accession number KM981865). The P. nascens was collected from Maoershan (25 490 N;110 000 E), Xin0 an County, Guangxi Province, China, in July 2012. Genomic DNA was isolated from alcohol-preserved leg muscle tissue with the QIAamp DNA Mini kit (Qiagen, Hilden, Germany), as described in Jiang et al. (2013). Seven sets of primer were used to amplify the complete mitochondrial genome. The entire mitogenome has been amplified in three short and four long overlapping fragments in the present study. PCR reaction was performed in a total volume of 25 ml and the PCR products were detected via 2.0% agarose gel electrophoresis, purified using

History Received 20 December 2014 Revised 30 December 2014 Accepted 10 January 2015 Published online 18 February 2015

a 3S Spin PCR Product Purification Kit (Roche, Shanghai, China), and sequenced using ABI PRISM 3730xl capillary sequencers. The complete mtDNA genome of P. nascens was a circular molecule of 15,392 bp in length, including the standard 13 protein-coding genes (PCGs), 2 ribosomal RNA (rRNA) genes, 22 transfer RNA (tRNA) genes and 1 non-coding region. Its organization and arrangement is depicted in Table 1, which is identical to other skippers (Hao et al., 2012; Wang et al., 2014, 2015). The overall base composition was 39.7% A, 40.7% T, 7.7% G and 11.9% C, with a sight A + T bias of 80.4%. Thirteen PCGs and two rRNA were first identified using an open reading frame (ORF) finder (www.ncbi.nlm.nih.gov/gorf/ orfig.cgi), specifying the invertebrate mitochondrial genetic code. Then, they were calibrated by sequence similarity using published lepidopteran mitogenome sequences. All PCGs use standard ATN (ATT, ATG or ATA) as the start codon except COX1 that uses CGA. Eight PCGs (ND2, ATP8, ATP6, COIII, ND3, ND4, ND6, ND1) employed the typical stop codon TAA, while the remaining five PCGs terminated with a single T. The mtDNA genome of P. nascens contained 22 tRNA genes: 2 isotypes for Ser (AGN and UCN) and Leu (UUR and CUN), 1 type for the other 18 types of amino acids. All of the 22 tRNA genes, ranging from 61 to 71 bp, had a typical cloverleaf structure. The non-coding AT-rich region was 365 bp long located between 12S rRNA and tRNAMet, containing a 18 bp poly-T stretch, a microsatellite-like (TA)8 element.

Correspondence: Miss Weidong Yu, Shanghai Normal University, Shanghai, China. E-mail: [email protected] Jianqing Zhu, Department of Herbivore, Shanghai Zoological Park, 2381, Hongqiao Road, Changning, Shanghai, 200335, People’s Republic of China. Tel: +86 21 6269 7005. Fax: +86 21 6269 7005. E-mail: [email protected]

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W. Jiang et al.

Mitochondrial DNA, Early Online: 1–2

Table 1. Characteristics of the mitochondrial genome of Polytremis nascens.

Downloaded by [McMaster University] at 08:07 05 October 2015

Gene tRNAMet tRNAIle 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 tRNALeu(CUN) 16SrRNA tRNAVal 12SrRNA A + T rich region

Direction

Position

Size (bp)

Inter-genetic nucleotidea (bp)

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 R R R R

1–68 69–133 203–135 271–1284 1282–1349 1408–1342 1497–1432 1511–3042 3043–3109 3110–3788 3789–3859 3873–3941 3942–4103 4097–4774 4780–5565 5593–5653 5651–6001 6000–6065 6066–6128 6129–6195 6198–6258 6272–6337 6475–6411 8211–6475 8281–8212 9622–8282 9904–9623 9910–9974 10,039–9975 10,045–10,572 10,594–11,742 11,741–11,806 12,765–11,824 12,834–12,767 14,193–12,856 14,259–14,195 15,027–14,260 15,028–15,392

68 65 69 1014 68 67 66 1532 67 679 71 69 162 678 786 61 351 66 63 67 61 66 65 1737 70 1341 282 65 65 528 1149 66 942 68 1338 65 768 365

0 0 1 67 3 8 23 13 0 0 0 13 0 7 5 27 3 2 0 0 2 13 73 1 0 0 0 5 0 5 21 2 17 1 21 1 0 0

Start codon

Stop codonb

ATT

TAA

CGA

T–

ATG

T–

ATC ATT ATG

TAA TAA TAA

ATT

TAA

ATT

T–

ATG ATG

TAA T–

ATA ATG

TAA T–

ATG

TAA

a

Numbers correspond to the nucleotides separating adjacent genes. Negative numbers indicate overlapping nucleotides. T– represents incomplete stop codons.

b

Declaration of interest This study was financially supported by grants from National Natural Science Foundation of China (No.31401997), Innovation Program of Shanghai Municipal Education Commission – China (No. 14YZ068), and Shanghai Normal University (No. SK201340). The authors declare no conflicts of interests. The authors alone are responsible for the content and writing of this article.

References Chou I. (1994). Monographia Rhopalocerorum Sinensium. Zhengzhou: Henan Scientific and Technological Press. Evans WH. (1949). A catalogue of the Hesperiidae from Europe, Asia and Australia in the British Museum (Natural History). London: Trustees of the British Museum. Hao J, Sun Q, Zhao H, Sun X, Gai Y, Yang Q. (2012). The complete mitochondrial genome of Ctenoptilum vasava (Lepidoptera: Hesperiidae: Pyrginae) and its phylogenetic implication. Comp Funct Genomics 2012:328049. Huang H, Xue YP. (2004). Notes on some Chinese butterflies (Lepidoptera, Rhopalocera). Neue Entomologische Nachrichte 57: 238–9. Jiang WB, Zhu JQ, Chen MH, Yang QC, Du X, Chen SY, Zhang LN, et al. (2014b). Wolbachia infection status and genetic structure in

natural populations of Polytremis nascens (Lepidoptera: Hesperiidae). Infect Genet Evol 27:202–11. Jiang WB, Zhu JQ, Song, C, Li XY, Yang Y, Yu WD. (2013). Molecular phylogeny of the butterfly genus Polytremis (Hesperiidae, Hesperiinae, Baorini) in China. PLoS One 8:e84098. Jiang WB, Zhu JQ, Zhan L, Chen MH, Song C, Yu WD. (2014a). Isolation and characterization of microsatellite loci in Polytremis nascens (Lepidoptera: Hesperiidae), and their cross-amplification in related species. Appl Entomol Zool 49:177–81. Leech JH. (1892–1894). Butterflies from China, Japan and Corea. London: RH Porter. p 614. Wang AR, Jeong HC, Han YS, Kim I. (2014). The complete mitochondrial genome of the mountainous duskywing, Erynnis montanus (Lepidoptera: Hesperiidae): A new gene arrangement in Lepidoptera. Mitochondrial DNA 25:93–4. Wang K, Hao JH, Zhao HB. (2015). Characterization of complete mitochondrial genome of the skipper butterfly, Celaenorrhinus maculosus (Lepidoptera: Hesperiidae). Mitochondrial DNA. [Epub ahead of print]. DOI: 10.3109/19401736.2013.840610. Zhu JQ. (2012). A taxonomic study on the tribe Baorini Doherty, 1886 (Lepidoptera: Hesperiidae: Hesperiinae) of China. [MD thesis]. Shanghai: Shanghai Normal University. Zhu JQ, Chen ZB, Li LZ. (2012). Polytremis jigongi: A new skipper from China (Lepidoptera: Hesperiidae). Zootaxa 3274:63–8.

Complete mitochondrial DNA genome of Polytremis nascens (Lepidoptera: Hesperiidae).

In this study, the complete mitochondrial DNA (mtDNA) sequence of Polytremis nascens (Lepidoptera: Hesperiidae) was determined. The 15,392 bp mitogeno...
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