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RNA Biology Volume 15, 2018 - Issue 9
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Research Paper

Single-molecule long-read transcriptome profiling of Platysternon megacephalum mitochondrial genome with gene rearrangement and control region duplication

Jianjun LiuProvincial Key Laboratory of the Conservation and Exploitation Research of Biological Resources in Anhui, Life Science College of Anhui Normal University, Wuhu, Anhui, P.R. ChinaView further author information
,
Hui JiangProvincial Key Laboratory of the Conservation and Exploitation Research of Biological Resources in Anhui, Life Science College of Anhui Normal University, Wuhu, Anhui, P.R. ChinaView further author information
,
Jiawei ZanProvincial Key Laboratory of the Conservation and Exploitation Research of Biological Resources in Anhui, Life Science College of Anhui Normal University, Wuhu, Anhui, P.R. ChinaView further author information
,
Yuantian BaoProvincial Key Laboratory of the Conservation and Exploitation Research of Biological Resources in Anhui, Life Science College of Anhui Normal University, Wuhu, Anhui, P.R. ChinaView further author information
,
Jinxiu DongProvincial Key Laboratory of the Conservation and Exploitation Research of Biological Resources in Anhui, Life Science College of Anhui Normal University, Wuhu, Anhui, P.R. ChinaView further author information
,
Lei XiongProvincial Key Laboratory of the Conservation and Exploitation Research of Biological Resources in Anhui, Life Science College of Anhui Normal University, Wuhu, Anhui, P.R. ChinaView further author information
&
Liuwang NieProvincial Key Laboratory of the Conservation and Exploitation Research of Biological Resources in Anhui, Life Science College of Anhui Normal University, Wuhu, Anhui, P.R. ChinaCorrespondence[email protected]
View further author information
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Pages 1244-1249 | Received 10 Jul 2018, Accepted 24 Aug 2018, Published online: 23 Sep 2018

References

  • Clayton DA. Transcription and replication of animal mitochondrial DNAs. Int Rev Cytol. 1992;141:217–232.
  • Peng QL, Nie LW, Pu YG. Complete mitochondrial genome of Chinese big-headed turtle, Platysternon megacephalum, with a novel gene organization in vertebrate mtDNA. Gene. 2006;380:14–20.
  • Zheng C, Nie L, Wang J, et al. Recombination and evolution of duplicate control regions in the mitochondrial genome of the asian big-headed turtle, Platysternon megacephalum. PLoS One. 2013;8:e82854.
  • Shao R, Barker SC, Mitani H, et al. Evolution of duplicate control regions in the mitochondrial genomes of metazoa: a case study with australasian ixodes ticks. Mol Biol Evol. 2005;22:620–629.
  • Jiang ZJ, Castoe TA, Austin CC, et al. Comparative mitochondrial genomics of snakes: extraordinary substitution rate dynamics and functionality of the duplicate control region. BMC Evol Biol. 2007;7:123.
  • Cathryn LA, Michael CD, John HT, et al. An unusual source of apparent mitochondrial heteroplasmy: duplicate mitochondrial control regions in Thalassarche albatrosses. Mol Ecol. 2005;14:3605–3613.
  • Brown WM, George M, Wilson AC. Rapid evolution of animal mitochondrial DNA. Proc Natl Acad Sci. 1979;76:1967–1971.
  • Tang Y, Manfredi G, Hirano M, et al. Maintenance of human rearranged mitochondrial DNAs in long-term cultured transmitochondrial cell lines. Mol Biol Cell. 2000;11:2349–2358.
  • Silva PF, José AE, Montoya J. Replication and transcription of mammalian mitochondrial Dna. Exp Physiol. 2004;88:41–56.
  • Rackham O, Shearwood AM, Mercer TR, et al. Long noncoding RNAs are generated from the mitochondrial genome and regulated by nuclear-encoded proteins. Rna-A Publ Rna Soc. 2011;17:2085.
  • Barshad G, Marom S, Cohen T, et al. Mitochondrial DNA transcription and its regulation: an evolutionary perspective. Trends Genet. 2018;34:682–692.
  • Gao S, Tian X, Chang H, et al. Two novel lncRNAs discovered in human mitochondrial DNA using PacBio full-length transcriptome data. Mitochondrion. 2018;38:41–47.
  • Mercer TR, Neph S, Dinger ME, et al. The human mitochondrial transcriptome. Cell. 2011;146:645–658.
  • Dorn GW. LIPCAR, A mitochondrial lnc in the noncoding RNA Chain? Circ Res. 2014;114:1548–1550.
  • Lung B, Zemann A, Madej MJ, et al. Identification of small non-coding RNAs from mitochondria and chloroplasts. Nucleic Acids Res. 2006;34:3842–3852.
  • Clark WC, Evans ME, Dominissini D, et al. tRNA base methylation identification and quantification via high-throughput sequencing. RNA. 2016;22:1771–1784.
  • Simpson RM, Bruno AE, Bard JE, et al. High-throughput sequencing of partially edited trypanosome mRNAs reveals barriers to editing progression and evidence for alternative editing. RNA. 2016;22:677–695.
  • Lipovich L, Hou ZC, Jia H, et al. High‐throughput RNA sequencing reveals structural differences of orthologous brain‐expressed genes between western lowland gorillas and humans. J Comp Neurol. 2015;524:288–308.
  • Abdel-Ghany SE, Hamilton M, Jacobi JL, et al. A survey of the sorghum transcriptome using single-molecule long reads. Nat Commun. 2016;7:11706.
  • Wang B, Tseng E, Regulski M, et al. Unveiling the complexity of the maize transcriptome by single-molecule long-read sequencing. Nat Commun. 2016;7:11708.
  • Jiang X, Hall AB, Biedler JK, et al. Single molecule RNA sequencing uncovers trans-splicing and improves annotations in Anopheles stephensi. Insect Mol Biol. 2017;26:298–307.
  • Gao S, Ren Y, Sun Y, et al. PacBio full-length transcriptome profiling of insect mitochondrial gene expression. RNA Biol. 2016;13:820–825.
  • Clayton DA. Transcription and replication of mitochondrial DNA. Hum Reprod. 2000;15:11–17.
  • Eberhard JR, Wright TF, Bermingham E. Duplication and concerted evolution of the mitochondrial control region in the parrot genus amazona. Mol Biol Evol. 2001;18:1330–1342.
  • Lee J-S, Miya M, Lee Y-S, et al. The complete DNA sequence of the mitochondrial genome of the self-fertilizing fish Rivulus marmoratus (Cyprinodontiformes, Rivulidae) and the first description of duplication of a control region in fish. Gene. 2001;280:1–7.
  • Liu H, Li H, Song F, et al. Novel insights into mitochondrial gene rearrangement in thrips (Insecta: thysanoptera) from the grass thrips, Anaphothrips obscurus. Sci Rep. 2017;7:4284.
  • Xiao CL, Chen Y, Xie SQ, et al. MECAT: fast mapping, error correction, and de novo assembly for single-molecule sequencing reads. Nat Methods. 2017;14:1072.
  • Thorvaldsdóttir H, Robinson JT, Mesirov JP. Integrative Genomics Viewer (IGV): high-performance genomics data visualization and exploration. Brief Bioinform. 2013;14:178–192.

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