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Research Article

Characterisation of the complete mitochondrial genome of the black-footed abalone Haliotis iris

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Pages 74-86 | Received 15 Mar 2018, Accepted 28 Jun 2018, Published online: 15 Aug 2018

References

  • Bandyopadhyay PK, Stevenson BJ, Cady MT, Olivera BM, Wolstenholme DR. 2006. Complete mitochondrial DNA sequence of a Conoidean gastropod, Lophiotoma (Xenuroturris) cerithiformis: Gene order and gastropod phylogeny. Toxicon. 48:29–43. doi: 10.1016/j.toxicon.2006.04.013
  • Basso A, Babbucci M, Pauletto M, Riginella E, Patarnello T, Negrisolo E. 2017. The highly rearranged mitochondrial genomes of the crabs Maja crispata and Maja squinado (Majidae) and gene order evolution in Brachyura. Scientific Reports. 7:4096. doi: 10.1038/s41598-017-04168-9
  • Benson G. 1999. Tandem repeats finder: a program to analyze DNA sequences. Nucleic Acids Research. 27(2):573–580. doi: 10.1093/nar/27.2.573
  • Bernt M, Donath A, Jühling F, Externbrink F, Florentz C, Fritzsch G, Pütz J, Middendorf M, Stadler PF. 2013. MITOS: improved de novo metazoan mitochondrial genome annotation. Molecular Phylogenetics and Evolution. 69(2):313–319. doi: 10.1016/j.ympev.2012.08.023
  • Boore JL. 1999. Animal mitochondrial genomes. Nucleic Acids Research. 27(8):1767–1780. doi: 10.1093/nar/27.8.1767
  • Bryant MJ, Flint HJ, Sin FYT. 2006. Isolation, characterization, and expression analysis of three actin genes in the New Zealand black-footed abalone, Haliotis iris. Marine Biotechnology. 8(2):110–119. doi: 10.1007/s10126-005-5139-5
  • Cunningham SC, Smith AM, Lamare MD. 2016. The effects of elevated pCO2 on growth, shell production and metabolism of cultured juvenile abalone, Haliotis iris. Aquaculture Research. 47:2375–2392. doi: 10.1111/are.12684
  • Feng S, Powell SM, Wilson R, Bowman JP. 2014. Extensive gene acquisition in the extremely psychrophilic bacterial species Psychroflexus torquis and the link to sea-ice ecosystem specialism. Genome Biology and Evolution. 6:133–148. doi: 10.1093/gbe/evt209
  • Feng YW, Li Q, Yu H, Kong LF. 2017. Complete mitochondrial genome sequence of Cucullaea labiata (Arcoida: Cucullaeidae) and phylogenetic implications. Genes & Genomics. 39:867–875. doi: 10.1007/s13258-017-0548-1
  • Geiger DL. 2000. Distribution and biogeography of the Haliotidae (Gastropoda: Vetigastropoda) world-wide. Bollettino Malacologico. 35:57–120.
  • Ghiselli F, Milani L, Iannello M, Procopio E, Chang PL, Nuzhdin SV, Passamonti M. 2017. The complete mitochondrial genome of the grooved carpet shell, Ruditapes decussatus (Bivalvia, Veneridae). PeerJ. 5:e3692. doi: 10.7717/peerj.3692
  • Grant JR, Stothard P. 2008. The CGViewServer: A comparative genomics tool for circular genomes. Nucleic Acids Research. 36:W181–W184. doi: 10.1093/nar/gkn179
  • Guo ZS, Zhang JW, Li L, Hou XG, Zhang HT, Zhang XJ. 2017. Sequence analysis of mitochondrial 16S rRNA gene and molecular phylogeny of three species of abalones. Journal of Shandong University (Natural Science. 52:1–8. (In Chinese with English abstract).
  • Lavrov DV, Boore JL, Brown WM. 2002. Complete mtDNA sequences of two millipedes suggest a new model for mitochondrial gene rearrangements: duplication and non-random loss. Molecular Biology and Evolution. 19:163–169. doi: 10.1093/oxfordjournals.molbev.a004068
  • Lee H, Samadi S, Puillandre N, Tsai MH, Dai CF, Chen WJ. 2016. Eight new mitogenomes for exploring the phylogeny and classification of Vetigastropoda. Journal of Molluscan Studies. 82:534–541. doi: 10.1093/mollus/eyw027
  • Lin LL, Li XJ, Zhang HL, Zheng ZM. 2017. Mitochondrial genomes of three Tetrigoidea species and phylogeny of Tetrigoidea. PeerJ. 5:e4002. doi: 10.7717/peerj.4002
  • Lunt DH, Whipple LE, Hyman BC. 1998. Mitochondrial DNA variable number tandem repeats (VNTRs): utility and problems in molecular ecology. Molecular Ecology. 7:1441–1455. doi: 10.1046/j.1365-294x.1998.00495.x
  • Ma HY, Ma CY, Li CH, Lu JX, Zou X, Gong YY, Wang W, Chen W, Ma LB, Xia LJ. 2015. First mitochondrial genome for the red crab (Charybdis feriata) with implication of phylogenomics and population genetics. Scientific Reports. 5:11524. doi: 10.1038/srep11524
  • Maynard BT, Kerr LJ, McKiernan JM, Jansen ES, Hanna PJ. 2005. Mitochondrial DNA sequence and gene organization in the Australian blacklip abalone Haliotis rubra (Leach). Marine Biotechnology. 7:645–658. doi: 10.1007/s10126-005-0013-z
  • Nakajima Y, Shinzato C, Khalturina M, Nakamura M, Watanabe H, Satoh N, Mitarai S. 2016. The mitochondrial genome sequence of a deep-sea, hydrothermal vent limpet, Lepetodrilus nux, presents a novel vetigastropod gene arrangement. Marine Genomics. 28:121–126. doi: 10.1016/j.margen.2016.04.005
  • Osca D, Irisarri I, Todt C, Grande C, Zardoya R. 2014. The complete mitochondrial genome of Scutopus ventrolineatus (Mollusca: Chaetodermomorpha) supports the Aculifera hypothesis. BMC Evolutionary Biology. 14:1–10. doi: 10.1186/1471-2148-14-1
  • Robinson NA, Hall NE, Ross EM, Cooke IR, Shiel BP, Robinson AJ, Strugnell JM. 2016. The complete mitochondrial genome of Haliotis laevigata (Gastropoda: Haliotidae) using MiSeq and HiSeq sequencing. Mitochondrial DNA. 27(1):437–438. doi: 10.3109/19401736.2014.900611
  • Rocha EPC, Touchon M, Feil EJ. 2006. Similar compositional biases are caused by very different mutational effects. Genome Research. 16:1537–1547. doi: 10.1101/gr.5525106
  • Sun SE, Li Q, Kong LF, Yu H. 2018. Multiple reversals of strand asymmetry in molluscs mitochondrial genomes, and consequences for phylogenetic inferences. Molecular Phylogenetics and Evolution. 118:222–231. doi: 10.1016/j.ympev.2017.10.009
  • Sun YX, Wang L, Wei GQ, Qian C, Dai LS, Sun Y, Abbas MN, Zhu BJ, Liu CL. 2016. Characterization of the complete mitochondrial genome of Leucoma salicis (Lepidoptera: Lymantriidae) and comparison with other Lepidopteran insects. Scientific Reports. 6:39153. doi: 10.1038/srep39153
  • Tamura K, Stecher G, Peterson D, Filipski A, Kumar S. 2013. MEGA 6: molecular evolutionary genetics analysis version 6.0. Molecular Biology and Evolution. 30(12):2725–2729. doi: 10.1093/molbev/mst197
  • Tang BP, Xin ZZ, Liu Y, Zhang DZ, Wang ZF, Zhang HB, Chai XY, Zhou CL, Liu QN, Yang WX. 2017. The complete mitochondrial genome of Sesarmops sinensis reveals gene rearrangements and phylogenetic relationships in Brachyura. PLoS ONE. 12(6):e0179800. doi: 10.1371/journal.pone.0179800
  • Uribe JE, Kano Y, Templado J, Zardoya R. 2016. Mitogenomics of Vetigastropoda: insights into the evolution of pallial symmetry. Zoologica Scripta. 45(2):145–159. doi: 10.1111/zsc.12146
  • Uribe JE, Williams ST, Templado J, Abalde S, Zardoya R. 2017. Denser mitogenomic sampling improves resolution of the phylogeny of the superfamily Trochoidea (Gastropoda: Vetigastropoda). Journal of Molluscan Studies. 83:111–118. doi: 10.1093/mollus/eyw049
  • Van Wormhoudt A, Le Bras Y, Huchette S. 2009. Haliotis marmorata from Senegal; a sister species of Haliotis tuberculata: morphological and molecular evidence. Biochemical Systematics and Ecology. 37:747–755. doi: 10.1016/j.bse.2009.12.020
  • Will M, Hale ML, Schiel DR, Gemmell NJ. 2011. Low to moderate levels of genetic differentiation detected across the distribution of the New Zealand abalone, Haliotis iris. Marine Biology. 158:1417–1429. doi: 10.1007/s00227-011-1659-x
  • Will M, McCowan T, Gemmell NJ. 2015. Broad-scale genetic patterns of New Zealand abalone, Haliotis iris, across a distribution spanning 13° latitude and major oceanic water masses. Genetica. 143:487–500. doi: 10.1007/s10709-015-9847-0
  • Williams ST, Foster PG, Littlewood DTJ. 2014. The complete mitochondrial genome of a turbinid vetigastropod from MiSeq Illumina sequencing of genomic DNA and steps towards a resolved gastropod phylogeny. Gene. 533:38–47. doi: 10.1016/j.gene.2013.10.005
  • Wort EJG, Fenberg PB, Williams ST. 2017. Testing the contribution of individual genes in mitochondrial genomes for assessing phylogenetic relationships in Vetigastropoda. Journal of Molluscan Studies. 83:123–128. doi: 10.1093/mollus/eyw044
  • Wyman SK, Jansen RK, Boore JL. 2004. Automatic annotation of organellar genomes with DOGMA. Bioinformatics. 20:3252–3255. doi: 10.1093/bioinformatics/bth352
  • Xin Y, Ren JF, Liu X. 2011. Mitogenome of the small abalone Haliotis diversicolor Reeve and phylogenetic analysis within Gastropoda. Marine Genomics. 4:253–262. doi: 10.1016/j.margen.2011.06.005
  • Yamazaki N, Ueshima R, Terrett JA, Yokobori S, Kaifu M, Segawa R, Kobayashi T, Numachi K, Ueda T, Nishikawa K, et al. 1997. Evolution of pulmonate gastropod mitochondrial genomes: comparisons of gene organizations of Euhadra, Cepaea and Albinaria and implications of unusual tRNA secondary structures. Genetics. 145:749–758.
  • Yang EC, Nam BH, Noh SJ, Kim YO, Kim DG, Jee YJ, Park JH, Noh JH, Yoon HS. 2015. Complete mitochondrial genome of Pacific abalone (Haliotis discus hannai) from Korea. Mitochondrial DNA. 26(6):917–918. doi: 10.3109/19401736.2013.863289
  • Zhu KC, Wu N, Sun XX, Guo HY, Zhang N, Jiang SG, Zhang DC. 2017. Characterization of complete mitochondrial genome of five stripe wrasse (Thalassoma quinquevittatum, Lay & Bennett, 1839) and phylogenetic analysis. Gene. 598:71–78. doi: 10.1016/j.gene.2016.10.042

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