Publication Cover
Mitochondrial DNA Part A
DNA Mapping, Sequencing, and Analysis
Volume 27, 2016 - Issue 5
185
Views
6
CrossRef citations to date
0
Altmetric
Short Communication

Numts: an impediment to DNA barcoding of Polyclinids, Tunicata

&
Pages 3395-3398 | Received 25 Nov 2014, Accepted 24 Jan 2015, Published online: 27 Mar 2015

References

  • Abdul Jaffar Ali H, Sivakumar V, Tamilselvi M. (2010). New record of colonial Ascidians from south west coast of India. Middle East J Scientist Res 5:366–73
  • Antunes A, Ramos MJ. (2005). Discovery of a large number of previously unrecognized mitochondrial pseudogenes in fish genomes. Genomics 86:708–17
  • Buhay JE. (2009). ‘COI-like’ sequences are becoming problematic in molecular systematic and DNA barcoding studies. J Crustac Biol 29:96–110
  • Carman MR, Bullar SG, Rocha RM, Lambert G, Dijkstra JA, Roper JJ, Goodwin A, et al. (2011). Ascidians at the Pacific and Atlantic entrances to the Panama Canal. Aquat Invas 4:371–80
  • Erpenbeck D, Voigt O, Adamski M, Woodcroft BJ, Hooper JNA, Worheide G, Degnan BM. (2011). Numts in the sponge genome reveal conserved transposition mechanism in metazoans. Mol Biol Evol 28:1–5
  • Geller J, Meyer C, Parker M, Hawk H. (2013). Redesign of PCR primers for mitochondrial cytochrome c oxidase subunit I for marine invertebrates and application in all-taxa biotic surveys. Mol Eco Res 13:851–61
  • Hajibabaei M, Singer GAC, Hebert PDN, Hickey DA. (2007). DNS barcoding: How it complements taxonomy, molecular phylogenetics and population genetics. Trends Genet 23:167–72
  • Hazkani-Covo E, Zeller RM, Martin W. (2010). Molecular poltergeist: Mitochondrial DNA copies (Numts) in sequenced nuclear genomes. PloS Genet 6:e1000834
  • Hebert PDN, Cywinska A, Ball SL, Dewaard JR. (2003a). Biological identifications through DNA barcodes. Proc R Soc Lond B 270:313–21
  • Hlaing T, Tun Lin W, Somboon P, et al. (2009). Mitochondrial pseudogenes in the the nuclear genome of Aedes aegypti mosquitos: Implications for past and future population genetic studies. BMC Genet 10:11
  • Jacobs HT, Grimes B. (1986). Complete nucleotide sequences of the nuclear pseudogenes for cytochrome oxidase subunit I and the large mitochondrial ribosomal RNA in the sea urchin Strongylocentrotus purpuratus. J Mol Biol 187:509–27
  • Meyer CP. (2003). Molecular systematics of cowries (Gastropoda: Cypraeidae) and diversification patterns in the topics. Biol J Linn Soc Lond 79:401–59
  • Moulton MJ, Song H, Whiting MF. (2010). Assessing the effects of primer specificity on eliminating Numt coamplification in DNA barcoding: A case study from Orthoptera (Anthropoda: Insecta). Mol Eco Res 10:615–27
  • Nance S. (2003). Aplousobranch ascidians (Tunicata: Ascidiacea) from southern Africa [PhD thesis]. South Africa: University of Port Elizabeth.
  • Richly E, Leister D. (2004). Numts in sequenced eukaryotic genomes. Mol Biol Evol 12:1081–4
  • Schubart CD. (2009). Mitochondrial DNA and decapod phylogenies: The importance of pseudogenes and primer optimization. Boco Raton (FL): CRC Press
  • Sebastian VO. (1952). A new species of synascidian from Madras. Curr Sci 21:316–17
  • Sebastian VO. (1954). On Polyclinum indicum, a new synascidian from the Madras coast of India. Washington Acad Sci 44:18–24
  • Song H, Buhay JE, Whiting MF, Crandall KA. (2008). Many species in one: DNA barcoding overestimates the number of species when nuclear mitochondrial pseudogenes are coamplified. Proc Natl Acad Sci USA 105:13486–91
  • Stefaniak L, Lambert G, Gittenberger A, Zhang H, Lin S. (2009). Genetic conspecificity of the worldwide populations of Didemnum vexillum Kott, 2002. Aquat Invas 4:29–44
  • Tamilselvi M, Sivakumar V, Jaffar Ali HA, Thilaga RD. (2011). Distribution of alien Tunicates (Ascidians) in Tuticorin Coast, India. World J Zool 2:164–72
  • Tamura K, Stecher G, Peterson D, Filipski A, Kumar S. (2013). MEGA6: Molecular Evolutionary Genetics Analysis version 6.0. Mol Biol Evol 30:2725–9
  • Williams ST, Knowlton N. (2001). Mitochondrial pseudogenes are pervasive and often insidious in the snapping shrimp genus Alpheus. Mol Biol Evol 18:1484–93
  • Woischnik M, Moraes CT. (2002). Pattern of organization of human mitochondrial pseudogenes in the nuclear genome. Genome Res 12:885–93
  • Zhang DX, Hewitt GM. (1996). Nuclear integrations: Challenges for mitochondrial DNA markers. Trends Eco Evol 11:247–51

Reprints and Corporate Permissions

Please note: Selecting permissions does not provide access to the full text of the article, please see our help page How do I view content?

To request a reprint or corporate permissions for this article, please click on the relevant link below:

Academic Permissions

Please note: Selecting permissions does not provide access to the full text of the article, please see our help page How do I view content?

Obtain permissions instantly via Rightslink by clicking on the button below:

If you are unable to obtain permissions via Rightslink, please complete and submit this Permissions form. For more information, please visit our Permissions help page.