Genomic approaches reveal unexpected genetic divergence within Ciona intestinalis

Journal of Molecular Evolution

Volumn 61, Issue 5, 2005, Pages 627-635

  Suzuki, Miho M ^a   Nishikawa, Teruaki ^b   Bird, Adrian ^a  

^a UNIVERSITY OF EDINBURGH   (United Kingdom)

^b NAGOYA UNIVERSITY   (Japan)

Author keywords

Ciona intestinalis; Cryptic species; Genetic diversity; Genome evolution; North European specimens; Pacific specimens

Indexed keywords

AMINO ACID; GENOMIC DNA;

AMINO ACID SUBSTITUTION; ARTICLE; BIOLOGY; CIONA INTESTINALIS; DNA SEQUENCE; GENE LOCUS; GENETIC CODE; GENETIC VARIABILITY; GENOMICS; GEOGRAPHY; HYBRIDIZATION; INTRON; LABORATORY; MORPHOLOGY; NONHUMAN; NUCLEOTIDE SEQUENCE; POLYMERASE CHAIN REACTION; TRANSPOSON;

ANIMALS; BASE SEQUENCE; CIONA INTESTINALIS; ENGLAND; EVOLUTION, MOLECULAR; FERTILIZATION; GENOME; GENOMICS; HUMANS; JAPAN; MOLECULAR SEQUENCE DATA; PHYLOGENY; SEQUENCE ALIGNMENT; SEQUENCE HOMOLOGY, NUCLEIC ACID; UNITED STATES; VARIATION (GENETICS);

CIONA INTESTINALIS; INVERTEBRATA;

EID: 27744569273     PISSN: 00222844     EISSN: None     Source Type: Journal    
DOI: 10.1007/s00239-005-0009-3     Document Type: Article

References (26)

1. Carlton JT (1992) Introduced marine and estuarine mollusks of North America: An end-of-the-20th-century perspective. J Shellfish Res 11:489-505
2. Chen FC, Li WH (2001) Genomic divergences between humans and other hominoids and the effective population size of the common ancestor of humans and chimpanzees. Am J Hum Genet 68:444-56
3. Corbo JC, Di Gregorio A, Levine M (2001) The ascidian as a model organism in developmental and evolutionary biology. Cell 106:535-538
4. Coyne JA, Orr HA (2004) Speciation. Sinauer Associates, MA, Sunderland
5. Dehal P, Satou Y, Campbell RK, Chapman J, Degnan B, De Tomaso A , Davidson B, Di Gregorio A, Gelpke M, Goodstein DM, Harafuji N, Hastings KE, Ho I, Hotta K, Huang W, Kawashima T, Lemaire P, Martinez D, Meinertzhagen IA, Necula S, Nonaka M, Putnam N, Rash S, Saiga H, Satake M, Terry A, Yamada L, Wang HG, Awazu S, Azumi K, Boore J, Branno M, Chin-Bow S, DeSantis R, Doyle S, Francino P, Keys DN, Haga S, Hayashi H, Hino K, Imai KS, Inaba K, Kano S, Kobayashi K, Kobayashi M, Lee BI, Makabe KW, Manohar C, Matassi G, Medina M, Mochizuki Y, Mount S, Morishita T, Miura S, Nakayama A, Nishizaka S, Nomoto H, Ohta F, Oishi K, Rigoutsos I, Sano M, Sasaki A, Sasakura Y, Shoguchi E, Shin-i T, Spagnuolo A, Stainier D, Suzuki MM, Tassy O, Takatori N, Tokuoka M, Yagi K, Yoshizaki F, Wada S, Zhang C, Hyatt PD, Larimer F, Detter C, Doggett N, Glavina T, Hawkins T, Richardson P, Lucas S, Kohara Y, Levine M, Satoh N, Rokhsar DS (2002) The draft genome of Ciona intestinalis: insights into chordate and vertebrate origins. Science 298:2157-2167
6. Eno CN, Clark RA, Sanderson WG (eds) (1997) Non-native marine species in British waters: a review and directory. Joint Nature Conservation Committee, Peterborough, UK
7. Galil BS (2000) A sea under siege - Alien species in the Mediterranean. Biol Invasions 2:177-186
8. Gaunt MW, Miles MA (2002) An insect molecular clock dates the origin of the insects and accords with palaeontological and biogeographic landmarks. Mol Biol Evol 19:748-761
9. Geller JB, Walton ED, Grosholz ED, Ruiz GM (1997) Cryptic invasions of the crab Carcinus detected by molecular phylogeography. Mol Ecol 10:901-906
10. Hoshino Z, Nishikawa T (1985) Taxonomic studies of Ciona intestinalis (L.) and its allies. Publ Seto Mar Biol Lab 30:61-79
11. Kano S, Chiba S, Satoh N (2001) Genetic relatedness and variability in inbred and wild populations of the solitary ascidian Ciona intestinalis revealed by arbitrarily primed polymerase chain reaction. Mar Biotechnol (NY) 3:58-67
12. Kimura M (1983) The neutral theory of molecular evolution. Cambridge University Press, Cambridge
13. Lambert C, Lafargue F, Lambert G (1990) Preliminary note on the genetic isolation of Ciona species. Vie Milieu 40:293-295
14. Leveugle M, Prat K, Popovici C, Birnbaum D, Coulier F (2004) Phylogenetic analysis of Ciona intestinalis gene superfamilies supports the hypothesis of successive gene expansions. J Mol Evol 58:168-181
15. Linné CV (1767) Systema naturae, per regna tria naturae, secundum classes, ordines, genera, species, cum characteribus, differentiis, synonymis, locis. Holmiae, Stockholm
16. Satoh N (2003) The ascidian tadpole larva: comparative molecular development and genomics. Nat Rev Genet 4:285-295
17. Satoh N, Jeffery WR (1995) Chasing tails in ascidians: developmental insights into the origin and evolution of chordates. Trends Genet 11:354-359
18. Satoh N, Satou Y, Davidson B, Levine M (2003) Ciona intestinalis: an emerging model for whole-genome analyses. Trends Genet 19:376-81
19. Simmen MW, Bird A (2000) Sequence analysis of transposable elements in the sea squirt, Ciona intestinalis. Mol Biol Evol 17:1685-1694
20. Simmen MW, Leitgeb S, Clark VH, Jones SJ, Bird A (1998) Gene number in an invertebrate chordate, Ciona intestinalis. Proc Natl Acad Sci USA 95:4437-4440
21. Simmen MW, Leitgeb S, Charlton J, Jones SJ, Harris BR, Clark VH, Bird A (1999) Nonmethylated transposable elements and methylated genes in a chordate genome. Science 283:1164-1167
22. Sneli J-A, Gulliksen B (1975) Tethyum sociabile Gunnerus, 1765 (Tunicata, Ascidiacea): proposed suppression under the plenary powers. Bull Zool Nomencl 32:127-128
23. Stachowicz JJ, Whitlatch RB, Osman RW (1999) Species diversity and invasion resistance in a marine ecosystem. Science 286:1577-1579
24. Tavare S, Marshall CR, Will O, Soligo C, Martin RD (2002) Using the fossil record to estimate the age of the last common ancestor of extant primates. Nature 416:726-729
25. Tweedie S, Charlton J, Clark V, Bird A (1997) Methylation of genomes and genes at the invertebrate-vertebrate boundary. Mol Cell Biol 17:1469-1475
26. Van WG (1945) The North and South American sscidians. Bull Am Mus Nat Hist 84:1-476