Ghost loci imply hox and parahox existence in the last common ancestor of animals

Current Biology

Volumn 22, Issue 20, 2012, Pages 1951-1956

  Mendivil Ramos, Olivia ^a   Barker, Daniel ^a   Ferrier, David E K ^a  

^a UNIVERSITY OF ST ANDREWS   (United Kingdom)

Author keywords

[No Author keywords available]

Indexed keywords

ANIMAL; ARTICLE; GENE EXPRESSION REGULATION; GENETICS; HOMEOBOX; HUMAN; MOLECULAR EVOLUTION; MONTE CARLO METHOD; PHYLOGENY; PLACOZOA; SEA ANEMONE; SPONGE (PORIFERA); SYNTENY;

ANIMALS; EVOLUTION, MOLECULAR; GENE EXPRESSION REGULATION, DEVELOPMENTAL; GENES, HOMEOBOX; HUMANS; MONTE CARLO METHOD; PHYLOGENY; PLACOZOA; PORIFERA; SEA ANEMONES; SYNTENY;

ANIMALIA; PLACOZOA; TROX;

EID: 84867843762     PISSN: 09609822     EISSN: None     Source Type: Journal    
DOI: 10.1016/j.cub.2012.08.023     Document Type: Article

References (27)

1. D.E.K. Ferrier Evolution of Hox complexes Adv. Exp. Med. Biol. 689 2010 91 100
2. K. Kamm, B. Schierwater, W. Jakob, S.L. Dellaporta, and D.J. Miller Axial patterning and diversification in the cnidaria predate the Hox system Curr. Biol. 16 2006 920 926
3. J.F. Ryan, M.E. Mazza, K. Pang, D.Q. Matus, A.D. Baxevanis, M.Q. Martindale, and J.R. Finnerty Pre-bilaterian origins of the Hox cluster and the Hox code: evidence from the sea anemone, Nematostella vectensis PLoS ONE 2 2007 e153
4. J.F. Ryan, K. Pang, J.C. Mullikin, M.Q. Martindale, A.D. Baxevanis NISC Comparative Sequencing Program The homeodomain complement of the ctenophore Mnemiopsis leidyi suggests that Ctenophora and Porifera diverged prior to the ParaHoxozoa Evodevo 1 2010 9
5. B. Schierwater, K. Kamm, M. Srivastava, D. Rokhsar, R.D. Rosengarten, and S.L. Dellaporta The early ANTP gene repertoire: insights from the placozoan genome PLoS ONE 3 2008 e2457
6. C. Larroux, G.N. Luke, P. Koopman, D.S. Rokhsar, S.M. Shimeld, and B.M. Degnan Genesis and expansion of metazoan transcription factor gene classes Mol. Biol. Evol. 25 2008 980 996
7. K.J. Peterson, and E.A. Sperling Poriferan ANTP genes: primitively simple or secondarily reduced? Evol. Dev. 9 2007 405 408
8. C. Larroux, B. Fahey, S.M. Degnan, M. Adamski, D.S. Rokhsar, and B.M. Degnan The NK homeobox gene cluster predates the origin of Hox genes Curr. Biol. 17 2007 706 710
9. J.M.W. Slack, P.W.H. Holland, and C.F. Graham The zootype and the phylotypic stage Nature 361 1993 490 492
10. D. Duboule Guidebook to the Homeobox Genes 1994 Oxford University Press Oxford
11. N.M. Brooke, J. Garcia-Fernàndez, and P.W.H. Holland The ParaHox gene cluster is an evolutionary sister of the Hox gene cluster Nature 392 1998 920 922
12. N.H. Putnam, M. Srivastava, U. Hellsten, B. Dirks, J. Chapman, A. Salamov, A. Terry, H. Shapiro, E. Lindquist, and V.V. Kapitonov Sea anemone genome reveals ancestral eumetazoan gene repertoire and genomic organization Science 317 2007 86 94
13. J.H.L. Hui, P.W.H. Holland, and D.E.K. Ferrier Do cnidarians have a ParaHox cluster? Analysis of synteny around a Nematostella homeobox gene cluster Evol. Dev. 10 2008 725 730
14. J.H.L. Hui, C. McDougall, A.S. Monteiro, P.W.H. Holland, D. Arendt, G. Balavoine, and D.E.K. Ferrier Extensive chordate and annelid macrosynteny reveals ancestral homeobox gene organization Mol. Biol. Evol. 29 2012 157 165
15. M. Srivastava, E. Begovic, J. Chapman, N.H. Putnam, U. Hellsten, T. Kawashima, A. Kuo, T. Mitros, A. Salamov, and M.L. Carpenter The Trichoplax genome and the nature of placozoans Nature 454 2008 955 960
16. W. Jakob, S. Sagasser, S.L. Dellaporta, P.W.H. Holland, K. Kuhn, and B. Schierwater The Trox-2 Hox/ParaHox gene of Trichoplax (Placozoa) marks an epithelial boundary Dev. Genes Evol. 214 2004 170 175
17. K.S. Pick, H. Philippe, F. Schreiber, D. Erpenbeck, D.J. Jackson, P. Wrede, M. Wiens, A. Alié, B. Morgenstern, M. Manuel, and G. Wörheide Improved phylogenomic taxon sampling noticeably affects nonbilaterian relationships Mol. Biol. Evol. 27 2010 1983 1987
18. H. Philippe, H. Brinkmann, D.V. Lavrov, D.T.J. Littlewood, M. Manuel, G. Wörheide, and D. Baurain Resolving difficult phylogenetic questions: why more sequences are not enough PLoS Biol. 9 2011 e1000602
19. M. Srivastava, O. Simakov, J. Chapman, B. Fahey, M.E.A. Gauthier, T. Mitros, G.S. Richards, C. Conaco, M. Dacre, and U. Hellsten The Amphimedon queenslandica genome and the evolution of animal complexity Nature 466 2010 720 726
20. P.W.H. Holland, H.A.F. Booth, and E.A. Bruford Classification and nomenclature of all human homeobox genes BMC Biol. 5 2007 47
21. A.L. Hughes, and R. Friedman Differential loss of ancestral gene families as a source of genomic divergence in animals Proc. Biol. Sci. 271 Suppl 3 2004 S107 S109
22. E.G.J. Danchin, P. Gouret, and P. Pontarotti Eleven ancestral gene families lost in mammals and vertebrates while otherwise universally conserved in animals BMC Evol. Biol. 6 2006 5
23. D.J. Miller, G. Hemmrich, E.E. Ball, D.C. Hayward, K. Khalturin, N. Funayama, K. Agata, and T.C.G. Bosch The innate immune repertoire in cnidaria - ancestral complexity and stochastic gene loss Genome Biol. 8 2007 R59
24. S. Wyder, E.V. Kriventseva, R. Schröder, T. Kadowaki, and E.M. Zdobnov Quantification of ortholog losses in insects and vertebrates Genome Biol. 8 2007 R242
25. T. Takahashi, C. McDougall, J. Troscianko, W.-C. Chen, A. Jayaraman-Nagarajan, S.M. Shimeld, and D.E.K. Ferrier An EST screen from the annelid Pomatoceros lamarckii reveals patterns of gene loss and gain in animals BMC Evol. Biol. 9 2009 240
26. C.W. Dunn, A. Hejnol, D.Q. Matus, K. Pang, W.E. Browne, S.A. Smith, E. Seaver, G.W. Rouse, M. Obst, and G.D. Edgecombe Broad phylogenomic sampling improves resolution of the animal tree of life Nature 452 2008 745 749
27. M. Jager, R. Chiori, A. Alié, C. Dayraud, E. Quéinnec, and M. Manuel New insights on ctenophore neural anatomy: immunofluorescence study in Pleurobrachia pileus (Müller, 1776) J. Exp. Zool. (Mol. Dev. Evol.) 316 2011 171 187