Conservation and phylogeny of a novel family of non-Hox genes of the Antp class in demospongiae (Porifera)

Journal of Molecular Evolution

Volumn 63, Issue 2, 2006, Pages 222-230

  Richelle Maurer, Evelyn ^a   Boury Esnault, Nicole ^b   Itskovich, Valeria B ^c   Manuel, Michaël ^d   Pomponi, Shirley A ^e   Van De Vyver, Gisèle ^a   Borchiellini, Carole ^b  

^a UNIVERSITÉ LIBRE DE BRUXELLES   (Belgium)

^b STATION MARINE D ENDOUME   (France)

^c LIMNOLOGICAL INSTITUTE   (Russian Federation)

^d ECOLE NORMALE SUPÉRIEURE   (France)

^e FLORIDA ATLANTIC UNIVERSITY   (United States)

Author keywords

Demospongiae; Expression; Homeobox genes; Phylogeny; Sponges

Indexed keywords

AGELAS; AXINELLA; CLADISTICS; CONTROLLED STUDY; FAMILIA; GENE EXPRESSION; GENE IDENTIFICATION; GENE SEQUENCE; GENETIC CONSERVATION; GENETIC TRANSCRIPTION; HOMEOBOX; HOX GENE; MOLECULAR PHYLOGENY; MULTIGENE FAMILY; NONHUMAN; NUCLEOTIDE SEQUENCE; ORDO; PHYLOGENY; REVIEW; SEQUENCE HOMOLOGY; SPONGE (PORIFERA); UNINDEXED SEQUENCE;

AMINO ACID SEQUENCE; ANIMALS; ANTENNAPEDIA HOMEODOMAIN PROTEIN; BASE SEQUENCE; CONSERVED SEQUENCE; DNA; GENE EXPRESSION REGULATION, DEVELOPMENTAL; GENES, HOMEOBOX; MOLECULAR SEQUENCE DATA; PHYLOGENY; PORIFERA; SEQUENCE ALIGNMENT; SEQUENCE ANALYSIS, DNA; SEQUENCE HOMOLOGY, AMINO ACID;

AGELAS; ANIMALIA; AXINELLA CORRUGATA; BILATERIA; DEMOSPONGIAE; EPHYDATIA MUELLERI; HALICHONDRIDA; HAPLOSCLERIDA; PORIFERA;

EID: 33746429006     PISSN: 00222844     EISSN: None     Source Type: Journal    
DOI: 10.1007/s00239-005-0294-x     Document Type: Review

References (38)

1. Bae Y-K, Shimizu T, Yabe T, Kim C-H, Tsutomu H, Nojima H, Muraoka M, Hiramo T, Hibi M (2003) A homeobox gene, pnx, is involved in the formation of posterior neurons in zebrafish. Development 130:1853-1865
2. Borchiellini C, Chombard C, Manuel M, Alivon E, Vacelet J, Boury-Esnault N (2004) Molecular phylogeny of Demospongiae: implications for classification and scenarios of character evolution. Mol Phylogenet Evol 32:823-837
3. Coutinho CC, Vissers S, Van de Vyver G (1994) Evidence of homeobox genes in the freshwater sponge Ephydatia fluviatilis. In: van Soest RWM, van Kempen ThMG, Braekman JC (eds) Sponge in time and space; Biology, chemistry, paleontology. A.A. Balkema, Rotterdam, pp 385-388
4. Coutinho CC, Seack J, Van de Vyver G , Borojevic R, Müller WEG (1998) Origin of the metazoan bodyplan: characterization and functional testing of the promoter of the homeobox gene EmH-3 from the freshwater sponge Ephydatia muelleri in mouse 3T3 cells. Biol Chem 379:1243-1251
5. Coutinho CC, Fonseca RN, Mansure JJ, Borojevic R (2003) Early steps in the evolution of multicellularity: deep structural and functional homologies among homeobox genes in sponges and higher metazoans. Mech Dev 120:429-440
6. Degnan BM, Degnan SM, Giusti A, Morse DE (1995) A hox/hom homeobox gene in sponges. Gene 155:175-177
7. Erpenbeck D, McCormack GP, Breeuwer JAJ, van Soest RWM (2004) Order level differences in the structure of partial LSU across demosponges (Porifera): new insights into an old taxon. Mol Phylogenet Evol 32:388-395
8. Erpenbeck D, van Soest RWM (2005a) A survey for biochemical synapomorphies to reveal phylogenetic relationships of halichondrid demosponges (Metazoa: Porifera). Biochem Syst Ecol 31:583-616
9. Erpenbeck D, Breeuwer JAJ, van Soest RWM (2005b) Implications from a 28S rRNA gene fragment for the phylogenetic relationships of halichondrid sponges (Porifera:Demospongiae). J Zool Soc 43:93-99
10. Felsenstein J (1985) Confidence limits on phylogenies: an approach using the bootstrap. Evolution 39:783-791
11. Galliot B (2000) Conserved and divergent genes in apex and axis development of cnidarians. Curr Opin Genet Dev 10:629-637
12. Gauchat D, Mazet F, Berney C, Schummer M, Kreger S, Pawlowski J, Galliot B (2000) Evolution of the Antp-class genes differential expression of Hydra Hox/paraHox genes in anterior patterning. Proc Natl Acad Sci USA 97:4493-4498
13. Guindon S, Gascuel O (2003) A simple, fast, and accurate algorithm to estimate large phylogenies by maximum likelihood. Syst Biol 52:696-704
14. Hill A, Tetrault J, Hill M (2004) Isolation and expression analysis of a posterior Antp-class Bar-/Bsh-like homeobox gene. Dev Genes Evol 214:515-523
15. Hooper JNA, van Soest RWM (2002) Systema Porifera: A guide to the classification of sponges. In: Hooper JNA, Soest RWMvan (eds) Systema Porifera: A guide to the classification of sponges, Vol 1. Kluwer Academic/Plenum, New York, pp 1-3
16. Hoshiyama D, Suga H, Iwabe N, Koyanagi M, Nikoh N, Kuma K, Matsuda F, Honjo T, Miyata T (1998) Sponge pax cDNA related to pax-2/5/8 and ancient gene duplication in the pax family. J Mol Evol 47:640-648
17. Itskovich VB, Belikov SI, Efremova SM, Masuda Y (1999) Phylogenetic relationships between Lubomirskiidae, Spongillidae and some marine sponges according partial sequences of 18S rDNA. Mem Queensl Mus 44:275-280
18. Jones DT, Taylor WR, Thornton JM (1992) The rapid generation of mutation data matrices from protein sequences. Comput Appl Biosci 8(3):275-282
19. Kurata T, Ueno N (2003) Xenopus Nbx, a novel NK-1 related gene essential for neural crest formation. Dev Biol 257:30-40
20. Logan C, Wingate RJT, McKay IJ, Lumsden A (1998) Tlx-1 and Tlx-3 homeobox gene expression in cranial sensory ganglia and hindbrain of the chick embryo: markers of patterned connectivity. J Neurosci 18:5389-5402
21. Manuel M, Le Parco Y (2000) Homeobox gene diversification in the calcareous sponge Sycon raphanus. Mol Phylogenet Evol 17:97-107
22. Martinelli C, Spring J (2005) T-box and homeobox genes from the ctenophore Pleurobrachia pileus: comparison of brachyury, Tlbx2/3 and Tlx in basal metazoans and bilaterians. FEBS Lett 579(22):5024-5028
23. Nichols SA (2005) An evaluation of support for order-level monophyly and interrelationships within the class Demospongiae using partial data from the large subunit rDNA and cytochrome oxidase subunit I. Mol Phylogenet Evol 34:81-96
24. Nikko E, Van de Vyver G , Richelle-Maurer E (2001) Retinoic acid down-regulates the expression of EmH-3 homeobox-containing gene in the freshwater sponge Ephydatia muelleri. Mech Age Dev 122:779-794
25. Perovic S, Schröder HC, Sudek S, Grebenjuk VA, Batel R, Stifanic M, Müller IM, Müller WEG (2003) Expression of one sponge Iroquois homeobox gene in primmorphs from Suberites domuncula during canal formation. Evol Dev 5:240-250
26. Richelle-Maurer E, Van de Vyver G (1999a) Expression of homeobox-containing genes in freshwater sponges. Mem Queensl Mus 44:509-514
27. Richelle-Maurer E, Van de Vyver G (1999b) Temporal and spatial expression of EmH-3, a homeobox-containing gene isolated from the freshwater sponge Ephydatia muelleri. Mech Age Dev 109:203-219
28. Richelle-Maurer E, Van de Vyver G , Vissers S, Coutinho CC (1998) Homeobox-containing genes in freshwater sponges: characterization, expression, and phylogeny. In: Müller WEG (ed) Molecular evolution: Evidence for monophyly of Metazoa, Vol 19. Springer, Berlin, pp 157-175
29. Richelle-Maurer E, Braekman J-C, De Kluijver MJ , Gomez R, Van de Vyver G , van Soest RWM , Devijver C (2001) Cellular location of (2R, 3R, 7Z)-2-aminotetradec-7-ene-1, 3-diol, a potent antimicrobial metabolite produced by the Caribbean sponge Haliclona vansoesti. Cell Tissue Res 306:157-165
30. Richelle-Maurer E, Sonet G, Van de Vyver G (2004) Identification of homologies of the EmH-3 homeobox-containing gene in demosponges. Boll Mus Ist Biol Univ Genova 68:565-577
31. Schröder HC, Efremova SM, Itskovich VB, Belikov SI, Masuda Y, Krasko A, Müller IM, Müller WEG (2003) Molecular phylogeny of the freshwater sponges in Lake Baikal. J Zool Syst Evol Res 41:81-86
32. Seimiya M, Ishiguro H, Miura K, Watanabe Y, Kurosawa Y (1994) Homeobox-containing genes in the most primitive metazoa, the sponges. Eur J Biochem 221:219-225
33. Seimiya M, Watanabe Y, Kurosawa YAD (1997) Identification of POU-class homeobox genes in a freshwater sponge and the specific expression of these genes during differentiation. Eur J Biochem 243:27-31
34. Smith ST, Jaynes JB (1996) A conserved region of Engrailed, shared among all en-, gsc-, Nk1-, Nk2- and msh class homeo-proteins, mediates active transcriptional repression in vivo. Development 122:3141-3150
35. Swofford DL (2000) PAUP*. Phylogenetic analysis using parsimony (*and other methods), version 4. Sinauer Associates, Sunderland, MA
36. Thompson JD, Higgins DG, Gibson TJ (1994) CLUSTAL W: improving the sensitivity of progressive multiple sequence alignment through sequence weighting, position specific gap penalties and weight matrix choice. Nucleic Acids Res 22:4673-4680
37. Wiens M, Mangoni A, D'Esposito M, Fattorusso E, Korchagina N, Schröder HC, Grebenjuk VA, Krasko A, Batel R, Müller IM, Müller WEG (2003) The molecular basis for the evolution of the metazoan bodyplan: extracellular matrix-mediated morphogenesis in marine Demosponges. J Mol Evol 57:S60-S75
38. Yasuo H, Lemaire P (2001) Role of Goosecoid, Xnot and Wnt antagonists in the maintenance of the notochord genetic programme in Xenopus gastrulae. Development 128:3783-3793