Genomic organization and evolution of actin genes in the amphioxus Branchiostoma belcheri and Branchiostoma floridae

Gene

Volumn 227, Issue 1, 1999, Pages 1-10

  Kusakabe, Rie ^a,b   Satoh, Noriyuki ^b   Holland, Linda Z ^c   Kusakabe, Takehiro ^a  

^a HOKKAIDO UNIVERSITY   (Japan)

^b KYOTO UNIVERSITY   (Japan)

^c UNIVERSITY OF CALIFORNIA   (United States)

Author keywords

3' untranslated region; Chordates; Deuterostomes; Exon intron organization; Gene conversion

Indexed keywords

ACTIN;

ARTICLE; CODON; DNA DETERMINATION; EVOLUTION; GENE CONVERSION; GENE DUPLICATION; GENE STRUCTURE; GENOME; INTRON; NONHUMAN; NUCLEOTIDE SEQUENCE; PRIORITY JOURNAL; SOUTHERN BLOTTING;

3' UNTRANSLATED REGIONS; ACTINS; AMINO ACID SEQUENCE; ANIMALS; BASE SEQUENCE; BLOTTING, SOUTHERN; CHORDATA, NONVERTEBRATE; DNA, COMPLEMENTARY; EXONS; HUMANS; INTRONS; MOLECULAR SEQUENCE DATA; PHYLOGENY;

BRANCHIOSTOMA BELCHERI; BRANCHIOSTOMA FLORIDAE; BRANCHIOSTOMA LANCEOLATUM; CHORDATA; VERTEBRATA;

EID: 0033521851     PISSN: 03781119     EISSN: None     Source Type: Journal    
DOI: 10.1016/S0378-1119(98)00608-8     Document Type: Article

References (43)

1. Araki, I., Tagawa, K., Kusakabe, T., Satoh, N., 1996a. Predominant expression of a cytoskeletal actin gene in mesenchyme cells during embryogenesis of the ascidian Halocynthia roretzi. Dev. Growth Differ. 38, 401-411.
2. Araki, I., Terazawa, K., Satoh, N., 1996b. Duplication of an amphioxus myogenic bHLH gene is independent of vertebrate myogenic bHLH gene duplication. Gene 171, 231-236.
3. Beach, R.L., Jeffery, W.R., 1990. Temporal and spatial expression of a cytoskeletal actin gene in the ascidian Styela clava. Dev. Genet. 11, 2-14.
4. Brooke, N.M., Garcia-Fernàndez, J., Holland, P.W.H., 1998. The Par-aHox gene cluster is an evolutionary sister of the Hox gene cluster. Nature 392, 920-922.
5. Cox, K.H., Angerer, L.M., Lee, J.J., Davidson, E.H., Angerer, R.C., 1986. Cell lineage-specific programs of expression of multiple actin genes during sea urchin embryogenesis. J. Mol. Biol. 188, 159-172.
6. Crain Jr., W.R., Boshar, M.F., Cooper, A.D., Durica, D.S., Nagy, A., Steffen, D., 1987. The sequence of a sea urchin muscle actin gene suggests a gene conversion with a cytoskeletal actin gene. J. Mol. Evol. 25, 37-45.
7. Felsenstein, J., 1985. Confidence limits on phylogenies: an approach using the bootstrap. Evolution 39, 783-791.
8. Garcia-Fernàndez, J., Holland, P.W.H., 1994. Archetypal organization of the amphioxus Hox gene cluster. Nature 370, 563-566.
9. Holland, P.W.H., Holland, L.Z., Williams, N.A., Holland, N.D., 1992. An amphioxus homeobox gene: sequence conservation, spatial expression during development and insights into vertebrate evolution. Development 116, 653-661.
10. Holland, P.W.H., Garcia-Fernàndez, J., Holland, L.Z., Williams, N.A., Sidow, A., 1994. Gene duplications and the origins of vertebrate development. Development (Suppl.) 125-133.
11. Holland, N.D., Holland, L.Z., Kozmik, Z., 1995a. An amphioxus Pax gene, AmphiPax-1, expressed in embryonic endoderm, but not in mesoderm: implications for the evolution of class I paired box genes. Mol. Mar. Biol. Biotech. 4, 206-214.
12. Holland, L.Z., Pace, D.A., Blink, M.L., Kene, M., Holland, N.D., 1995b. Sequence and expression of amphioxus alkali myosin light chain (AmphiMLC-alk) throughout development: implications for vertebrate myogenesis. Dev. Biol. 171, 665-676.
13. Holland, P.W.H., Koschorz, B., Holland, L.Z., Herrmann, B.G., 1995c. Conservation of Brachyury (T) genes in amphioxus and vertebrates: developmental and evolutionary implications. Development 121, 4283-4291.
14. Holland, P.W.H., Garcia-Fernàndez, J., 1996. Hox genes and chordate evolution. Dev. Biol. 173, 382-395.
15. Holland, L.Z., Holland, P.W.H., Holland, N.D., 1996a. Revealing homologies between body parts of distantly related animals by in situ hybridization to developmental genes: Amphioxus versus vertebrates. In: Ferraris, J.D,. Palumbi, S.R. (Eds.), Molecular Zoology: Advances, Strategies, and Protocols. Wiley-Liss, New York, pp. 267-483.
16. Holland, N.D., Panganiban, G., Henyey, E.L., Holland, L.Z., Sequence and developmental expression of AmphiDll, an amphioxus Distal-less gene transcribed in the ectoderm, epidermis and nervous system: insights into evolution of craniate forebrain and neural crest. 1996b. Development 122, 2911-2920.
17. Kimura, M., 1983. The Neutral Theory of Molecular Evolution. Cambridge University Press, Cambridge, p. 75.
18. Kirchhamer, C.V., Davidson, E.H., 1996. Spatial and temporal information processing in the sea urchin embryo: modular and intramodular organization of the CyIIIA gene cis-regulatory system. Development 122, 333-348.
19. Kislauskis, E.H., Zhu, X., Singer, R.H., 1994. Sequences responsible for intracellular localization of ß-actin messenger RNA also affect cell phenotype. J. Cell. Biol. 127, 441-451.
20. Kovilur, S., Jacobson, J.W., Beach, R.L., Jeffery, W.R., Tomlinson, C.R., 1993. Evolution of the chordate muscle actin gene. J. Mol. Evol. 36, 361-368.
21. Kowbel, D.J., Smith, M.J., 1989. The genomic nucleotide sequences of two differentially expressed actin-coding genes from the sea star Pisaster ochraceus. Gene 77, 297-308.
22. Kusakabe, T., Suzuki, J., Saiga, H., Jeffery, W.R., Makabe, K.W., Satoh, N., 1991. Temporal and spatial expression of a muscle actin gene during embryogenesis of the ascidian Holocynthia roretzi. Dev. Growth Differ. 33, 227-234.
23. Kusakabe, T., Makabe, K.W., Satoh, N., 1992. Tunicate muscle actin genes: structure and organization as a gene cluster. J. Mol Biol. 227, 955-960.
24. Kusakabe, T., 1995. Expression of larval-type muscle actin-encoding genes in the ascidian Halocynthia roretzi. Gene 153, 215-218.
25. Kusakabe, T., Hikosaka, A., Satoh, N., 1995. Coexpression and promoter function in two muscle actin gene complexes of different structural organization in the ascidian Halocynthia roretzi. Dev. Biol. 169, 461-472.
26. Kusakabe, T., 1997. Ascidian actin genes: developmental regulation of gene expression and molecular evolution. Zool. Sci. 14, 707-718.
27. Kusakabe, T., Araki, I. Satoh, N., Jeffery, W.R., 1997a. Evolution of chordate actin genes: evidence from genomic organization and amino acid sequences. J. Mol Evol. 44, 289-298.
28. Kusakabe, R., Kusakabe, T., Satoh, N., Holland, N.D., Holland, L.Z., 1997b. Differential gene expression and intracellular mRNA localization of amphioxus actin isoforms throughout development: implications for conserved mechanisms of chordate development. Dev. Genes Evol. 207, 203-215.
29. Lee, J.J., Shott, R.J., Rose, S.J., Thomas, T.L., Britten, R.J., Davidson, E.H., 1984. Sea urchin actin gene subtypes. Gene number, linkage and evolution. J. Mol Biol. 172, 149-176.
30. Miwa, T., Manabe, Y., Kurokawa, K., Kamada, S., Kanda, N., Bruns, G., Ueyama, H., Kakunaga, T., 1991. Structure, chromosome location, and expression of the human smooth muscle (enteric type) gamma-actin gene: evolution of six human actin genes. Mol Cell. Biol. 11, 3296-3306.
31. Pollard, T.D., Cooper, J.A., 1986. Actin and actin-binding proteins. A critical evaluation of mechanisms and functions. Annu. Rev. Biochem. 55, 987-1035.
32. Saitou, N., Nei, M., 1987. The neighbor-joining method: a new method for reconstructing phylogenetic trees. Mol Biol. Evol. 4, 406-425.
33. Sambrook, J., Fritsch, E.F., Maniatis, T., 1989. Molecular Cloning: A Laboratory Manual, 2nd ed. Cold Spring Harbor Laboratory Press, Cold Spring Harbor, NY.
34. Shimeld, S.M., 1997. Characterization of amphioxus HNF-3 genes: conserved expression in the notochord and floorplate. Dev. Biol. 183, 74-85.
35. Terazawa, K., Satoh, N., 1995. Spatial expression of the amphioxus homologue of Brachyury (T) gene during early embryogenesis of Branchiostoma belcheri. Dev. Growth Differ. 37, 395-401.
36. Terazawa, K., Satoh, N., 1997. Formation of the chordamesoderm in the amphioxus embryo - analysis with Brachyury and forkhead/ HNF-3 genes. Dev. Genes Evol. 207, 1-11.
37. Thompson, J.D., Higgins, D.G., Gibson, T.J., 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.
38. Turbeville, J.M., Schulz, J.R., Raff, R.A., 1994. Deuterostome phylogeny and the sister group of the chordates: evidence from molecules and morphology. Mol. Biol. Evol. 11, 648-655.
39. Vandekerckhove, J., Weber, K., 1978. Mammalian cytoplasmic actins are the products of at least two genes and differ in primary structure in at least 25 identified positions from skeletal muscle actins. Proc. Natl. Acad. Sci. USA 75, 1106-1110.
40. Vandekerckhove, J., Weber, K., 1979. The complete amino acid sequence of actins from bovine aorta, bovine heart, bovine fast skeletal muscle and rabbit slow skeletal muscle. Differentiation 14, 123-133.
41. Vandekerckhove, J., Weber, K., 1984. Chordate muscle actins differ distinctly from invertebrate muscle actins: the evolution of the different vertebrate muscle actins. J. Mol. Biol. 179, 391-413.
42. Wada, H., Satoh, N., 1994. Details of the evolutionary history from invertebrates to vertebrates, as deduced from the sequences of 18S rDNA. Proc. Natl. Acad. Sci. USA 91, 1801-1804.
43. Yasui, K., Zhang, S., Uemura, M., Aizawa, S., Ueki, T., 1998. Expression of a twist-related gene, Bbtwist, during the development of a lancelet species and its relation to cephalochordate anterior structures. Dev. Biol. 195, 49-59.