Structure, genomic organization, and phylogenetic implications of six new VH families in the channel catfish

Molecular Immunology

Volumn 40, Issue 5, 2003, Pages 247-260

  Yang, Feixue ^a   Ventura Holman, Tereza ^a   Waldbieser, Geoffrey C ^b   Lobb, Craig J ^a  

^a UNIVERSITY OF MISSISSIPPI SCHOOL OF MEDICINE   (United States)

^b AGRICULTURAL RESEARCH SERVICE   (United States)

Author keywords

Evolution; Gene rearrangement; Immunoglobulin heavy chain variable region; Multigene family

Indexed keywords

COMPLEMENTARY DNA; IMMUNOGLOBULIN HEAVY CHAIN;

3' UNTRANSLATED REGION; 5' UNTRANSLATED REGION; ARTICLE; CHANNEL CATFISH; DNA LIBRARY; GENE LIBRARY; GENE SEQUENCE; GENE STRUCTURE; GENETIC ORGANIZATION; GENETIC SCREENING; GENETIC VARIABILITY; GENOME; GERM LINE; MULTIGENE FAMILY; NONHUMAN; NUCLEOTIDE SEQUENCE; PHYLOGENY; PSEUDOGENE; SOUTHERN BLOTTING; VERTEBRATE;

CATFISH; ICTALURUS PUNCTATUS; OSTEICHTHYES; VERTEBRATA;

EID: 0041926465     PISSN: 01615890     EISSN: None     Source Type: Journal    
DOI: 10.1016/S0161-5890(03)00143-3     Document Type: Article

References (34)

1. Bengten E., Quiniou M.-A., Stuge T.B., Katagiri T., Miller N.W., Clem L.W., Warr G.W., Wilson M. The IgH locus of the channel catfish, Ictalurus punctatus, contains multiple constant region gene sequences: different genes encode heavy chains of membrane and secreted IgD. J. Immunol. 169:2002;2488-2497.
2. H gene family clusters. J. Exp. Med. 168:1988;2261-2278.
3. Colbert, E.H., 1969. Evolution of the Vertebrates: A History of the Backboned Animals Through Time. Wiley, New York, pp. 10-63.
4. HH domains in complex with porcine pancreatic α-amylase. Inhibition and versatility of binding topology. J. Biol. Chem. 277:2002;23645-23650.
5. Ghaffari S.H., Lobb C.J. Cloning and sequence analysis of channel catfish heavy chain cDNA indicate phylogenetic diversity within the IgM immunoglobulin family. J. Immunol. 142:1989;1356-1365.
6. Ghaffari S.H., Lobb C.J. Nucleotide sequence of channel catfish heavy chain cDNA and genomic blot analyses. Implications for the phylogeny of Ig heavy chains. J. Immunol. 143:1989;2730-2739.
7. Ghaffari S.H., Lobb C.J. Heavy chain variable region gene families evolved early in phylogeny: Ig complexity in fish. J. Immunol. 146:1991;1037-1046.
8. Ghaffari S.H., Lobb C.J. Organization of immunoglobulin heavy chain constant and joining region genes in the channel catfish. Mol. Immunol. 29:1992;151-159.
9. Ghaffari S.H., Lobb C.J. Structure and genomic organization of a second cluster of immunoglobulin heavy chain gene segments in the channel catfish. J. Immunol. 162:1999;1519-1529.
10. Hassanin A., Golub R., Lewis S.M., Wu G.E. Evolution of the recombination signal sequences in the Ig heavy-chain variable region locus of mammals. Proc. Natl. Acad. Sci. U.S.A. 97:2000;11415-11420.
11. Hayman J.R., Lobb C.J. Heavy chain diversity region segments of the channel catfish: structure, organization, expression, and phylogenetic implications. J. Immunol. 164:2000;1916-1924.
12. Hayman J.R., Ghaffari S.H., Lobb C.J. Heavy chain joining region segments of the channel catfish. Genomic organization and phylogenetic implications. J. Immunol. 151:1993;3587-3596.
13. Henderson A., Calame K. Transcriptional regulation during B cell development. Annu. Rev. Immunol. 16:1998;163-200.
14. Johansson J., Aveskogh M., Munday B., Hellman L. Heavy chain V region diversity in the duck-billed platypus (Ornithorhynchus anatinus): long and highly variable complementarity-determining region 3 compensates for limited germline diversity. J. Immunol. 168:2002;5155-5162.
15. Kabat, E.A., Wu, T.T., Perry, H.M., Gottesman, K.S., Foeller, C., 1991. Sequences of Proteins of Immunological Interest. National Institutes of Health, Bethesda, MD.
16. Kirkham P.M., Mortari F., Newton J.A., Schroeder H.W. Jr. Immunoglobulin VH clan and family identity predicts variable domain structure and may influence antigen binding. EMBO J. 11:1992;603-609.
17. Kumar S., Tamura K., Jakobsen I.B., Nei M. MEGA2: molecular evolutionary genetics analysis software. Bioinformatics. 17:2001;1244-1245.
18. Lobb C.J. Covalent structure and affinity of channel catfish anti-dinitrophenyl antibodies. Mol. Immunol. 22:1985;993-999.
19. Matsuda F., Ishii K., Bourvagnet P., Kuma K., Hayashida H., Miyata T., Honjo T. The complete nucleotide sequence of the human immunoglobulin heavy chain variable region locus. J. Exp. Med. 188:1998;2151-2162.
20. Max, E.E., 1999. Immunoglobulins: molecular genetics. In: Paul, W.E. (Ed.), Fundamental Immunology. Lippincott-Raven, Philadelphia, pp. 111-182.
21. Nagawa F., Kodama M., Nishihara T., Ishiguro K., Sakano H. Footprint analysis of recombination signal sequences in the 12/23 synaptic complex of V-D-J recombination. Mol. Cell. Biol. 22:2002;7217-7225.
22. Nadel B., Tang A., Escuro G., Lugo G., Feeney A.J. Sequence of the spacer in the recombination signal sequence affects V-D-J rearrangement frequency and correlates with nonrandom Vκ usage in vivo. J. Exp. Med. 187:1998;1495-1503.
23. Nei, M., Kumar, S., 2000. Molecular Evolution and Phylogenetics. Oxford University Press, Oxford, pp. 87-113.
24. Ota T., Nei M. Divergent evolution and evolution by the birth-and-death process in the immunoglobulin VH gene family. Mol. Biol. E. 11:1994;469-482.
25. Ramsland P.A., Kaushik A., Marchalonis J.J., Edmundson A.B. Incorporation of long CDR3s into V domains: implication for the structural evolution of the antibody-combining site. Exp. Clin. Immunogenet. 18:2001;176-198.
26. Roman T., Andersson E., Bengten E., Hansen J., Kaattari S., Pilstrom L., Charlemagne J., Matsunaga T. Unified nomenclature of Ig VH genes in rainbow trout (Oncorhynchus mykiss): definition of eleven VH families. Immunogenetics. 43:1996;325-326.
27. Roux K.H., Greenberg A.S., Greene L., Strelets L., Avila D., McKinney E.C., Flajnik M.F. Structural analysis of the nurse shark (new) antigen receptor (NAR): molecular convergence of NAR and unusual mammalian immunoglobulins. Proc. Natl. Acad. Sci. U.S.A. 95:1998;11804-11809.
28. Rzhetsky A., Nei M. Statistical properties of the ordinary least-squares, generalized least-squares, and minimum-evolution methods of phylogenetic inference. J. Mol. E. 4:1992;367-375.
29. Saini S.S., Allore B., Jacobs R.M., Kaushik A. Exceptionally long CDR3H region with multiple cysteine residues in functional bovine IgM antibodies. Eur. J. Immunol. 29:1999;2420-2426.
30. Ventura-Holman T., Lobb C.J. Structural organization of the immunoglobulin heavy chain locus in the channel catfish: the IgH locus represents a composite of two gene clusters. Mol. Immunol. 38:2002;557-564.
31. Ventura-Holman T., Jones J.C., Ghaffari S.H., Lobb C.J. Structure and genomic organization of VH gene segments in the channel catfish: members of different VH gene families are interspersed and closely linked. Mol. Immunol. 31:1994;823-832.
32. Ventura-Holman T., Ghaffari S.H., Lobb C.J. Characterization of a seventh family of immunoglobulin heavy chain VH gene segments in the channel catfish, Ictalurus punctatus. Eur. J. Immunogenet. 23:1996;7-14.
33. Warr G.W., Middleton D.L., Miller N.W., Clem L.W., Wilson M.R. An additional family of VH sequences in the channel catfish. Eur. J. Immunogenet. 18:1991;393-397.
34. Yu K., Taghva A., Lieber M.R. The cleavage efficiency of the human immunoglobulin heavy chain VH elements by the RAG complex. J. Biol. Chem. 277:2002;5040-5046.