Genomic and functional characterization of the diverse immunoglobulin domain-containing protein (DICP) family

Genomics

Volumn 99, Issue 5, 2012, Pages 282-291

  Haire, Robert N ^a   Cannon, John P ^a   O'Driscoll, Marci L ^b   Ostrov, David A ^c   Mueller, M Gail ^a,b   Turner, Poem M ^d   Litman, Ronda T ^a   Litman, Gary W ^a,b,e   Yoder, Jeffrey A ^d  

^a UNIVERSITY OF SOUTH FLORIDA   (United States)

^b JOHNS HOPKINS ALL CHILDREN S HOSPITAL   (United States)

^c UNIVERSITY OF FLORIDA COLLEGE OF MEDICINE   (United States)

^d NORTH CAROLINA STATE UNIVERSITY   (United States)

^e H LEE MOFFITT CANCER CENTER AND RESEARCH INSTITUTE   (United States)

Author keywords

Innate immunity; Lipid binding; Zebrafish

Indexed keywords

DIVERSE IMMUNOGLOBULIN DOMAIN CONTAINING PROTEIN; FISH PROTEIN; RNA; UNCLASSIFIED DRUG;

AMINO TERMINAL SEQUENCE; ARTICLE; CARBOXY TERMINAL SEQUENCE; CHICKEN; CHROMOSOMAL LOCALIZATION; CONTROLLED STUDY; DNA SEQUENCE; GENE LOCUS; GENETIC CODE; GENOMICS; MOLECULAR MODEL; MOLECULAR RECOGNITION; NONHUMAN; NUCLEOTIDE SEQUENCE; PRIORITY JOURNAL; PROTEIN DOMAIN; PROTEIN FUNCTION; PROTEIN LIPID INTERACTION; PROTEIN MOTIF; RNA PROCESSING; SPECIES DIFFERENCE; ZEBRA FISH;

ALTERNATIVE SPLICING; AMINO ACID SEQUENCE; ANIMALS; BINDING SITES; CHROMOSOME MAPPING; CLONING, MOLECULAR; DNA, COMPLEMENTARY; GENETIC VARIATION; GENOMICS; IMMUNOGLOBULINS; MODELS, MOLECULAR; MOLECULAR SEQUENCE DATA; MULTIGENE FAMILY; PHOSPHOLIPIDS; PHYLOGENY; PROTEIN BINDING; PROTEIN ISOFORMS; PROTEIN STRUCTURE, TERTIARY; RECEPTORS, IMMUNOLOGIC; SEQUENCE ANALYSIS, DNA; SEQUENCE HOMOLOGY, AMINO ACID; ZEBRAFISH; ZEBRAFISH PROTEINS;

DANIO RERIO; MAMMALIA; VERTEBRATA;

EID: 84860667981     PISSN: 08887543     EISSN: 10898646     Source Type: Journal    
DOI: 10.1016/j.ygeno.2012.02.004     Document Type: Article

References (37)

1. Litman G.W., Cooper M.D. Commentary: why study the evolution of immunity?. Nat. Immunol. 2007, 8:547-548.
2. Du P.L., Zucchetti I., De S.R. Immunoglobulin superfamily receptors in protochordates: before RAG time. Immunol. Rev. 2004, 198:233-248.
3. Yoder J.A., Litman G.W. The phylogenetic origins of natural killer receptors and recognition: relationships, possibilities, and realities. Immunogenetics 2011, 63:123-141.
4. Yoder J.A. Form, function and phylogenetics of NITRs in bony fish. Dev. Comp. Immunol. 2009, 33:135-144.
5. Litman G.W., Hawke N.A., Yoder J.A. Novel immune-type receptor genes. Immunol. Rev. 2001, 181:250-259.
6. Cannon J.P., Haire R.N., Magis A.T., Eason D.D., Winfrey K.N., Hernandez Prada J.A., Bailey K.M., Jakoncic J., Litman G.W., Ostrov D.A. A bony fish immunological receptor of the NITR multigene family mediates allogeneic recognition. Immunity 2008, 29:228-237.
7. Cannon J.P., Haire R.N., Litman G.W. Identification of diversified genes that contain immunoglobulin-like variable regions in a protochordate. Nat. Immunol. 2002, 3:1200-1207.
8. Cannon J.P., Haire R.N., Mueller M.G., Litman R.T., Eason D.D., Tinnemore D., Amemiya C.T., Ota T., Litman G.W. Ancient divergence of a complex family of immune-type receptor genes. Immunogenetics 2006, 58:362-373.
9. Cannon J.P., O'Driscoll M.L., Litman G.W. Specific lipid recognition is a general feature of CD300 and TREM molecules. Immunogenetics 2012, 64:39-47.
10. Choi S.C., Simhadri V.R., Tian L., Gil-Krzewska A., Krzewski K., Borrego F., Coligan J.E. Cutting edge: mouse CD300f (CMRF-35-like molecule-1) recognizes outer membrane-exposed phosphatidylserine and can promote phagocytosis. J. Immunol. 2011, 187:3483-3487.
11. Larkin M.A., Blackshields G., Brown N.P., Chenna R., McGettigan P.A., McWilliam H., Valentin F., Wallace I.M., Wilm A., Lopez R., Thompson J.D., Gibson T.J., Higgins D.G. Clustal W and Clustal X version 2.0. Bioinformatics 2007, 23:2947-2948.
12. Tamura K., Peterson D., Peterson N., Stecher G., Nei M., Kumar S. MEGA5: Molecular Evolutionary Genetics Analysis using maximum likelihood, evolutionary distance, and maximum parsimony methods. Mol. Biol. Evol. 2011, 28:2731-2739.
13. Letunic I., Doerks T., Bork P. SMART 6: recent updates and new developments. Nucleic Acids Res. 2009, 37:D229-D232.
14. Schwede T., Kopp J., Guex N., Peitsch M.C. SWISS-MODEL: an automated protein homology-modeling server. Nucleic Acids Res. 2003, 31:3381-3385.
15. Lo C.L., Brenner S.E., Hubbard T.J., Chothia C., Murzin A.G. SCOP database in 2002: refinements accommodate structural genomics. Nucleic Acids Res. 2002, 30:264-267.
16. Cannon J.P., O'Driscoll M.L., Litman G.W. Construction, expression and purification of chimeric protein reagents based on immunoglobulin Fc regions. Methods Mol. Biol. 2011, 748:51-67.
17. Barclay A.N. Membrane proteins with immunoglobulin-like domains-a master superfamily of interaction molecules. Semin. Immunol. 2003, 15:215-223.
18. Barrow A.D., Trowsdale J. You say ITAM and I say ITIM, let's call the whole thing off: the ambiguity of immunoreceptor signalling. Eur. J. Immunol. 2006, 36:1646-1653.
19. Daeron M., Jaeger S., Du P.L., Vivier E. Immunoreceptor tyrosine-based inhibition motifs: a quest in the past and future. Immunol. Rev. 2008, 224:11-43.
20. Fujimoto M., Takatsu H., Ohno H. CMRF-35-like molecule-5 constitutes novel paired receptors, with CMRF-35-like molecule-1, to transduce activation signal upon association with FcRgamma. Int. Immunol. 2006, 18:1499-1508.
21. Nakano T., Tahara-Hanaoka S., Nakahashi C., Can I., Totsuka N., Honda S., Shibuya K., Shibuya A. Activation of neutrophils by a novel triggering immunoglobulin-like receptor MAIR-IV. Mol. Immunol. 2008, 45:289-294.
22. Clark G.J., Ju X., Tate C., Hart D.N. The CD300 family of molecules are evolutionarily significant regulators of leukocyte functions. Trends Immunol. 2009, 30:209-217.
23. Yoder J.A., Orcutt T.M., Traver D., Litman G.W. Structural characteristics of zebrafish orthologs of adaptor molecules that associate with transmembrane immune receptors. Gene 2007, 401:154-164.
24. Yoder J.A., Mueller M.G., Wei S., Corliss B.C., Prather D.M., Willis T., Litman R.T., Djeu J.Y., Litman G.W. Immune-type receptor genes in zebrafish share genetic and functional properties with genes encoded by the mammalian lymphocyte receptor cluster. Proc. Natl. Acad. Sci. U.S.A. 2001, 98:6771-6776.
25. Anderson T.A., Levitt D.G., Banaszak L.J. The structural basis of lipid interactions in lipovitellin, a soluble lipoprotein. Structure 1998, 6:895-909.
26. Hasper A., Soteropoulos P., Perlin D.S. Modification of the N-terminal polyserine cluster alters stability of the plasma membrane H(+)-ATPase from Saccharomyces cerevisiae. Biochim. Biophys. Acta 1999, 1420:214-222.
27. Howard M.B., Ekborg N.A., Taylor L.E., Hutcheson S.W., Weiner R.M. Identification and analysis of polyserine linker domains in prokaryotic proteins with emphasis on the marine bacterium Microbulbifer degradans. Protein Sci. 2004, 13:1422-1425.
28. Smolenaars M.M., Madsen O., Rodenburg K.W., Van der Horst D.J. Molecular diversity and evolution of the large lipid transfer protein superfamily. J. Lipid Res. 2007, 48:489-502.
29. Bates P.A., DeLuca N.A. The polyserine tract of herpes simplex virus ICP4 is required for normal viral gene expression and growth in murine trigeminal ganglia. J. Virol. 1998, 72:7115-7124.
30. Cevallos A.M., Zhang X., Waldor M.K., Jaison S., Zhou X., Tzipori S., Neutra M.R., Ward H.D. Molecular cloning and expression of a gene encoding Cryptosporidium parvum glycoproteins gp40 and gp15. Infect. Immun. 2000, 68:4108-4116.
31. Cevallos A.M., Bhat N., Verdon R., Hamer D.H., Stein B., Tzipori S., Pereira M.E., Keusch G.T., Ward H.D. Mediation of Cryptosporidium parvum infection in vitro by mucin-like glycoproteins defined by a neutralizing monoclonal antibody. Infect. Immun. 2000, 68:5167-5175.
32. Strong W.B., Gut J., Nelson R.G. Cloning and sequence analysis of a highly polymorphic Cryptosporidium parvum gene encoding a 60-kilodalton glycoprotein and characterization of its 15- and 45-kilodalton zoite surface antigen products. Infect. Immun. 2000, 68:4117-4134.
33. Williams A.F., Barclay A.N. The immunoglobulin superfamily-domains for cell surface recognition. Annu. Rev. Immunol. 1988, 6:381-405.
34. Harpaz Y., Chothia C. Many of the immunoglobulin superfamily domains in cell adhesion molecules and surface receptors belong to a new structural set which is close to that containing variable domains. J. Mol. Biol. 1994, 238:528-539.
35. Zdobnov E.M., Apweiler R. InterProScan-an integration platform for the signature-recognition methods in InterPro. Bioinformatics 2001, 17:847-848.
36. Davis R.S. Fc receptor-like molecules. Annu. Rev. Immunol. 2007, 25:525-560.
37. Giudicelli V., Duroux P., Ginestoux C., Folch G., Jabado-Michaloud J., Chaume D., Lefranc M.P. IMGT/LIGM-DB, the IMGT comprehensive database of immunoglobulin and T cell receptor nucleotide sequences. Nucleic Acids Res. 2006, 34:D781-D784.