PlasmoDB: the Plasmodium genome resource. A database integrating experimental and computational data. Nucleic Acids Res., 31, 212–215. 22. Altschul,S.F., Madden,T.L., Schaffer,A.A., Zhang,J., Zhang,Z., Miller,W. and Lipman,D.J. (1997) Gapped BLAST and PSI-BLAST: a new generation of protein database search programs. Nucleic Acids Res., 25, 3389–3402. 23. Notredame,C., Higgins,D.G. and Heringa,J. (2000) T-Coffee: A novel method for fast and accurate multiple sequence alignment. J. Mol. Biol., 302, 205–217. 24. Edgar,R.C. (2004) MUSCLE: a multiple sequence alignment method with reduced time and space complexity. BMC Bioinformatics, 5, 113. 25. Claros,M.G. and von Heijne,G. (1994) TopPred II: an improved software for membrane protein structure predictions. Comput. Appl. Biosci., 10, 685–686. 26. Sonnhammer,E.L., von Heijne,G. and Krogh,A. (1998) A hidden Markov model for predicting transmembrane helices in protein sequences. Proc. Int. Conf. Intell. Syst. Mol. Biol., 6, 175–182. 27. Thompson,J.D., Higgins,D.G. and 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. 28. Sam-Yellowe,T.Y., Florens,L., Johnson,J.R., Wang,T., Drazba,J.A., Le Roch,K.G., Zhou,Y., Batalov,S., Carucci,D.J., Winzeler,E.A. et al. (2004) A Plasmodium gene family encoding Maurer’s cleft membrane proteins: structural properties and expression profiling. Genome Res., 14, 1052–1059. 29. Cheng,Q., Cloonan,N., Fischer,K., Thompson,J., Waine,G., Lanzer,M. and Saul,A. (1998) stevor and rif are Plasmodium falciparum multicopy gene families which potentially encode variant antigens. Mol. Biochem. Parasitol., 97, 161–176. 30. Kyes,S.A., Rowe,J.A., Kriek,N. and Newbold,C.I. (1999) Rifins: a second family of clonally variant proteins expressed on the surface of red cells infected with Plasmodium falciparum. Proc. Natl Acad. Sci. USA, 96, 9333–9338. Nucleic Acids Research, 2006, Vol. 34, No. 22 6707 31. Kaviratne,M., Khan,S.M., Jarra,W. and Preiser,P.R. (2002) Small variant STEVOR antigen is uniquely located within Maurer’s clefts in Plasmodium falciparum-infected red blood cells. Eukaryot. Cell, 1, 926–935. 32. Przyborski,J.M., Miller,S.K., Pfahler,J.M., Henrich,P.P., Rohrbach,P., Crabb,B.S. and Lanzer,M. (2005) Trafficking of STEVOR to the Maurer’s clefts in Plasmodium falciparum-infected erythrocytes. EMBO J., 24, 2306–2317. 33. Gardner,M.J., Hall,N., Fung,E., White,O., Berriman,M., Hyman,R.W., Carlton,J.M., Pain,A., Nelson,K.E., Bowman,S. et al. (2002) Genome sequence of the human malaria parasite Plasmodium falciparum. Nature, 419, 498–511. 34. Kraemer,S.M. and Smith,J.D. (2003) Evidence for the importance of genetic structuring to the structural and functional specialization of the Plasmodium falciparum var gene family. Mol. Microbiol., 50, 1527–1538. 35. Kooij,T.W., Carlton,J.M., Bidwell,S.L., Hall,N., Ramesar,J., Janse,C.J. and Waters,A.P. (2005) A Plasmodium whole-genome synteny map: Indels and synteny breakpoints as foci for species-specific genes. PLoS Pathog., 1, e44. 36. Freitas-Junior,L.H., Bottius,E., Pirrit,L.A., Deitsch,K.W., Scheidig,C., Guinet,F., Nehrbass,U., Wellems,T.E. and Scherf,A. (2000) Frequent ectopic recombination of virulence factor genes in telomeric chromosome clusters of P.falciparum. Nature, 407, 1018–1022. 37. Aravind,L., Iyer,L.M., Wellems,T.E. and Miller,L.H. (2003) Plasmodium biology: genomic gleanings. Cell, 115, 771–785. 38. Taylor,H.M., Kyes,S.A. and Newbold,C.I. (2000) Var gene diversity in Plasmodium falciparum is generated by frequent recombination events. Mol. Biochem. Parasitol., 110, 391–397. 39. Su,X., Ferdig,M.T., Huang,Y., Huynh,C.Q., Liu,A., You,J., Wootton,J.C. and Wellems,T.E. (1999) A genetic map and recombination parameters of the human malaria parasite Plasmodium falciparum. Science, 286, 1351–1353.