Characterization of the repertoire diversity of the Plasmodium falciparum stevor multigene family in laboratory and field isolates

Malaria Journal

Volumn 8, Issue 1, 2009, Pages

  Blythe, Jane E ^a,b   Niang, Makhtar ^a   Marsh, Kevin ^c   Holder, Anthony A ^b   Langhorne, Jean ^a,b   Preiser, Peter R ^a  

^a NANYANG TECHNOLOGICAL UNIVERSITY   (Singapore)

^b NATIONAL INSTITUTE FOR MEDICAL RESEARCH   (United Kingdom)

^c KENYA MEDICAL RESEARCH INSTITUTE   (Kenya)

Author keywords

[No Author keywords available]

Indexed keywords

PROTOZOAL DNA; PROTOZOAL RNA; PARASITE ANTIGEN; STEVOR ANTIGEN, PLASMODIUM FALCIPARUM;

ARTICLE; CLONE; CONTROLLED STUDY; DNA SEQUENCE; GENE CLUSTER; GENE IDENTIFICATION; GENETIC ANALYSIS; GENETIC VARIABILITY; GENOME; KENYA; LABORATORY; MULTIGENE FAMILY; NONHUMAN; PARASITE ISOLATION; PHYLOGENY; PLASMODIUM FALCIPARUM; RNA SEQUENCE; SEQUENCE ANALYSIS; ANIMAL; CLUSTER ANALYSIS; GENETIC POLYMORPHISM; GENETIC SELECTION; GENETICS; HUMAN; ISOLATION AND PURIFICATION; MALARIA FALCIPARUM; MOLECULAR EVOLUTION; PARASITOLOGY; SEQUENCE HOMOLOGY;

ANIMALS; ANTIGENS, PROTOZOAN; CLUSTER ANALYSIS; DNA, PROTOZOAN; EVOLUTION, MOLECULAR; HUMANS; KENYA; MALARIA, FALCIPARUM; MULTIGENE FAMILY; PHYLOGENY; PLASMODIUM FALCIPARUM; POLYMORPHISM, GENETIC; RNA, PROTOZOAN; SELECTION (GENETICS); SEQUENCE ANALYSIS, DNA; SEQUENCE HOMOLOGY;

EID: 67949120381     PISSN: None     EISSN: 14752875     Source Type: Journal    
DOI: 10.1186/1475-2875-8-140     Document Type: Article

References (46)

1. The global distribution of clinical episodes of Plasmodium falciparum malaria. RW Snow CA Guerra AM Noor HY Myint SI Hay, Nature. 2005 434 7030 214 217 10.1038/nature03342 15759000 (Pubitemid 40388051)
2. Genome sequence of the human malaria parasite Plasmodium falciparum. MJ Gardner N Hall E Fung O White M Berriman RW Hyman JM Carlton A Pain KE Nelson S Bowman IT Paulsen K James JA Eisen K Rutherford SL Salzberg A Craig S Kyes MS Chan V Nene SJ Shallom B Suh J Peterson S Angiuoli M Pertea J Allen J Selengut D Haft MW Mather AB Vaidya DM Martin AH Fairlamb MJ Fraunholz DS Roos SA Ralph GI McFadden LM Cummings GM Subramanian C Mungall JC Venter DJ Carucci SL Hoffman C Newbold RW Davis CM Fraser B Barrell, Nature 2002 419 498 511 12368864 10.1038/nature01097
3. Rifins: a second family of clonally variant proteins expressed on the surface of red cells infected with Plasmodium falciparum. SA Kyes JA Rowe N Kriek CI Newbold, Proc Natl Acad Sci U S A. 1999 96 16 9333 9338 10.1073/pnas.96.16.9333 10430943 (Pubitemid 29374755)
4. The Plasmodium falciparum STEVOR multigene family mediates antigenic variation of the infected erythrocyte. M Niang X Yan Yam PR Preiser, PLoS Pathog. 2009 5 2 e1000307 10.1371/journal.ppat.1000307 19229319
5. A Plasmodium gene family encoding Maurer's cleft membrane proteins: structural properties and expression profiling. TY Sam-Yellowe L Florens JR Johnson T Wang JA Drazba KG Le Roch Y Zhou S Batalov DJ Carucci EA Winzeler JR Yates 3rd, Genome Res. 2004 14 6 1052 1059 10.1101/gr.2126104 15140830 (Pubitemid 38811541)
6. The chromosomal organization of the Plasmodium falciparum var gene family is conserved. JK Thompson JP Rubio S Caruana A Brockman ME Wickham AF Cowman, Mol Biochem Parasitol. 1997 87 1 49 60 10.1016/S0166-6851(97)00041-8 9233672 (Pubitemid 27293334)
7. Frequent ectopic recombination of virulence factor genes in telomeric chromosome clusters of P. falciparum. LH Freitas-Junior E Bottius LA Pirrit KW Deitsch C Scheidig F Guinet U Nehrbass TE Wellems A Scherf, Nature 2000 407 1018 1022 11069183 10.1038/35039531 (Pubitemid 30828074)
8. Compartmentalization of genes coding for immunodominant antigens to fragile chromosome ends leads to dispersed subtelomeric gene families and rapid gene evolution in Plasmodium falciparum. R Hernandez-Rivas K Hinterberg A Scherf, Mol Biochem Parasitol 1996 78 137 148 8813684 10.1016/S0166-6851(96) 02618-7 (Pubitemid 26201614)
9. Molecular aspects of malaria pathogenesis. N Rasti M Wahlgren Q Chen, FEMS Immunol Med Microbiol 2004 41 9 26 15094163 10.1016/j.femsim.2004.01.010 (Pubitemid 38528718)
10. Cloning the P. falciparum gene encoding PfEMP1, a malarial variant antigen and adherence receptor on the surface of parasitized human erythrocytes. DI Baruch BL Pasloske HB Singh X Bi XC Ma M Feldman TF Taraschi RJ Howard, Cell. 1995 82 1 77 87 10.1016/0092-8674(95)90054-3 7541722
11. Switches in expression of Plasmodium falciparum var genes correlate with changes in antigenic and cytoadherent phenotypes of infected erythrocytes. JD Smith CE Chitnis AG Craig DJ Roberts DE Hudson-Taylor DS Peterson R Pinches CI Newbold LH Miller, Cell 1995 82 101 110 7606775 10.1016/0092-8674(95)90056-X
12. The large diverse gene family var encodes proteins involved in cytoadherence and antigenic variation of Plasmodium falciparum-infected erythrocytes. XZ Su VM Heatwole SP Wertheimer F Guinet JA Herrfeldt DS Peterson JA Ravetch TE Wellems, Cell. 1995 82 1 89 100 10.1016/0092-8674(95)90055-1 7606788
13. Plasmodium falciparum domain mediating adhesion to chondroitin sulfate A: a receptor for human placental infection. PA Buffet B Gamain C Scheidig D Baruch JD Smith R Hernandez-Rivas B Pouvelle S Oishi N Fujii T Fusai D Parzy LH Miller J Gysin A Scherf, Proc Natl Acad Sci USA 1999 96 12743 12748 10535993 10.1073/pnas.96.22.12743 (Pubitemid 29513573)
14. Plasmodium falciparum rosetting mediated by a parasite-variant erythrocyte membrane protein and complement-receptor 1. JA Rowe JM Moulds CI Newbold LH Miller, Nature 1997 388 292 295 9230440 10.1038/40269 (Pubitemid 27283867)
15. Pfam: clans, web tools and services. RD Finn J Mistry B Schuster-Bockler S Griffiths-Jones V Hollich T Lassmann S Moxon M Marshall A Khanna R Durbin SR Eddy EL Sonnhammer A Bateman, Nucleic Acids Res 2006 34 D247 251 16381856 10.1093/nar/gkj149
16. stevor and rif are Plasmodium falciparum multicopy gene families which potentially encode variant antigens. Q Cheng N Cloonan K Fischer J Thompson G Waine M Lanzer A Saul, Mol Biochem Parasitol 1998 97 161 176 9879895 10.1016/S0166-6851(98)00144-3 (Pubitemid 28558710)
17. Chromosome 2 sequence of the human malaria parasite Plasmodium falciparum. MJ Gardner H Tettelin DJ Carucci LM Cummings L Aravind EV Koonin S Shallom T Mason K Yu C Fujii J Pederson K Shen J Jing C Aston Z Lai DC Schwartz M Pertea S Salzberg L Zhou GG Sutton R Clayton O White HO Smith CM Fraser MD Adams JC Venter SL Hoffman, Science 1998 282 1126 1132 9804551 10.1126/science.282.5391.1126
18. Extense variant gene family repertoire overlap in Western Amazon Plasmodium falciparum isolates. L Albrecht EF Merino EH Hoffmann MU Ferreira RG de Mattos Ferreira AL Osakabe RC Dalla Martha M Ramharter AM Durham JE Ferreira HA Del Portillo G Wunderlich, Mol Biochem Parasitol. 2006 150 2 157 165 10.1016/j.molbiopara.2006.07.007 16938359 (Pubitemid 44691940)
19. Hypervariability within the Rifin, Stevor and Pfmc-2TM superfamilies in Plasmodium falciparum. C Lavazec S Sanyal TJ Templeton, Nucleic Acids Res 2006 34 6696 6707 17148488 10.1093/nar/gkl942 (Pubitemid 46017961)
20. Genetic diversity and chloroquine selective sweeps in Plasmodium falciparum. JC Wootton X Feng MT Ferdig RA Cooper J Mu DI Baruch AJ Magill XZ Su, Nature 2002 418 320 323 12124623 10.1038/nature00813 (Pubitemid 34790681)
21. Plasmodium falciparum variant surface antigen expression patterns during malaria. PC Bull M Berriman S Kyes MA Quail N Hall MM Kortok K Marsh CI Newbold, PLoS Pathog 2005 1 e26 16304608 10.1371/journal.ppat.0010026
22. Three multigene families in Plasmodium parasites: facts and questions. O Mercereau-Puijalon JC Barale E Bischoff, Int J Parasitol. 2002 32 11 1323 1344 10.1016/S0020-7519(02)00111-X 12350369 (Pubitemid 35279173)
23. Genomic distribution and functional characterisation of two distinct and conserved Plasmodium falciparum var gene 5' flanking sequences. TS Voss JK Thompson J Waterkeyn I Felger N Weiss AF Cowman HP Beck, Mol Biochem Parasitol 2000 107 103 115 10717306 10.1016/S0166-6851(00)00176-6 (Pubitemid 30136470)
24. Sub-grouping and sub-functionalization of the RIFIN multi-copy protein family. N Joannin S Abhiman EL Sonnhammer M Wahlgren, BMC Genomics 2008 9 19 18197962 10.1186/1471-2164-9-19 (Pubitemid 351315030)
25. Variant proteins of the Plasmodium falciparum RIFIN family show distinct subcellular localization and developmental expression patterns. M Petter M Haeggstrom A Khattab V Fernandez MQ Klinkert M Wahlgren, Mol Biochem Parasitol 2007 156 51 61 17719658 10.1016/j.molbiopara.2007.07.011 (Pubitemid 47348143)
26. A genome-wide map of diversity in Plasmodium falciparum. SK Volkman PC Sabeti D DeCaprio DE Neafsey SF Schaffner DA Milner Jr JP Daily O Sarr D Ndiaye O Ndir S Mboup MT Duraisingh A Lukens A Derr N Stange-Thomann S Waggoner R Onofrio L Ziaugra E Mauceli S Gnerre DB Jaffe J Zainoun RC Wiegand BW Birren DL Hartl JE Galagan ES Lander D Wirth, Nat Genet 2007 39 113 119 17159979 10.1038/ng1930 (Pubitemid 46026510)
27. Genome variation and evolution of the malaria parasite Plasmodium falciparum. DC Jeffares A Pain A Berry AV Cox J Stalker CE Ingle A Thomas MA Quail K Siebenthall AC Uhlemann S Kyes S Krishna C Newbold ET Dermitzakis M Berriman, Nat Genet 2007 39 120 125 17159978 10.1038/ng1931 (Pubitemid 46026511)
28. Low-level Plasmodium falciparum transmission and the incidence of severe malaria infections on the Kenyan coast. CN Mbogo RW Snow EW Kabiru JH Ouma JI Githure K Marsh JC Beier, Am J Trop Med Hyg 1993 49 245 253 8357087
29. Human malaria parasites in continuous culture. W Trager JB Jensen, Science 1976 193 673 675 781840 10.1126/science.781840
30. Extraction and purification of Plasmodium parasite DNA. HP Beck, Methods Mol Med 2002 72 159 163 12125113
31. A simple RNA analysis method shows var and rif multigene family expression patterns in Plasmodium falciparum. S Kyes R Pinches C Newbold, Mol Biochem Parasitol 2000 105 311 315 10693754 10.1016/S0166-6851(99)00193-0 (Pubitemid 30067771)
32. Small variant STEVOR antigen is uniquely located within Maurer's clefts in Plasmodium falciparum-infected red blood cells. M Kaviratne SM Khan W Jarra PR Preiser, Eukaryot Cell 2002 1 926 935 12477793 10.1128/EC.1.6.926-935.2002 (Pubitemid 36557713)
33. DB Plamsmo, http://www.plasmodb.org
34. CLUSTAL: a package for performing multiple sequence alignment on a microcomputer. DG Higgins PM Sharp, Gene 1988 73 237 244 3243435 10.1016/0378-1119(88)90330-7 (Pubitemid 19033800)
35. MEGA3: Integrated software for Molecular Evolutionary Genetics Analysis and sequence alignment. S Kumar K Tamura M Nei, Brief Bioinform 2004 5 150 163 15260895 10.1093/bib/5.2.150
36. PAUP*: Phylogenetic Analysis Using Parsimony (and other methods) 4.0 Beta. DL Swofford, Sunderland, MA: Sinauer Associates 2003 18428704
37. TreeView: an application to display phylogenetic trees on personal computers. RD Page, Comput Appl Biosci 1996 12 357 358 8902363
38. Phylogenies from molecular sequences: inference and reliability. J Felsenstein, Annu Rev Genet 1988 22 521 565 3071258 10.1146/annurev.ge.22. 120188.002513
39. Plasmodium falciparum STEVOR proteins are highly expressed in patient isolates and located in the surface membranes of infected red blood cells and the apical tips of merozoites. JE Blythe XY Yam C Kuss Z Bozdech AA Holder K Marsh J Langhorne PR Preiser, Infect Immun 2008 76 3329 3336 18474651 10.1128/IAI.01460-07
40. Genetic analysis of the human malaria parasite Plasmodium falciparum. D Walliker IA Quakyi TE Wellems TF McCutchan A Szarfman WT London LM Corcoran TR Burkot R Carter, Science 1987 236 1661 1666 3299700 10.1126/science.3299700
41. Comparative genomics of the neglected human malaria parasite Plasmodium vivax. JM Carlton JH Adams JC Silva SL Bidwell H Lorenzi E Caler J Crabtree SV Angiuoli EF Merino P Amedeo Q Cheng RM Coulson BS Crabb HA Del Portillo K Essien TV Feldblyum C Fernandez-Becerra PR Gilson AH Gueye X Guo S Kang'a TW Kooij M Korsinczky EV Meyer V Nene I Paulsen O White SA Ralph Q Ren TJ Sargeant SL Salzberg CJ Stoeckert SA Sullivan MM Yamamoto SL Hoffman JR Wortman MJ Gardner MR Galinski JW Barnwell CM Fraser-Liggett, Nature 2008 455 757 763 18843361 10.1038/nature07327
42. Rapid changes in transcription profiles of the Plasmodium yoelii yir multigene family in clonal populations: lack of epigenetic memory? D Cunningham J Fonager W Jarra C Carret P Preiser J Langhorne, PLoS ONE 2009 4 e4285 19173007 10.1371/journal.pone.0004285
43. Host switch leads to emergence of Plasmodium vivax malaria in humans. J Mu DA Joy J Duan Y Huang J Carlton J Walker J Barnwell P Beerli MA Charleston OG Pybus XZ Su, Mol Biol Evol 2005 22 1686 1693 15858201 10.1093/molbev/msi160 (Pubitemid 41373579)
44. Global genetic diversity and evolution of var genes associated with placental and severe childhood malaria. AR Trimnell SM Kraemer S Mukherjee DJ Phippard JH Janes E Flamoe XZ Su P Awadalla JD Smith, Mol Biochem Parasitol 2006 148 169 180 16697476 10.1016/j.molbiopara.2006.03.012 (Pubitemid 43946513)
45. In vivo transcriptome of Plasmodium falciparum reveals overexpression of transcripts that encode surface proteins. JP Daily KG Le Roch O Sarr D Ndiaye A Lukens Y Zhou O Ndir S Mboup A Sultan EA Winzeler DF Wirth, J Infect Dis 2005 191 1196 1203 15747257 10.1086/428289 (Pubitemid 40404380)
46. Diverse expression patterns of subgroups of the rif multigene family during Plasmodium falciparum gametocytogenesis. M Petter I Bonow MQ Klinkert, PLoS ONE 2008 3 e3779 19020666 10.1371/journal.pone.0003779