Extensive intra-host genetic diversity uncovered in Cryptosporidium parvum using Next Generation Sequencing

Infection, Genetics and Evolution

Volumn 15, Issue , 2013, Pages 18-24

  Grinberg, A ^a   Biggs, P J ^a   Dukkipati, V S R ^a   George, T T ^a  

^a MASSEY UNIVERSITY   (New Zealand)

Author keywords

Cryptosporidium; Gp60; Next Generation Sequencing; PCR

Indexed keywords

HEAT SHOCK PROTEIN 70;

AMPLICON; ARTICLE; CONTROLLED STUDY; CRYPTOSPORIDIUM PARVUM; GENE; GENE FUNCTION; GENE IDENTIFICATION; GENETIC PROCEDURES; GENETIC VARIABILITY; GLYCOPROTEIN 60 GENE; HEAT SHOCK PROTEIN 70 GENE; MOLECULAR CLONING; NEXT GENERATION SEQUENCING; NONHUMAN; PARASITE IDENTIFICATION; PARASITE ISOLATION; POLYMERASE CHAIN REACTION; POPULATION GENETIC STRUCTURE; PRIORITY JOURNAL; SINGLE NUCLEOTIDE POLYMORPHISM; SPOROZOITE;

CRYPTOSPORIDIUM; CRYPTOSPORIDIUM PARVUM;

EID: 84878140803     PISSN: 15671348     EISSN: 15677257     Source Type: Journal    
DOI: 10.1016/j.meegid.2012.08.017     Document Type: Article

References (31)

1. Alizon S., van Baalen M. Acute or chronic? Within-host models with immune dynamics, infection outcome, and parasite evolution. The American Naturalist 2008, 172:E244-E256.
2. Bacon A.L., Farrington S.M., Dunlop M.G. Sequence interruptions confer differential stability at microsatellite alleles in mismatch repair-deficient cells. Human Molecular Genetics 2000, 9:2707-2713.
3. Caccio S.M., Thompson R.C.A., McLauchlin J., Smith H.V. Unravelling Cryptosporidium and Giardia epidemiology. Trends in Parasitology 2005, 21:430-437.
4. 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. Infection and Immunity 2000, 68:4108-4116.
5. Domingo E., Baranowski E., Ruiz-Jarabo C.M., Martin-Hernandez A.M., Saiz J.C., et al. Quasispecies structure and persistence of RNA viruses. Emerging Infectious Diseases 1998, 4:521-527.
6. Domingo E., Martin V., Perales C., Grande-Perez A., Garcia-Arriaza J., et al. Viruses as quasispecies: biological implications. Current Topics in Microbiology and Immunology 2006, 299:51-82.
7. Fayer R. Biology. Cryptosporidium and Cryptosporidiosis 2008, 1-42. CRC Press and IWA Publishing, Boca Raton, FL. Second ed. R. Fayer, L. Xiao (Eds.).
8. Grinberg A., Learmonth J., Kwan E., Pomroy W.E., Lopez Villalobos N., Gibson I., Widmer G. Genetic diversity and zoonotic potential of Cryptosporidium parvum causing foal diarrhea. Journal of Clinical Microbiology 2008, 46:2396-2398.
9. Grinberg A., Markovics A., Galindez J., Lopez-Villalobos N., Kosak A., Tranquillo V.M. Controlling the onset of natural cryptosporidiosis in calves with paromomycin sulphate. Veterinary Record 2002, 151:606-608.
10. Grinberg A., Pomroy W.E., Squires R.A., Scuffham A., Pita A., Kwan E. Retrospective cohort study of an outbreak of cryptosporidiosis caused by a rare Cryptosporidium parvum subgenotype. Epidemiology and Infection 2011, 139:1542-1550.
11. Khramtsov N., Tilley N., Blunt D.N., Montelone B.A., Upton S.J. Cloning and analysis of a Cryptosporidium parvum gene encoding a protein with homology to cytoplasmic form Hsp70. Journal of Eukariotic Microbiology 1995, 42:416-422.
12. Klintschar M., Wiegand P. Polymerase slippage in relation to the uniformity of tetrameric repeat stretches. Forensic Science International 2003, 135:163-166.
13. Kyes S.A., Kraemer S.M., Smith J.D. Antigenic variation in Plasmodium falciparum: gene organization and regulation of the var multigene family. Eukaryotic Cell 2007, 6:1511-1520.
14. Leoni F., Mallon M.E., Smith H.V., Tait A., McLauchlin J. Multilocus analysis of Cryptosporidium hominis and Cryptosporidium parvum isolates from sporadic and outbreak-related human cases and C. parvum isolates from sporadic livestock cases in the United Kingdom. Journal of Clinical Microbiology 2007, 45:3286-3294.
15. Li H., Durbin R. Fast and accurate short read alignment with burrows-wheeler transform. Bioinformatics 2009, 25:1754-1760.
16. Mallon M.A., MacLeod J., Wastling H., Smith H., Reilly B., Tait A. Population structures and the role of genetic exchange in the zoonotic pathogen Cryptosporidium parvum. Molecular Genetics and Evolution 2003, 56:407-417.
17. McMichael A.J., Phillips R.E. Escape of human immunodeficiency virus from immune control. Annual Review of Immunology 1997, 15:271-296.
18. Nowak M.A., May R.M., Anderson R.M. The evolutionary dynamics of HIV-1 quasispecies and the development of immunodeficiency disease. AIDS 1990, 4:1095-1103.
19. Pangasa A., Jex A.R., Nolan M.J., Campbell B.E., Haydon S.R., Stevens M.A., Gasser R.B. Highly sensitive non-isotopic restriction endonuclease fingerprinting of nucleotide variability in the gp60 gene within Cryptosporidium species, genotypes and subgenotypes infective to humans, and its implications. Electrophoresis 2010, 31:1637-1647.
20. Petes T.D., Greenwell P.W., Dominska M. Stabilization of microsatellite sequences by variant repeats in the yeast Saccharomyces cerevisiae. Genetics 1997, 146:491-498.
21. Rochelle P.A., De Leon R., Atwill E.R. Intra-isolate heterogeneity and reproducibility of PCR-based genotyping of Cryptosporidium parvum using the - tubulin gene. Quantitative Microbiology 2000, 2:87-101.
22. Rolfsmeier M.L., Lahue R.S. Stabilizing effects of interruptions on trinucleotide repeat expansions in Saccharomyces cerevisiae. Molecular and Cellular Biology 2000, 20:173-180.
23. 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. Infection and Immunity 2000, 68:4117-4134.
24. Sulaiman I.M., Hira P.R., Zhou L., Al-Ali F.M., Al-Shelahi F.A., Shweiki H.M., Iqbal J., Khalid N., Xiao L. Unique endemicity of cryptosporidiosis in children in Kuwait. Journal of Clinical Microbiology 2005, 43:2805-2809.
25. Tanri{dotless}verdi S., Grinberg A., Chalmers R.M., Hunter P.R., Petrovic Z., Akiyoshi D.E., London E., Zhang L., Tzipori S., Tumwine J.K., Widmer G. Inferences about the global population structure of Cryptosporidium parvum and Cryptosporidium hominis. Applied and Environmental Microbiology 2008, 27:7227-7234.
26. Waldron L.S., Power M.L. Fluorescence analysis detects gp60 subtype diversity in Cryptosporidium infections. Infection Genetics and Evolution 2011, 11:1388-1395.
27. Walsh S., Fildes N.J., Reynolds R. Sequence analysis and characterisation of stutter products at the tetranucleotide repeat locus vVWA. Nucleic Acids Research 1996, 24:2807-2812.
28. Widmer G., Lee Y. Comparison of single- and multilocus genetic diversity in the protozoan parasites Cryptosporidium parvum and C. hominis. Applied and Environmental Microbiology 2010, 76:6639-6644.
29. Widmer G., Tchack L., Chappell C.L., Tzipori S. Sequence polymorphism in the beta-tubulin gene reveals heterogeneous and variable population structures in Cryptosporidium parvum. Applied and Environmental Microbiology 1998, 64:4477-4481.
30. Widmer, G., Lee, Y., Hunt, P., Martinelli, A., Tolkoff, M., Bodie, K., 2012. Comparative genome analysis of two Cryptosporidium parvum isolates with different host range. Infection, Genetics and Evolution 12 (6), 1213-1221.
31. Zintl A., Ezzaty-Mirashemi M., Chalmers R., Elwin K., Mulcahy G., Lucy F.E., de Waal T. Longitudinal and spatial distribution of GP60 subtypes in human cryptosporidiosis cases in Ireland. Epidemiology and Infection 2011, 139:1945-1955.