A phylogenomic inventory of meiotic genes: Evidence for sex in Giardia and an early eukaryotic origin of meiosis

Current Biology

Volumn 15, Issue 2, 2005, Pages 185-191

  Ramesh, Marilee A ^b   Malik, Shehre Banoo ^a   Logsdon Jr , John M ^a  

^a UNIVERSITY OF IOWA   (United States)

^b ROANOKE COLLEGE   (United States)

Author keywords

[No Author keywords available]

Indexed keywords

PRIMER DNA;

ANIMAL; ARTICLE; BAYES THEOREM; BIOLOGICAL MODEL; BIOLOGY; COMPARATIVE STUDY; DNA SEQUENCE; GENE; GENETICS; GENOME; GIARDIA LAMBLIA; MEIOSIS; MOLECULAR GENETICS; NUCLEOTIDE SEQUENCE; PHYLOGENY; SEX;

ANIMALS; BASE SEQUENCE; BAYES THEOREM; COMPUTATIONAL BIOLOGY; DNA PRIMERS; GENES, CDC; GENOME, PROTOZOAN; GIARDIA LAMBLIA; MEIOSIS; MODELS, GENETIC; MOLECULAR SEQUENCE DATA; PHYLOGENY; SEQUENCE ANALYSIS, DNA; SEX;

ANIMALIA; DIPLOMONADIDA; EUKARYOTA; FUNGI; GIARDIA; GIARDIA INTESTINALIS; PROTISTA; PROTOZOA;

EID: 12544259704     PISSN: 09609822     EISSN: None     Source Type: Journal    
DOI: 10.1016/j.cub.2005.01.003     Document Type: Article

References (53)

1. Kleckner N. Meiosis. How could it work? Proc. Natl. Acad. Sci. USA. 93:1996;8167-8174
2. Villeneuve A.M., Hillers K.J. Whence meiosis? Cell. 106:2001;647-650
3. Cavalier-Smith T. Origins of the machinery of recombination and sex. Heredity. 88:2002;125-141
4. Dacks J., Roger A.J. The first sexual lineage and the relevance of facultative sex. J. Mol. Evol. 48:1999;779-783
5. Adam R.D. Biology of Giardia lamblia. Clin. Microbiol. Rev. 14:2001;447-475
6. Baldauf S.L. The deep roots of eukaryotes. Science. 300:2003;1703-1706
7. McArthur A.G., Morrison H.G., Nixon J.E., Passamaneck N.Q., Kim U., Hinkle G., Crocker M.K., Holder M.E., Farr R., Reich C.I., et al. The Giardia genome project database. FEMS Microbiol. Lett. 189:2000;271-273
8. Raikov I.B. Meiosis in protists. Recent advances and persisting problems Eur. J. Protistol. 31:1995;1-17
9. Patterson D.J. The diversity of Eukaryotes. Am. Nat. 154:1999;S96-S124
10. Baldauf S.L., Roger A.J., Wenk-Siefert I., Doolittle W.F. A kingdom-level phylogeny of eukaryotes based on combined protein data. Science. 290:2000;972-977
11. Cavalier-Smith T. Only six kingdoms of life. Proc. R. Soc. Lond. B. Biol. Sci. 271:2004;1251-1262
12. Simpson A.G., Roger A.J. The real "kingdoms" of eukaryotes. Curr. Biol. 14:2004;R693-R696
13. Dacks J.B., Doolittle W.F. Reconstructing/deconstructing the earliest eukaryotes. How comparative genomics can help Cell. 107:2001;419-425
14. Haig D. Alternatives to meiosis. The unusual genetics of red algae, microsporidia, and others J. Theor. Biol. 163:1993;15-31
15. Heywood P., Magee P.T. Meiosis in protists. Some structural and physiological aspects of meiosis in algae, fungi, and protozoa. Bacteriol. Rev. 40:1976;190-240
16. Adam R.D. The Giardia lamblia genome. Int. J. Parasitol. 30:2000;475-484
17. Sogin M.L., Gunderson J.H., Elwood H.J., Alonso R.A., Peattie D.A. Phylogenetic meaning of the kingdom concept. An unusual ribosomal RNA from Giardia lamblia Science. 243:1989;75-77
18. Hirt R.P., Logsdon J.M. Jr., Healy B., Dorey M.W., Doolittle W.F., Embley T.M. Microsporidia are related to Fungi. Evidence from the largest subunit of RNA polymerase II and other proteins Proc. Natl. Acad. Sci. USA. 96:1999;580-585
19. Silberman J.D., Simpson A.G., Kulda J., Cepicka I., Hampl V., Johnson P.J., Roger A.J. Retortamonad flagellates are closely related to diplomonads - implications for the history of mitochondrial function in eukaryote evolution. Mol. Biol. Evol. 19:2002;777-786
20. Embley T.M., Hirt R.P. Early branching eukaryotes? Curr. Opin. Genet. Dev. 8:1998;624-629
21. Arisue, N., Hasegawa, M., and Hashimoto, T. (2004). Root of the Eukaryota tree as inferred from combined maximum likelihood analyses of multiple molecular sequence data. Mol. Biol. Evol., in press. Published online October 20, 2004. 10.1093/molbev/msi023
22. Stechmann A., Cavalier-Smith T. The root of the eukaryote tree pinpointed. Curr. Biol. 13:2003;R665-R666
23. Stechmann A., Cavalier-Smith T. Rooting the eukaryote tree by using a derived gene fusion. Science. 297:2002;89-91
24. Simpson A.G. Cytoskeletal organization, phylogenetic affinities and systematics in the contentious taxon Excavata (Eukaryota). Int. J. Syst. Evol. Microbiol. 53:2003;1759-1777
25. Nasmyth K. A homage to Giardia. Curr. Biol. 6:1996;1042
26. Otto S.P., Lenormand T. Resolving the paradox of sex and recombination. Nat. Rev. Genet. 3:2002;252-261
27. Lloyd D., Harris J.C. Giardia. Highly evolved parasite or early branching eukaryote? Trends Microbiol. 10:2002;122-127
28. Tovar J., Leon-Avila G., Sanchez L.B., Sutak R., Tachezy J., van der Giezen M., Hernandez M., Muller M., Lucocq J.M. Mitochondrial remnant organelles of Giardia function in iron-sulphur protein maturation. Nature. 426:2003;172-176
29. Roger A.J., Svard S.G., Tovar J., Clark C.G., Smith M.W., Gillin F.D., Sogin M.L. A mitochondrial-like chaperonin 60 gene in Giardia lamblia. Evidence that diplomonads once harbored an endosymbiont related to the progenitor of mitochondria Proc. Natl. Acad. Sci. USA. 95:1998;229-234
30. Upcroft P., Upcroft J.A. Organization and structure of the Giardia genome. Protist. 150:1999;17-23
31. Bernander R., Palm J.E., Svard S.G. Genome ploidy in different stages of the Giardia lamblia life cycle. Cell. Microbiol. 3:2001;55-62
32. Baruch A.C., Isaac-Renton J., Adam R.D. The molecular epidemiology of Giardia lamblia. A sequence-based approach J. Infect. Dis. 174:1996;233-236
33. Tibayrenc M., Kjellberg F., Ayala F.J. A clonal theory of parasitic protozoa. The population structures of Entamoeba, Giardia, Leishmania, Naegleria, Plasmodium, Trichomonas, and Trypanosoma and their medical and taxonomical consequences Proc. Natl. Acad. Sci. USA. 87:1990;2414-2418
34. Arkhipova I.R., Morrison H.G. Three retrotransposon families in the genome of Giardia lamblia. Two telomeric, one dead Proc. Natl. Acad. Sci. USA. 98:2001;14497-14502
35. Samuelson J. What Entamoeba histolytica and Giardia lamblia tell us about the evolution of eukaryotic diversity. J. Biosci. 27:2002;559-565
36. Eisen J.A., Fraser C.M. Phylogenomics. Intersection of evolution and genomics Science. 300:2003;1706-1707
37. Petukhova G.V., Romanienko P.J., Camerini-Otero R.D. The Hop2 protein has a direct role in promoting interhomolog interactions during mouse meiosis. Dev. Cell. 5:2003;927-936
38. Zierhut C., Berlinger M., Rupp C., Shinohara A., Klein F. Mnd1 is required for meiotic interhomolog repair. Curr. Biol. 14:2004;752-762
39. Culligan K.M., Meyer-Gauen G., Lyons-Weiler J., Hays J.B. Evolutionary origin, diversification and specialization of eukaryotic MutS homolog mismatch repair proteins. Nucleic Acids Res. 28:2000;463-471
40. Lynch M., Conery J.S. The evolutionary fate and consequences of duplicate genes. Science. 290:2000;1151-1155
41. Tsubouchi H., Roeder G.S. The Mnd1 protein forms a complex with Hop2 to promote homologous chromosome pairing and meiotic double-strand break repair. Mol. Cell. Biol. 22:2002;3078-3088
42. Tsubouchi H., Roeder G.S. The importance of genetic recombination for fidelity of chromosome pairing in meiosis. Dev. Cell. 5:2003;915-925
43. Huelsenbeck J.P., Ronquist F. Mrbayes. Bayesian inference of phylogenetic trees Bioinformatics. 17:2001;754-755
44. Conway D.J., Roper C., Oduola A.M., Arnot D.E., Kremsner P.G., Grobusch M.P., Curtis C.F., Greenwood B.M. High recombination rate in natural populations of Plasmodium falciparum. Proc. Natl. Acad. Sci. USA. 96:1999;4506-4511
45. Gibson W. Sex and evolution in trypanosomes. Int. J. Parasitol. 31:2001;643-647
46. Banerjee S., Das S., Lohia A. Eukaryotic checkpoints are absent in the cell division cycle of Entamoeba histolytica. J. Biosci. 27:2002;567-572
47. Biderre C., Mathis A., Deplazes P., Weber R., Metenier G., Vivares C.P. Molecular karyotype diversity in the microsporidian Encephalitozoon cuniculi. Parasitology. 118:1999;439-445
48. Normark B.B., Judson O.P., Moran N.A. Genomic signatures of ancient asexual lineages. Biological Journal of the Linnean Society. 79:2003;69-84
49. Birky C.W. Jr. Bdelloid rotifers revisited. Proc. Natl. Acad. Sci. USA. 101:2004;2651-2652
50. Mark Welch J.L., Mark Welch D.B., Meselson M. Cytogenetic evidence for asexual evolution of bdelloid rotifers. Proc. Natl. Acad. Sci. USA. 101:2004;1618-1621
51. Szathmary E., Smith J.M. The major evolutionary transitions. Nature. 374:1995;227-232
52. Altschul S.F., Madden T.L., Schaffer A.A., Zhang J., Zhang Z., Miller W., Lipman D.J. Gapped BLAST and PSI-BLAST. A new generation of protein database search programs Nucleic Acids Res. 25:1997;3389-3402
53. Borkovich K.A., Alex L.A., Yarden O., Freitag M., Turner G.E., Read N.D., Seiler S., Bell-Pedersen D., Paietta J., Plesofsky N., et al. Lessons from the genome sequence of Neurospora crassa. Tracing the path from genomic blueprint to multicellular organism Microbiol. Mol. Biol. Rev. 68:2004;1-108