Horizontal gene transfer facilitated the evolution of plant parasitic mechanisms in the oomycetes

Proceedings of the National Academy of Sciences of the United States of America

Volumn 108, Issue 37, 2011, Pages 15258-15263

  Richards, Thomas A ^a,b   Soanes, Darren M ^a   Jones, Meredith D M ^a,b   Vasieva, Olga ^c   Leonard, Guy ^a,b   Paszkiewicz, Konrad ^a   Foster, Peter G ^b   Hall, Neil ^c   Talbot, Nicholas J ^a  

^a UNIVERSITY OF EXETER   (United Kingdom)

^b DEPARTMENT OF LIFE SCIENCES   (United Kingdom)

^c UNIVERSITY OF LIVERPOOL   (United Kingdom)

Author keywords

Lateral gene transfer; Osmotrophy; Pseudofungi

Indexed keywords

GENE PRODUCT; NITROGEN; NUCLEIC ACID; PHOSPHATE; PROTEOME; SUGAR; VEGETABLE PROTEIN;

ARTICLE; CELL KILLING; CELL WALL; COMPARATIVE GENE MAPPING; FUNGAL GENE; FUNGUS; GENE SEQUENCE; GENOTYPE ENVIRONMENT INTERACTION; HORIZONTAL GENE TRANSFER; HYPHOCHYTRIUM CATENOIDE; NONHUMAN; NUCLEOTIDE SEQUENCE; OOMYCETES; PARASITE; PARASITISM; PHYLOGENY; PHYTOPHTHORA RAMORUM; PLANT CELL; PLANT DEFENSE; PLANT TISSUE; PRIORITY JOURNAL; PROTEIN SECRETION;

BIOLOGICAL EVOLUTION; FUNGI; GENE TRANSFER, HORIZONTAL; HOST-PARASITE INTERACTIONS; PHYLOGENY; PHYTOPHTHORA; PLANTS; PROTEOME;

EUKARYOTA; FUNGI; HYPHOCHYTRIUM CATENOIDES; OOMYCETES; PHYTOPHTHORA RAMORUM; PSEUDOFUNGI;

EID: 80053058594     PISSN: 00278424     EISSN: 10916490     Source Type: Journal    
DOI: 10.1073/pnas.1105100108     Document Type: Article

References (36)

1. Doolittle WF (1999) Lateral genomics. Trends Cell Biol 9:M5-M8.
2. Andersson JO (2009) Gene transfer and diversification of microbial eukaryotes. Annu Rev Microbiol 63:177-193.
3. Doolittle WF, et al. (2003) How big is the iceberg of which organellar genes in nuclear genomes are but the tip? Philos Trans R Soc Lond B Biol Sci 358:39-57, discussion 57-58.
4. Boucher Y, et al. (2003) Lateral gene transfer and the origins of prokaryotic groups. Annu Rev Genet 37:283-328. (Pubitemid 38041428)
5. Jain R, Rivera MC, Moore JE, Lake JA (2003) Horizontal gene transfer accelerates genome innovation and evolution. Mol Biol Evol 20:1598-1602. (Pubitemid 41070820)
6. Keeling PJ, Palmer JD (2008) Horizontal gene transfer in eukaryotic evolution. Nat Rev Genet 9:605-618.
7. Richards TA, et al. (2009) Phylogenomic analysis demonstrates a pattern of rare and ancient horizontal gene transfer between plants and fungi. Plant Cell 21: 1897-1911.
8. Doolittle WF (1998) You are what you eat: A gene transfer ratchet could account for bacterial genes in eukaryotic nuclear genomes. Trends Genet 14:307-311.
9. Berriman M, et al. (2005) The genome of the African trypanosome Trypanosoma brucei. Science 309:416-422.
10. Archibald JM, Rogers MB, Toop M, Ishida K, Keeling PJ (2003) Lateral gene transfer and the evolution of plastid-targeted proteins in the secondary plastid-containing alga Bigelowiella natans. Proc Natl Acad Sci USA 100:7678-7683. (Pubitemid 36760029)
11. Loftus B, et al. (2005) The genome of the protist parasite Entamoeba histolytica. Nature 433:865-868. (Pubitemid 40314894)
12. Andersson JO, Sjögren AM, Davis LAM, Embley TM, Roger AJ (2003) Phylogenetic analyses of diplomonad genes reveal frequent lateral gene transfers affecting eukaryotes. Curr Biol 13:94-104. (Pubitemid 36154336)
13. Marcet-Houben M, Gabaldón T (2010) Acquisition of prokaryotic genes by fungal genomes. Trends Genet 26:5-8.
14. Burki F, Shalchian-Tabrizi K, Pawlowski J (2008) Phylogenomics reveals a new 'megagroup' including most photosynthetic eukaryotes. Biol Lett 4:366-369. (Pubitemid 351961461)
15. James TY, et al. (2006) Reconstructing the early evolution of Fungi using a six-gene phylogeny. Nature 443:818-822. (Pubitemid 44622687)
16. Pirozynski KA, Malloch DW (1975) The origin of land plants: A matter of mycotrophism. Biosystems 6:153-164.
17. Wang B, Qiu YL (2006) Phylogenetic distribution and evolution of mycorrhizas in land plants. Mycorrhiza 16:299-363. (Pubitemid 44078603)
18. Dean RA, et al. (2005) The genome sequence of the rice blast fungus Magnaporthe grisea. Nature 434:980-986. (Pubitemid 40586040)
19. Richards TA, Dacks JB, Jenkinson JM, Thornton CR, Talbot NJ (2006) Evolution of filamentous plant pathogens: Gene exchange across eukaryotic kingdoms. Curr Biol 16: 1857-1864. (Pubitemid 44354141)
20. Cavalier-Smith T, Chao EE (2006) Phylogeny and megasystematics of phagotrophic heterokonts (kingdom Chromista). J Mol Evol 62:388-420.
21. Tyler BM, et al. (2006) Phytophthora genome sequences uncover evolutionary origins and mechanisms of pathogenesis. Science 313:1261-1266. (Pubitemid 44330944)
22. Haas BJ, et al. (2009) Genome sequence and analysis of the Irish potato famine pathogen Phytophthora infestans. Nature 461:393-398.
23. Baxter L, et al. (2010) Signatures of adaptation to obligate biotrophy in the Hyaloperonospora arabidopsidis genome. Science 330:1549-1551.
24. Li L, Stoeckert CJ, Jr., Roos DS (2003) OrthoMCL: Identification of ortholog groups for eukaryotic genomes. Genome Res 13:2178-2189. (Pubitemid 37161775)
25. Fitzpatrick DA, Logue ME, Stajich JE, Butler G (2006) A fungal phylogeny based on 42 complete genomes derived from supertree and combined gene analysis. BMC Evol Biol 6:99.
26. Altschul SF, et al. (1997) Gapped BLAST and PSI-BLAST: A new generation of protein database search programs. Nucleic Acids Res 25:3389-3402. (Pubitemid 27359211)
27. O'Brien EA, et al. (2007) TBestDB: A taxonomically broad database of expressed sequence tags (ESTs). Nucleic Acids Res 35(Database issue):D445-D451. (Pubitemid 46056248)
28. Van der Auwera G, et al. (1995) The phylogeny of the Hyphochytriomycota as deduced from ribosomal RNA sequences of Hyphochytrium catenoides. Mol Biol Evol 12: 671-678.
29. Kemen E, et al. (2011) Gene gain and loss during evolution of obligate parasitism in the white rust pathogen of Arabidopsis thaliana. PLoS Biol 9:e1001094.
30. Cultrone A, et al. (2005) Convergent evolution of hydroxylation mechanisms in the fungal kingdom: Molybdenum cofactor-independent hydroxylation of xanthine via alpha-ketoglutarate-dependent dioxygenases. Mol Microbiol 57:276-290. (Pubitemid 40896614)
31. Sealy-Lewis HM, Scazzocchio C, Lee S (1978) A mutation defective in the xanthine alternative pathway of Aspergillus nidulans: Its use to investigate the specificity of uaY mediated induction. Mol Gen Genet 164:303-308. (Pubitemid 9026971)
32. Sexton AC, Howlett BJ (2000) Characterisation of a cyanide hydratase gene in the phytopathogenic fungus Leptosphaeria maculans. Mol Gen Genet 263:463-470.
33. Ullah AH, Gibson DM (1987) Extracellular phytase (E.C. 3.1.3.8) from Aspergillus ficuum NRRL 3135: purification and characterization. Prep Biochem 17:63-91.
34. Reddy NR, Sathe SK, Salunkhe DK (1982) Phytates in legumes and cereals. Adv Food Res 28:1-92.
35. De Jonge R, et al. (2010) Conserved fungal LysM effector Ecp6 prevents chitin-triggered immunity in plants. Science 329:953-955.
36. Qutob D, et al. (2006) Phytotoxicity and innate immune responses induced by Nep1- like proteins. Plant Cell 18:3721-3744. (Pubitemid 46464923)