Chimeric Protein Complexes in Hybrid Species Generate Novel Phenotypes

PLoS Genetics

Volumn 9, Issue 10, 2013, Pages

  Piatkowska, Elzbieta M ^a   Naseeb, Samina ^a   Knight, David ^a   Delneri, Daniela ^a  

^a UNIVERSITY OF MANCHESTER   (United Kingdom)

Author keywords

[No Author keywords available]

Indexed keywords

CHIMERIC PROTEIN; MBF COMPLEX; TRP2 COMPLEX; TRP3 COMPLEX; TRYPTOPHAN; UNCLASSIFIED DRUG;

AFFINITY CHROMATOGRAPHY; ARTICLE; CHEMICAL COMPOSITION; CHIMERA; COMPLEX FORMATION; CONTROLLED STUDY; HYBRIDIZATION; MASS SPECTROMETRY; NONHUMAN; PHENOTYPIC PLASTICITY; PHENOTYPIC VARIATION; PROTEIN ASSEMBLY; PROTEIN INTERACTION; PROTEIN PROTEIN INTERACTION; SACCHAROMYCES; SACCHAROMYCES CEREVISIAE; SACCHAROMYCES MIKATAE; SACCHAROMYCES UVARUM;

ALLELES; ANTHRANILATE SYNTHASE; EVOLUTION, MOLECULAR; GENOME; HYBRIDIZATION, GENETIC; INDOLE-3-GLYCEROL-PHOSPHATE SYNTHASE; MEMBRANE PROTEINS; PEPTIDE FRAGMENTS; PHENOTYPE; RECOMBINANT FUSION PROTEINS; SACCHAROMYCES; SACCHAROMYCES CEREVISIAE PROTEINS;

EID: 84887292475     PISSN: 15537390     EISSN: 15537404     Source Type: Journal    
DOI: 10.1371/journal.pgen.1003836     Document Type: Article

References (33)

1. Masneuf I, Hansen J, Groth C, Piskur J, Dubourdieu D, (1998) New hybrids between Saccharomyces sensu stricto yeast species found among wine and cider production strains. Appl Environ Microbiol 64: 3887-3892.
2. Gangl H, Batusic M, Tscheik G, Tiefenbrunner W, Hack C, et al. (2009) Exceptional fermentation characteristics of natural hybrids from Saccharomyces cerevisiae and S. kudriavzevii. Nat Biotechnol 25: 244-251.
3. Liti G, Carter DM, Moses AM, Warringer J, Parts L, et al. (2009) Population genomics of domestic and wild yeasts. Nature 458: 337-341.
4. Greig D, Borts RH, Louis EJ, Travisano M, (2002) Epistasis and hybrid sterility in Saccharomyces. Proc Biol Sci 269: 1167-1171.
5. Lee HY, Chou JY, Cheong L, Chang NH, Yang SY, et al. (2008) Incompatibility of nuclear and mitochondrial genomes causes hybrid sterility between two yeast species. Cell 135: 1065-1073.
6. Blieck L, Toye G, Dumortier F, Verstrepen KJ, Delvaux FR, et al. (2007) Isolation and characterization of brewer's yeast variants with improved fermentation performance under high-gravity conditions. Appl Environ Microbiol 73: 815-824.
7. González SS, Gallo L, Climent MA, Barrio E, Querol A, et al. (2007) Enological characterization of natural hybrids from Saccharomyces cerevisiae and S. kudriavzevii. Int J Food Microbiol 116: 11-17.
8. Tirosh I, Reikhav S, Levy AA, Barkai N, (2009) A yeast hybrid provides insight into the evolution of gene expression regulation. Science 324: 659-662.
9. Borneman AR, Gianoulis TA, Zhang ZD, Yu H, Rozowsky J, et al. (2007) Divergence of transcription factor binding sites across related yeast species. Science 317: 815-819.
10. Pu S, Wong J, Turner B, Cho E, Wodak SJ, (2009) Up-to-date catalogues of yeast protein complexes. Nucleic Acids Res 37: 825-831.
11. Gavin AC, Bösche M, Krause R, Grandi P, Marzioch M, et al. (2002) Functional organization of the yeast proteome by systematic analysis of protein complexes. Nature 415: 141-147.
12. Tarassov K, Messier V, Landry CR, Radinovic S, Serna Molina MM, et al. (2008) An in vivo map of the yeast protein interactome. Science 320: 1465-1470.
13. Steel GJ, Brownsword J, Stirling CJ, (2002) Tail-anchored protein insertion into yeast ER requires a novel posttranslational mechanism which is independent of the SEC machinery. Biochemistry 41: 11914-11920.
14. Prasad R, Niederberger P, Hütter R, (1987) Tryptophan accumulation in Saccharomyces cerevisiae under the influence of an artificial yeast TRP gene cluster. Yeast 3: 95-105.
15. Cho EJ, Kobor MS, Kim M, Greenblatt J, Buratowski S, (2001) Opposing effects of Ctk1 kinase and Fep1 phosphatase at Ser 2 of the RNA polymerase II C- terminal domain. Genes Dev 15: 3319-3329.
16. Bean JM, Siggia ED, Cross FR, (2005) High functional overlap between Mlu I cell- cycle box binding factor in the G1/S transcriptional program in Saccharomyces cerevisiae. Genetics 171: 49-61.
17. He B, Chen P, Chen SY, Vancura KL, Michaelis S, et al. (1991) RAM2, an essential gene of yeast, and RAM1 encode the two polypeptide components of the farnesyltransferase that prenylates a-factor and Ras proteins. Proc Natl Acad Sci U S A 88: 11373-11377.
18. Tam ATY, Pike BL, Hammet A, Heierhorst J, (2007) Telomere-related function of yeast KU in the repair of bleomycin-induced DNA damage. Biochem Biophys Res Commun 357: 800-803.
19. Liti G, Haricharan S, Cubillos FA, Tierney AL, Sharp S, et al. (2009) Segregating YKU80 and TLC1 alleles underlying natural variation in telomere properties in wild yeast. PLoS Genet 5: e1000659.
20. Steinmetz LM, Scharfe C, Deutschbauer AM, Mokranjac D, Herman ZS, et al. (2002) Systematic screen for human disease genes in yeast. Nat Genet 31: 400-404.
21. Lang GI, Murray AW, Botstein D, (2009) The cost of gene expression underlies a fitness trade-off in yeast. Proc Natl Acad Sci U S A 106: 5755-5760.
22. Chou JY, Hung YS, Lin KH, Lee HY, Leu JY, (2010) Multiple molecular mechanisms cause reproductive isolation between three yeast species. PLoS Biol 8: e1000432.
23. Dowell RD, Ryan O, Jansen A, Cheung D, Agarwala S, et al. (2010) Genotype to phenotype: a complex problem. Science 328: 469.
24. Leducq JB, Charron G, Diss G, Gagnon-Arsenault I, Dubé AK, et al. (2012) Evidence for the robustness of protein complexes to inter-species hybridization. PLoS Genetics 8 (12) (): e1003161.
25. Ohno S. (1970) Evolution by gene duplication. New York Springer-Verlag.
26. Papp B, Pál C, Hurst LD, (2003) Dosage sensitivity and the evolution of gene families in yeast. Nature 424: 194-197.
27. Isalan M, Lemerle C, Michalodimitrakis K, Horn C, Beltrao P, et al. (2008) Evolvability and hierarchy in rewired bacterial gene networks. Nature 452: 840-845.
28. Delneri D, Colson I, Grammenoudi S, Roberts IN, Louis EJ, et al. (2003) Engineering evolution to study speciation in yeasts. Nature 422: 68-72.
29. Rigaut G, Shevchenko A, Rutz B, Wilm M, Mann M, et al. (1999) A generic protein purification method for protein complex characterization and proteome exploration. Nat Biotechnol 17: 1030-1032.
30. Shevchenko A, Tomas H, Havlis J, Olsen JV, Mann M, (2006) In-gel digestion for mass spectrometric characterization of proteins and proteomes. Nat Protoc 1: 2856-2860.
31. Nesvizhskii AI, Keller A, Kolker E, Aebersold RA, (2003) Statistical model for identifying proteins by tandem mass spectrometry. Anal Chem 75: 4646-4658.
32. Carter Z, Delneri D, (2010) New generation of loxP-mutated deletion cassettes for the genetic manipulation of yeast natural isolates. Yeast 27: 765-775.
33. Delneri D, (2011) Competition experiments coupled with high-throughput analyses for functional genomics studies in yeast. Methods Mol Biol 759: 271-282.