Microarray analysis of p-anisaldehyde-induced transcriptome of Saccharomyces cerevisiae

Journal of Industrial Microbiology and Biotechnology

Volumn 37, Issue 3, 2010, Pages 313-322

  Yu, Lu ^a   Guo, Na ^a   Yang, Yi ^a   Wu, Xiuping ^a   Meng, Rizeng ^b   Fan, Junwen ^c   Ge, Fa ^a   Wang, Xuelin ^a   Liu, Jingbo ^a   Deng, Xuming ^a  

^a JILIN UNIVERSITY   (China)

^b Jilin Entry Exit Inspection and Quarantine Bureau   (China)

^c BEIJING INSTITUTE OF MICROBIOLOGY AND EPIDEMIOLOGY   (China)

Author keywords

Antimicrobial; DNA microarray; Gene expression profile; P Anisaldehyde

Indexed keywords

ALDEHYDE; ANISALDEHYDE; OLIGONUCLEOTIDE; SULFUR; TRANSCRIPTOME;

ARTICLE; GENE CLUSTER; GENE EXPRESSION; MICROARRAY ANALYSIS; NONHUMAN; REVERSE TRANSCRIPTION POLYMERASE CHAIN REACTION; SACCHAROMYCES CEREVISIAE; YEAST;

ANTIFUNGAL AGENTS; BENZALDEHYDES; COMPUTATIONAL BIOLOGY; GENE EXPRESSION PROFILING; GENE EXPRESSION REGULATION, FUNGAL; GENES, FUNGAL; METABOLIC NETWORKS AND PATHWAYS; OLIGONUCLEOTIDE ARRAY SEQUENCE ANALYSIS; REVERSE TRANSCRIPTASE POLYMERASE CHAIN REACTION; SACCHAROMYCES CEREVISIAE; STATISTICS AS TOPIC;

PIMPINELLA ANISUM; SACCHAROMYCES CEREVISIAE;

EID: 76849100003     PISSN: 13675435     EISSN: 14765535     Source Type: Journal    
DOI: 10.1007/s10295-009-0676-y     Document Type: Article

References (60)

1. LR Beuchat DA Golden 1989 Antimicrobials occurring naturally in foods Food Technol 43 134 142 1:CAS:528:DyaL1MXitlShsrs%3D
2. A Lopez-Malo SM Alzamora A Argaiz 1995 Effect of natural vanillin on germination time and radial growth of moulds in fruit-based agar systems Food Mirobiol 12 213 219 10.1016/S0740-0020(95)80100-6 1:CAS:528:DyaK2MXnsF2mtbc%3D
3. P Cerrutti SM Alzamora 1996 Inhibitory effects of vanillin on some food spoilage yeasts in laboratory media and fruit purees Int J Food Microbiol 29 379 386 10.1016/0168-1605(95)00026-7 1:CAS:528:DyaK28XksFSgurc%3D 8796437
4. DJ Fitzgerald M Stratford MJ Gasson A Narbad 2004 The potential application of vanillin in preventing yeast spoilage of soft drinks and fruit juices J Food Prot 67 391 395 1:CAS:528:DC%2BD2cXhvFSjtr8%3D 14968976
5. DJ Fitzgerald M Stratford MJ Gasson A Narbad 2005 Structure-function analysis of the vanillin molecule and its antifungal properties J Agric Food Chem 53 1769 1775 10.1021/jf048575t 1:CAS:528:DC%2BD2MXhtF2jt70%3D 15740072 (Pubitemid 40322183)
6. M Parveen MK Hasan J Takahashi Y Murata E Kitagawa O Kodama H Iwahashi 2004 Response of Saccharomyces cerevisiae to a monoterpene: evaluation of antifungal potential by DNA microarray analysis J Antimicrob Chemother 54 46 55 10.1093/jac/dkh245 1:CAS:528:DC%2BD2cXltlyjsLo%3D 15201226 (Pubitemid 39028966)
7. M Rojas M Casado J Portugal B Piña 2008 Selective inhibition of yeast regulons by daunorubicin: a transcriptome-wide analysis BMC Genomics 30 358 10.1186/1471-2164-9-358
8. M Rojas CW Wright B Piña J Portugal 2008 Genomewide expression profiling of cryptolepine-induced toxicity in Saccharomyces cerevisiae Antimicrob Agents Chemother 52 3844 3850 10.1128/AAC.00532-08 1:CAS:528:DC%2BD1cXhtlCgs73F 18710911
9. A Goffeau 2000 Four years of post-genomic life with 6, 000 yeast genes FEBS Lett 480 37 41 10.1016/S0014-5793(00)01775-0 1:CAS:528:DC%2BD3cXmtVCqu7g%3D 10967326 (Pubitemid 30680148)
10. National Committee for Clinical Laboratory Standards (NCCLS) (1997) Reference method for broth dilution antifungal susceptibility testing of yeasts. proposed standard M27-A. National Committee for Clinical Laboratory Standards, Villanova
11. W Zhang DL Needham M Coffin A Rooker P Hurban MM Tanzer JR Shuster 2003 Microarray analyses of the metabolic responses of Saccharomyces cerevisiae to organic solvent dimethyl sulfoxide J Ind Microbiol Biotechnol 30 57 69 1:CAS:528:DC%2BD3sXitVWqsL4%3D 12545388
12. Collart MA, Oliviero S (1995) Preparation of yeast RNA. Short protocols in molecular biology, 3rd edn. Wiley, New York, pp 1346-1347
13. Y Guo H Guo L Zhang 2005 Genomic analysis of anti-hepatitis B virus (HBV) activity by small interfering RNA and lamivudine in stable HBV-producing cells J Virol 79 14392 14403 10.1128/JVI.79.22.14392-14403.2005 1:CAS:528: DC%2BD2MXht1ShsLbM 16254373 (Pubitemid 41552736)
14. YH Yang S Dudoit P Luu DM Lin V Peng J Ngai TP Speed 2002 Normalization for cDNA microarray data: a robust composite method addressing single and multiple slide systematic variation Nucleic Acids Res 30 e15 10.1093/nar/30.4.e15 11842121
15. Ng Wai-Leung KM Kazmierczak GT Robertson R Gilmour ME Winkler 2003 Transcriptional regulation and signature patterns revealed by microarray analyses of Streptococcus pneumoniae R6 challenged with sublethal concentrations of translation inhibitors J Bacteriol 185 359 370 10.1128/JB.185.1.359-370.2003 (Pubitemid 36008855)
16. A Boorsma BC Foat D Vis F Klis HJ Bussemaker 2005 T-profiler: scoring the activity of predefined groups of genes using gene expression data Nucleic Acids Res 33 W592 W595 10.1093/nar/gki484 1:CAS:528:DC%2BD2MXlslyqtbk%3D 15980543 (Pubitemid 44529991)
17. M Ashburner CA Ball JA Blake D Botstein H Butler JM Cherry AP Davis K Dolinski SS Dwight JT Eppig MA Harris DP Hill L Issel-Tarver A Kasarskis S Lewis JC Matese JE Richardson M Ringwald GM Rubin G Sherlock 2000 Gene ontology: tool for the unification of biology. the gene ontology consortium Nat Genet 25 25 29 10.1038/75556 1:CAS:528:DC%2BD3cXjtFSlsbc%3D 10802651 (Pubitemid 30257031)
18. A Zakrzewska A Boorsma D Delneri B Stanley SB Oliver FM Klis 2007 Cellular processes and pathways that protect Saccharomyces cerevisiae cells against the plasma membrane-perturbing compound chitosan Eukaryot Cell 6 600 608 10.1128/EC.00355-06 1:CAS:528:DC%2BD2sXks1KhsL4%3D 17259547 (Pubitemid 46697539)
19. K Nakamura M Niimi K Niimi AR Holmes JE Yates A Decottignies BC Monk A Goffeau RD Cannon 2001 Functional expression of Candida albicans drug efflux pump cdr1p in a Saccharomyces cerevisiae strain deficient in membrane transporters Antimicrob Agents Chemother 45 3366 3374 10.1128/AAC.45.12.3366- 3374.2001 1:CAS:528:DC%2BD3MXovVOls78%3D 11709310 (Pubitemid 33107848)
20. B Regenberg T Grotkjaer O Winther A Fausbøll M Åkesson C Bro LK Hansen S Brunak J Nielsen 2006 Growth-rate regulated genes have profound impact on interpretation of transcriptome profiling in Saccharomyces cerevisiae Genome Biol 7 R107 10.1186/gb-2006-7-11-r107 17105650 (Pubitemid 46736029)
21. HC Causton B Ren SS Koh CT Harbison E Kanin EG Jennings TI Lee HL True ES Lander RA Young 2001 Remodeling of yeast genome expression in response to environmental changes Mol Biol Cell 12 323 337 1:CAS:528:DC%2BD3MXhtlGjtLg%3D 11179418
22. AP Gasch PT Spellman CM Kao O Carmel-Harel MB Eisen G Storz D Botstein PO Brown 2000 Genomic expression programs in the response of yeast cells to environmental changes Mol Biol Cell 11 4241 4257 1:CAS:528:DC%2BD3cXovFansbw%3D 11102521
23. C Bro B Regenberg G Lagniel J Labarre M Montero-Lomeli J Nielsen 2003 Transcriptional, proteomic, and metabolic responses to lithium in galactose-grown yeast cells J Biol Chem 278 32141 32149 10.1074/jbc.M304478200 1:CAS:528:DC%2BD3sXmsVOms7Y%3D 12791685 (Pubitemid 37048404)
24. JS Hardwick FG Kuruvilla JK Tong AF Shamji SL Schreiber 1999 Rapamycin-modulated transcription defines the subset of nutrient-sensitive signaling pathways directly controlled by the TOR proteins Proc Natl Acad Sci 96 14866 14870 10.1073/pnas.96.26.14866 1:CAS:528:DC%2BD3cXhtFantg%3D%3D 10611304 (Pubitemid 30019731)
25. JM Schuurmans A Boorsma R Lascaris KJ Hellingwerf 2008 Teixeira de Mattos MJ physiological and transcriptional characterization of Saccharomyces cerevisiae strains with modifed expression of catabolic regulators FEMS Yeast Res 8 26 34 10.1111/j.1567-1364.2007.00309.x 1:CAS:528:DC%2BD1cXitVCqtLo%3D 17892474
26. GF Bammert JM Fostel 2000 Genome-wide expression patterns in Saccharomyces cerevisiae: comparison of drug treatments and genetic alterations affecting biosynthesis of ergosterol Antimicro Agents Chemother 44 1255 1265 10.1128/AAC.44.5.1255-1265.2000 1:CAS:528:DC%2BD3cXislKisbY%3D (Pubitemid 30228303)
27. D Cavalieri JP Townsend DL Hartl 2000 Manifold anomalies in gene expression in a vineyard isolate of Saccharomyces cerevisiae revealed by DNA microarray analysis PNAS 97 12369 12374 10.1073/pnas.210395297 1:CAS:528:DC%2BD3cXnvVSns78%3D 11035792 (Pubitemid 30815192)
28. A Aranda M del Olmo 2004 Exposure of Saccharomyces cerevisiae to acetaldehyde induces sulfur amino acid metabolism and polyamine transporter genes, which depend on Met4p and Haa1p transcription factors, respectively Appl Environ Microbiol 70 1913 1922 10.1128/AEM.70.4.1913-1922.2004 1:CAS:528:DC%2BD2cXjtlOit7s%3D 15066780 (Pubitemid 38500487)
29. D Thomas Y Surdin-Kerjan 1997 Metabolism of sulfur amino acids in Saccharomyces cerevisiae Microbiol Mol Biol Rev 61 503 532 1:CAS:528: DyaK2sXotVymsbc%3D 9409150
30. D Delneri DC Gardner CV Bruschi SG Oliver 1999 Disruption of seven hypothetical aryl alcohol dehydrogenase genes from Saccharomyces cerevisiae and construction of a multiple knock-out strain Yeast 15 1681 1689 10.1002/(SICI)1097-0061(199911)15:15<1681::AID-YEA486>3.0.CO;2-A 1:CAS:528:DyaK1MXns1KjsLg%3D 10572264 (Pubitemid 29537395)
31. D Delneri DC Gardner SG Oliver 1999 Analysis of the seven member AAD gene set demonstrates that genetic redundancy in yeast may be more apparent than real Genetics 153 1591 1600 1:CAS:528:DC%2BD3cXhvV2mtQ%3D%3D 10581269
32. E Kitagawa Y Momose H Iwahashi 2003 Correlation of the structures of agricultural fungicides to gene expression in Saccharomyces cerevisiae upon exposure to toxic doses Environ Sci Technol 37 2788 9273 10.1021/es026156b 1:CAS:528:DC%2BD3sXjsleisb8%3D 12854720 (Pubitemid 36706023)
33. AK Agarwal PD Rogers SR Baerson MR Jacob KS Barker JD Cleary LA Walker DG Nagle AM Clark 2003 Genome-wide expression profiling of the response to polyene, pyrimidine, azole, and echinocandin antifungal agents in Saccharomyces cerevisiae J Biol Chem 278 34998 35015 10.1074/jbc.M306291200 1:CAS:528:DC%2BD3sXntVWqtrk%3D 12824174 (Pubitemid 37102261)
34. A Zakrzewska A Boorsma S Brul KJ Hellingwerf FM Klis 2005 Transcriptional response of Saccharomyces cerevisiae to the plasma membrane-perturbing compound chitosan Eukaryot Cell 4 703 715 10.1128/EC.4.4.703-715.2005 1:CAS:528:DC%2BD2MXjvVGqsb8%3D 15821130 (Pubitemid 40600424)
35. DJ Jamieson 1992 Saccharomyces cerevisiae has distinct adaptive responses to both hydrogen peroxide and menadione J Bacteriol 174 6678 6681 1:CAS:528:DyaK38XmsVynurs%3D 1400218
36. LP Collinson IW Dawes 1992 Inducibility of the response of yeast cells to peroxide stress J Gen Microbiol 138 329 335 1:CAS:528:DyaK38XhvFSqsLs%3D 1564443
37. DWS Stephen SL Rivers DJ Jamieson 1995 The role of the Yap1 and Yap2 genes in the regulation of the adaptive oxidative stress responses of Saccharomyces cerevisiae Mol Microbiol 16 415 423 10.1111/j.1365-2958.1995. tb02407.x 1:CAS:528:DyaK2MXmtlSlsbo%3D 7565103
38. J Fishman-Lobell N Rudin JE Haber 1992 Two alternative pathways of double-strand break repair that are kinetically separable and independently modulated Mol Cell Biol 12 1292 1302 1:CAS:528:DyaK38Xhs1Oktb4%3D 1545810
39. M van den Bosch JB Zonneveld K Vreeken FA de Vries PH Lohman A Pastink 2002 Differential expression and requirements for Schizosaccharomyces pombe RAD52 homologs in DNA repair and recombination Nucleic Acids Res 30 1316 1324 10.1093/nar/30.6.1316 11884628
40. T Ohta 1993 Modification of genotoxicity by naturally occurring favorings and their derivatives Crit Rev Toxicol 23 127 146 10.3109/10408449309117114 1:CAS:528:DyaK3sXks1Gjsro%3D 8329113
41. K Akagi M Hirose T Hoshiya Y Mizoguchi N Ito T Shirai 1995 Modulating effects of elagic acid, vanillin and quercetin in a rat medium term multi-organ carcinogenesis model Cancer Lett 94 113 121 10.1016/0304-3835(95)03833-I 1:CAS:528:DyaK2MXntFCktr8%3D 7621439
42. CJ Lord MD Garrett A Ashworth 2006 Targeting the double-strand DNA break repair pathway as a therapeutic strategy Clin Cancer Res 12 4463 4468 10.1158/1078-0432.CCR-06-1269 1:CAS:528:DC%2BD28XnvVGlu7w%3D 16899589 (Pubitemid 44297792)
43. K Tamai H Tezuka Y Kuroda 1992 Direct modifications by vanillin in cytotoxicity and genetic changes induced by EMS and H2O2 in cultured chinese hamster cells Mutat Res 268 231 237 1:CAS:528:DyaK38Xls1Gktrw%3D 1379329
44. DL Gustafson HR Franz AM Ueno CJ Smith DJ Doolittle CA Waldren 2000 Vanillin (3-methoxy-4-hydroxybenzaldehyde) inhibits mutation induced by hydrogen peroxide, N-methyl-N-nitrosoguanidine and mitomycin C but not (137)Cs gamma-radiation at the CD59 locus in human-hamster hybrid A(L) cells Mutagenesis 15 207 213 10.1093/mutage/15.3.207 1:CAS:528:DC%2BD3cXjs1Cqt7Y%3D 10792012
45. E Balzi A Goffeau 1995 Yeast multidrug resistance: the PDR network J Bioenerg Biomembr 27 71 76 10.1007/BF02110333 1:CAS:528:DyaK2MXltFOnsrc%3D 7629054
46. A Decottignies AM Grant JW Nichols H de Wet DB McIntosh A Goffeau 1998 ATPase and multidrug transport activities of the overexpressed yeast ABC protein Yor1p J Biol Chem 273 12612 12622 10.1074/jbc.273.20.12612 1:CAS:528: DyaK1cXjtlSgu7c%3D 9575223 (Pubitemid 28240639)
47. DJ Katzmann PE Burnett J Golin Y Mahé 1994 Moye-Rowley WS Transcriptional control of the yeast PDR5 gene by the PDR3 gene product Mol Cell Biol 14 4653 4661 1:CAS:528:DyaK2cXkslGiu70%3D 8007969
48. G Owsianik L Balzi M Ghislain 2002 Control of 26S proteasome expression by transcription factors regulating multidrug resistance in Saccharomyces cerevisiae Mol Microbiol 43 1295 1308 10.1046/j.1365-2958.2002.02823.x 1:CAS:528:DC%2BD38Xis1OmsLk%3D 11918814 (Pubitemid 34304544)
49. MC Teixeira PJ Dias T Simões 2008 Sá-Correia I Yeast adaptation to mancozeb involves the up-regulation of FLR1 under the coordinate control of Yap1, Rpn4, Pdr3, and Yrr1 Biochem Biophys Res Commun 367 249 255 10.1016/j.bbrc.2007.12.056 1:CAS:528:DC%2BD1cXpsFyhuw%3D%3D 18086556
50. X Fan H Shi JT Lis 2005 Distinct transcriptional responses of RNA polymerases I, II and III to aptamers that bind TBP Nucleic Acids Res 33 838 845 10.1093/nar/gki212 1:CAS:528:DC%2BD2MXitVyqtbY%3D 15701755 (Pubitemid 41430504)
51. C Koch T Moll M Neuberg H Ahorn K Nasmyth 1993 A role for the transcription factors Mbp1 and Swi4 I progression from G1 to S phase Science 261 1551 1557 10.1126/science.8372350 1:CAS:528:DyaK3sXms1equrw%3D 8372350
52. JM Bean ED Siggia FR Cross 2005 High functional overlap between MluI cell-cycle box binding factor and Swi4/6 cell-cycle box binding factor in the G1/S transcriptional program in Saccharomyces cerevisiae Genetics 171 49 61 10.1534/genetics.105.044560 1:CAS:528:DC%2BD2MXhtFGqt7rL 15965243 (Pubitemid 41437538)
53. P Jorgensen JL Nishikawa BJ Breitkreutz M Tyers 2002 Systematic identification of pathways that couple cell growth and division in yeast Science 297 395 400 10.1126/science.1070850 1:CAS:528:DC%2BD38Xls1Cju7k%3D 12089449 (Pubitemid 34790768)
54. WM Toone BL Aerne BA Morgan LH Johnston 1997 Getting started: regulating the initiation of DNA replication in yeast Annu Rev Microbiol 51 125 149 10.1146/annurev.micro.51.1.125 1:CAS:528:DyaK2sXms1Shsb0%3D 9343346 (Pubitemid 27433045)
55. M Koranda A Schleiffer L Endler G Ammerer 2000 Forkhead-like transcription factors recruit Ndd1 to the chromatin of G2/M-specific promoters Nature 406 94 98 10.1038/35017589 1:CAS:528:DC%2BD3cXlt12qs7g%3D 10894549 (Pubitemid 30460218)
56. PC Hollenhorst ME Bose MR Mielke U Muller CA Fox 2000 Forkhead genes in transcriptional silencing, cell morphology and the cell cycle. overlapping and distinct functions for FKH1 and FKH2 in Saccharomyces cerevisiae Genetics 154 1533 1548 1:CAS:528:DC%2BD3cXjtVanu7k%3D 10747051
57. PT Spellman G Sherlock MQ Zhang VR Iyer K Anders 1998 Comprehensive identification of cell-cycle regulated genes of the yeast Saccharomyces cerevisiae by microarray hybridization Mol Biol Cell 9 3273 3297 1:CAS:528:DyaK1cXnvFOmt7Y%3D 9843569
58. J Veis H Klug M Koranda G Ammerer 2007 Activation of the G2/M-specific gene CLB2 requires multiple cell cycle signals Mol Cell Biol 27 8364 8373 10.1128/MCB.01253-07 1:CAS:528:DC%2BD2sXhsVeisL%2FM 17908798 (Pubitemid 350234247)
59. G Zhu PT Spellman T Volpe PO Brown D Botstein TN Davis B Futcher 2000 Two yeast forkhead genes regulate the cell cycle and pseudohyphal growth Nature 406 90 94 10.1038/35021046 1:CAS:528:DC%2BD3cXlt12ru7c%3D 10894548 (Pubitemid 30671223)
60. L Lu G Roberts K Simon J Yu AP Hudson 2003 Rsf1p, a protein required for respiratory growth of Saccharomyces cerevisiae Curr Genet 43 263 272 10.1007/s00294-003-0398-z 1:CAS:528:DC%2BD3sXlsVarsro%3D 12734673 (Pubitemid 36833705)