Rapid transcriptome responses of maize (Zea mays) to UV-B in irradiated and shielded tissues

Genome Biology

Volumn 5, Issue 3, 2004, Pages

  Casati, Paula ^a   Walbot, Virginia ^a  

^a STANFORD UNIVERSITY   (United States)

Author keywords

Additional Data File; Adult Leaf; Ribosomal Protein Gene; RuBisCO Small Subunit; Transcript Type

Indexed keywords

HYDROGEN PEROXIDE; PLANT RNA; PLASTIC;

ACCLIMATIZATION; ANTIBODY SPECIFICITY; ARTICLE; CLUSTER ANALYSIS; COMPUTER; DNA MICROARRAY; GENE; GENE EXPRESSION PROFILING; GENE EXPRESSION REGULATION; GENETIC TRANSCRIPTION; GENETICS; KINETICS; MAIZE; METABOLISM; METHODOLOGY; MOLECULAR GENETICS; PLANT LEAF; RADIATION EXPOSURE; RADIATION RESPONSE; REVERSE TRANSCRIPTION POLYMERASE CHAIN REACTION; SIGNAL TRANSDUCTION; STATISTICS; ULTRAVIOLET RADIATION;

ACCLIMATIZATION; CLUSTER ANALYSIS; COMPUTERS; DOSE-RESPONSE RELATIONSHIP, RADIATION; GENE EXPRESSION PROFILING; GENE EXPRESSION REGULATION, PLANT; GENES, PLANT; HYDROGEN PEROXIDE; KINETICS; MOLECULAR SEQUENCE DATA; OLIGONUCLEOTIDE ARRAY SEQUENCE ANALYSIS; ORGAN SPECIFICITY; PLANT LEAVES; PLASTICS; REVERSE TRANSCRIPTASE POLYMERASE CHAIN REACTION; RNA, PLANT; SIGNAL TRANSDUCTION; TRANSCRIPTION, GENETIC; ULTRAVIOLET RAYS; ZEA MAYS;

EID: 4644360515     PISSN: 14747596     EISSN: 1474760X     Source Type: Journal    
DOI: 10.1186/gb-2004-5-3-r16     Document Type: Article

References (46)

1. Rozema J, Bjorn LO, Bornman JF, Gaberscik A, Hader DP, Trost T, Germ M, Klisch M, Groniger A, Sinha RP, et al: The role of UV-B radiation in aquatic and terrestrial ecosystems: an experimental and functional analysis of the evolution of UV-absorbing compounds. J Photochem Photobiol B. 2002, 66: 2-12. 10.1016/S1011-1344(01)00269-X. DOI: 10.1016/S1011-1344(01)00269-X
2. de Gruijl FR, Van der Leun JC: Estimate of the wavelength dependency of ultraviolet carcinogenesis in humans and its relevance to the risk assessment of a stratospheric ozone depletion. Health Phys. 1994, 67: 319-325. DOI: 10.1097/00004032-199410000-00001
3. Ballaré CL, Rousseaux MC, Searles PS, Zaller JG, Giordano CV, Robson TM, Caldwell MM, Sala OE, Scopel AL: Impacts of solar ultraviolet-B radiation on terrestrial ecosystems of Tierra del Fuego (southern Argentina) - An overview of recent progress. J Photochem Photobiol B. 2001, 62: 67-77. 10.1016/S1011-1344(01)00152-X. DOI: 10.1016/S1011-1344(01)00152-X
4. Searles PS, Flint SD, Caldwell MM: A meta analysis of plant field studies simulating stratospheric ozone depletion. Oecologia. 2001, 127: 1-10. 10.1007/s004420000592. DOI: 10.1007/s004420000592
5. Paul ND, Gwynn-Jones D: Ecological roles of solar UV radiation: towards an integrated approach. Trends Ecol Evol. 2003, 18: 48-55. 10.1016/S0169-5347(02)00014-9. DOI: 10.1016/S0169-5347(02)00014-9
6. Stapleton AE, Walbot V: Flavonoids can protect maize DNA from the induction of ultraviolet-radiation damage. Plant Physiol. 1994, 105: 881-889. 10.1104/pp.105.3.881. DOI: 10.1104/pp.105.3.881
7. Mazza CA, Boccalandro HE, Giordano CV, Battista D, Scopel AL, Ballaré CL: Functional significance and induction by solar radiation of ultraviolet-absorbing sunscreens in field-grown soybean crops. Plant Physiol. 2000, 122: 117-125. 10.1104/pp.122.1.117. DOI: 10.1104/pp.122.1.117
8. Bieza K, Lois R: An Arabidopsis mutant tolerant to lethal ultraviolet-B levels shows constitutively elevated accumulation of flavonoids and other phenolics. Plant Physiol. 2001, 126: 1105-1115. 10.1104/pp.126.3.1105. DOI: 10.1104/pp.126.3.1105
9. Britt AB: DNA damage and repair in plants. Annu Rev Plant Physiol Plant Mol Biol. 1996, 4: 75-100. 10.1146/annurev.arplant.47.1.75. DOI: 10.1146/annurev.arplant.47.1.75
10. Landry LG, Stapleton AE, Lim J, Hoffman P, Hays JB, Walbot V, Last RL: An Arabidopsis photolyase mutant is hypersensitive to ultraviolet-B radiation. Proc Natl Acad Sci USA. 1997, 94: 328-332. 10.1073/pnas.94.1.328. DOI: 10.1073/pnas.94.1.328
11. Gerhardt KE, Wilson MI, Greenberg BM: Tryptophan photolysis leads to a UVB-induced 66 kDa photoproduct of ribulose-1,5-bisphosphate carboxylase/oxygenase (Rubisco) in vitro and in vivo. Photochem Photobiol. 1999, 70: 49-56. 10.1562/0031-8655(1999)070<0049:TPLTAU>2.3.CO;2.
12. Angel P, Imagawa M, Chiu R, Stein B, Imbra RJ, Rajmsdorf HJ, Jonat C, Herrlich P, Karin M: Phorbol ester inducible genes contain a common cis element recognized by a TPA-modulated trans-acting factor. Cell. 1987, 49: 729-739. 10.1016/0092-8674(87)90611-8. DOI: 10.1016/0092-8674(87)90611-8
13. Adler V, Pincus MR, Polotskaya A, Montano X, Friedman FK, Ronai Z: Activation of c-Jun-NH2-kinase by UV irradiation is dependent on p21(ras). J Biol Chem. 1996, 271: 23304-23309. 10.1074/jbc.271.51.32491. DOI: 10.1074/jbc.271.38.23304
14. Tyrrell RM: Activation of mammalian gene expression by the UV component of sunlight: from models to reality. BioEssays. 1996, 18: 139-148. 10.1002/bies.950180210. DOI: 10.1002/bies.950180210
15. Bender K, Blattner C, Knebel A, Iordanov M, Herrlich P, Rahmsdorf HJ: UV-induced signal transduction. J Photochem Photobiol B. 1997, 37: 1-17. 10.1016/S1011-1344(96)07459-3. DOI: 10.1016/S1011-1344(96)07459-3
16. Christie JM, Jenkins GI: Distinct UV-B and UV-A/blue light signal transduction pathways induce chalcone synthase gene expression in Arabidopsis cells. Plant Cell. 1996, 8: 1555-1567. 10.1105/tpc.8.9.1555. DOI: 10.1105/tpc.8.9.1555
17. Frohnmeyer H, Bowler C, Schafer E: Evidence for some signal transduction elements involved in UV-light dependent responses in parsley protoplasts. J Exp Bot. 1997, 48: 739-750. DOI: 10.1093/jxb/48.3.739
18. Conconi A, Smerdon MJ, Howe GA, Ryan CA: The octadecanoid signalling pathway in plants mediates a response to ultraviolet radiation. Nature. 1996, 383: 826-829. 10.1038/383826a0. DOI: 10.1038/383826a0
19. Holley SR, Yalamanchili RD, Moura DS, Ryan CA, Stratmann JW: Convergence of signaling pathways induced by systemin, oligosaccharide elicitors, and ultraviolet-B radiation at the level of mitogen-activated protein kinases in Lycopersicon peruvianum suspension-cultured cells. Plant Physiol. 2003, 132: 1728-1738. 10.1104/pp.103.024414. DOI: 10.1104/pp.103.024414
20. Surplus SL, Jordan BR, Murphy AM, Carr JP, Thomas B, Mackerness SA-H: Ultraviolet-B-induced responses in Arabidopsis thaliana: role of salicylic acid and reactive oxygen species in the regulation of transcripts encoding photosynthetic and acidic pathogenesis-related proteins. Plant Cell Environ. 1998, 21: 685-694. 10.1046/j.1365-3040.1998.00325.x. DOI: 10.1046/j.1365-3040.1998.00325.x
21. Mackerness SA-H, Jordan BR: Changes in gene expression in response to ultraviolet B-induced stress. In Handbook of Plant and Crop Stress. Edited by: Pessarakli M. 1999, New York, Basel: Marcel Dekker, 749-768. 2 DOI: 10.1201/9780824746728.ch36
22. Mackerness SA-H, John CF, Jordan B, Thomas B: Early signaling components in ultraviolet-B responses: distinct roles for different reactive oxygen species and nitric oxide. FEBS Lett. 2001, 489: 237-242. 10.1016/S0014-5793(01)02103-2. DOI: 10.1016/S0014-5793(01)02103-2
23. Gross S, Knebel A, Tenev T, Neininger A, Gaestel M, Herrlich P, Bohmer FD: Inactivation of protein-tyrosine phosphatases as mechanism of UV-induced signal transduction. J Biol Chem. 1999, 274: 26378-26386. 10.1074/jbc.274.37.26378. DOI: 10.1074/jbc.274.37.26378
24. Casati P, Walbot V: Gene expression profiling in response to ultraviolet radiation in Zea mays genotypes with varying flavonoid content. Plant Physiol. 2003, 132: 1739-1754. 10.1104/pp.103.022871. DOI: 10.1104/pp.103.022871
25. Izaguirre MM, Scopel AL, Baldwin IT, Ballaré CL: Convergent responses to stress. Solar Ultraviolet-B radiation and Manduca sexta herbivory elicit overlapping transcriptional responses in field-grown plants of Nicotiana longiflora. Plant Physiol. 2003, 132: 1755-1767. 10.1104/pp.103.024323. DOI: 10.1104/pp.103.024323
26. Ballaré CL: Stress under the sun: spotlight on ultraviolet-B responses. Plant Physiol. 2003, 132: 1725-1727. 10.1104/pp.103.027672. DOI: 10.1104/pp.103.027672
27. Dooner HK: Coordinate genetic regulation of flavonoid biosynthetic enzymes in maize. Mol Gen Genet. 1983, 189: 136-141. 10.1007/BF00326066. DOI: 10.1007/BF00326066
28. Microarray Project: overview. [http://gremlin3.zool.iastate.edu/zmdb/microarray/]
29. Caldwell MM: Solar UV irradiation and the growth and development of higher plants. Photophysiology. 1971, 6: 131-177. DOI: 10.1016/B978-0-12-282606-1.50010-6
30. Mackerness SA-H, Thomas B, Jordan BR: The effect of supplementary ultraviolet-B radiation on transcripts, translation and stability of chloroplast proteins and pigment formation in Pisum sativum L. J Exp Bot. 1997, 48: 729-738. DOI: 10.1093/jxb/48.3.729
31. Jordan BR: The effects of UV-B radiation on plants: A molecular perspective. In Advances in Botanical Research. Edited by: Callow JA. 1996, Boca Raton: Academic Press, 97-162.
32. Noah JW, Shapkina T, Wollenzien P: UV-induced crosslinks in the 16S rRNAs of Escherichia coli, Bacillus subtilis and Thermus aquaticus and their implications for ribosome structure and photochemistry. Nucleic Acids Res. 2000, 28: 3785-3792. 10.1093/nar/28.19.3785. DOI: 10.1093/nar/28.19.3785
33. Bao SD, Tibbetts RS, Brumbaugh KM, Fang YN, Richardson DA, Ali A, Chen SM, Abraham RT, Wang XF: ATR/ATM mediated phosphorylation of human RAD17 is required for genotoxic stress responses. Nature. 2001, 411: 969-974. 10.1038/35082110. DOI: 10.1038/35082110
34. Xu XJ, Dietrich CR, Delledonne M, Xia YJ, Wen TJ, Robertson DS, Nikolau BJ, Schnable PS: Sequence analysis of the cloned glossy8 gene of maize suggests that it may code for a beta-ketoacyl reductase required for the biosynthesis of cuticular waxes. Plant Physiol. 1997, 115: 501-510. 10.1104/pp.115.2.501. DOI: 10.1104/pp.115.2.501
35. Hishida T, Ohno T, Iwasaki H, Shinagawa H: Saccharomices cerevisiae MGS1 is essential in strains deficient in in the RAD6-dependent DNA damage tolerance pathway. EMBO J. 2002, 21: 2019-2029. 10.1093/emboj/21.8.2019. DOI: 10.1093/emboj/21.8.2019
36. Pyne S, Pyne NJ: Sphingosine 1-phosphate signaling in mammalian cells. Biochem J. 2000, 349: 385-402. 10.1042/0264-6021:3490385. DOI: 10.1042/bj3490385
37. Spiegel S, Milstien S: Sphingosine-1-phosphate: an enigmatic signalling lipid. Nat Rev Mol Cell Biol. 2003, 4: 397-407. 10.1038/nrm1103. DOI: 10.1038/nrm1103
38. Cho Y, Fernandes J, Kim S-H, Walbot V: Gene-expression profile comparisons distinguish seven organs of maize. Genome Biol. 2002, 3: research0045.1-0045.16. 10.1186/gb-2002-3-9-research0045. DOI: 10.1186/gb-2002-3-9-research0045
39. Kunkel BN, Brooks DM: Cross talk between signaling pathways in pathogen defense. Curr Opin Plant Biol. 2002, 5: 325-331. 10.1016/S1369-5266(02)00275-3. DOI: 10.1016/S1369-5266(02)00275-3
40. Arnots T, Murphy TM: A comparison of the effects of a fungal elicitor and ultraviolet radiation on ion transport and hydrogen peroxide in rose cells. Environ Exp Bot. 1991, 31: 209-216. 10.1016/0098-8472(91)90072-V. DOI: 10.1016/0098-8472(91)90072-V
41. Dai Q, Yan B, Huang S, Liu X, Peng S, Miranda MLM, Chavez AQ, Vegara BS, Olszyk D: Response to oxidative stress defense systems in rice (Oryza sativa) leaves with supplemental UV-B radiation. Physiol Plant. 1997, 101: 301-308. 10.1034/j.1399-3054.1997.1010207.x. DOI: 10.1111/j.1399-3054.1997.tb01000.x
42. Kuzniak E, Urbanek H: The involvement of hydrogen peroxide in plant responses to stresses. Acta Physiol Plant. 2000, 22: 195-203. DOI: 10.1007/s11738-000-0076-4
43. SMD Microarray Links: Software & Tools. [http://genome-www5.stanford.edu/restech.shtml]
44. Eisen MB, Spellman PT, Brown PO, Botstein D: Cluster analysis and display of genome-wide expression patterns. Proc Natl Acad Sci USA. 1998, 95: 14863-14868. 10.1073/pnas.95.25.14863. DOI: 10.1073/pnas.95.25.14863
45. Rozen S, Skaletsky HJ: Primer3 on the WWW for general users and for biologist programmers. In Bioinformatics Methods and Protocols: Methods in Molecular Biology. Edited by: Krawetz S, Misener S. 2000, Totowa, NJ: Humana Press, 365-386.
46. Livak KJ, Schmittgen TD: Analysis of relative gene expression data using real time quantitative PCR and the 2-ΔΔ Ct method. Methods. 2001, 25: 402-408. 10.1006/meth.2001.1262. DOI: 10.1006/meth.2001.1262