Proteome analysis in plant stress research

Czech Journal of Genetics and Plant Breeding

Volumn 43, Issue 1, 2007, Pages 1-6

  Vítámvás, Pavel ^a,b   Kosová, Klára ^a   Prášil, Ilja T ^a  

^a CROP RESEARCH INSTITUTE   (Czech Republic)

^b Vyzkumny Ustav Rostlinne Vyroby   (Czech Republic)

Author keywords

Mass spectrometry; Plant proteomics; Two dimensional gel electrophoresis

Indexed keywords

EID: 34247639372     PISSN: 12121975     EISSN: None     Source Type: Journal    
DOI: 10.17221/1903-cjgpb     Document Type: Review

References (50)

1. AMME S., MATROS A., SCHLESIER B., MOCK H.P. (2006): Proteome analysis of cold stress response in Arabidopsis thaliana using DIGE-technology. Journal of Experimental Botany, 57: 1537-1546.
2. BAE M.S., CHO E.J., CHOI E.Y., PARK O.K. (2003) Analysis of the Arabidopsis nuclear proteome and its response to cold stress. Plant Journal, 36: 652-663.
3. CANOVAS F.M., DUMAS-GAUDOT E., RECORBET G., JORRIN J., MOCK H.P., ROSSIGNOL M. (2004): Plant proteome analysis. Proteomics, 4: 285-298.
4. CAPUTO E., MOHARRAM R., MARTIN B.M. (2003): Methods for on-chip protein analysis. Analytical Biochemistry, 321: 116-124.
5. CHOI D.W., ZHU B., CLOSE T.J. (1999): The barley (Hordeum vulgare L.) dehydrin multigene family: sequences, allele types, chromosome assignments, and expression characteristics of 11 Dhn genes of cv Dicktoo. Theoretical and Applied Genetics, 98: 1234-1247.
6. CLOSE T.J. (1997): Dehydrins: A commonality in the response of plants to dehydration and low temperature. Physiologia Plantarum, 100: 291-296.
7. CLOSE T.J., MEYER N.C., RADIK J. (1995): Nucleotide-sequence of a gene encoding a 58.5-kilodalton barley dehydrin that lacks a serine tract. Plant Physiology, 107: 289-290.
8. COOPER B., ECKERT D., ANDON N.L., YATES J.R., HAYNES P.A. (2003): Investigative proteomics: Identification of an unknown plant virus from infected plants using mass spectrometry. Journal of American Society of Mass Spectrometry, 14: 736-741.
9. DENG Z.X., PANG Y.Z., KONG W.W., CHEN Z.H., WANG X.L., LIU X.J., PI Y., SUN X.F., TANG K.X. (2005): A novel ABA-dependent dehydrin ERD10 gene from Brassica napus. DNA Sequence, 16: 28-35.
10. ELEK G., LAPIS K. (2006): A path or a new road in laboratory diagnostics? Biological mass spectrometry: Facts and perspectives. Pathology and Oncology Research, 12: 179-183.
11. FOWLER S., THOMASHOW M.F. (2002): Arabidopsis transcriptome profiling indicates that multiple regulatory pathways are activated during cold acclimation in addition to the CBF cold response pathway. Plant Cell, 14: 1675-1690.
12. GEVAERT K., GOETHALS M., MARTENS L., VAN DAMME J., STAES A., THOMAS G.R., VANDEKERCKHOVE J. (2003): Exploring proteomes and analyzing protein processing by mass spectrometric identification of sorted N-terminal peptides. Nature Biotechnology, 21: 566-569.
13. GEVAERT K., VAN DAMME P., MARTENS L., VANDEKERCKHOVE J. (2005): Diagonal reverse-phase chromatography applications in peptide-centric proteomics: Ahead of catalogue-omics? Analytical Biochemistry, 345: 18-29.
14. GHESQUIERE B., VAN DAMME J., MARTENS L., VANDEKERCKHOVE J., GEVAERT K. (2006): Proteome-wide characterization of N-glycosylation events by diagonal chromatography. Journal of Proteome Research, 5: 2438-2447.
15. GULICK P.J., DROUIN S., YU Z.H., DANYLUK J., POISSON G., MONROY A.F., SARHAN F. (2005): Transcriptome comparison of winter and spring wheat responding to low temperature. Genome, 48: 913-923.
16. GYGI S.P., RIST B., GERBER S.A., TURECEK F., GELB M.H., AEBERSOLD R. (1999): Quantitative analysis of complex protein mixtures using isotope-coded affinity tags. Nature Biotechnology, 17: 994-999.
17. HAJÓS G., SZABO E., JANAKY T. (2004): Two-dimensional electrophoresis, MALDI-TOF MS and blotting for identification and characterisation of pathogenesis-related proteins in wheat cultivar. Chromatographia, 60: S257-S259.
18. HIRANO H., ISLAM N., KAWASAKI H. (2004): Technical aspects of functional proteomics in plants. Phytochemistry, 65: 1487-1498.
19. HOFFMANN-SOMMERGRUBER K. (2002): Pathogenesis-related (PR)-proteins identified as allergens. Biochemical Society Transactions, 30: 930-935.
20. IDEKER T., THORSSON V., RANISH J.A., CHRISTMAS R., BUHLER J., ENG J.K., BUMGARNER R., GOODLETT D.R., AEBERSOLD R., HOOD L. (2001): Integrated genomic and proteomic analyses of a systematically perturbed metabolic network. Science, 292: 929-934.
21. IMIN N., KERIM T., ROLFE B.G., WEINMAN J.J. (2004): Effect of early cold stress on the maturation of rice anthers. Proteomics, 4: 1873-1882.
22. JONES A.M.E., BENNETT M.H., MANSFIELD J.W., GRANT M. (2006): Analysis of the defence phosphoproteome of Arabidopsis thaliana using differential mass tagging. Proteomics, 6: 4155-4165.
23. KAWAMURA Y., UEMURA M. (2003): Mass spectrometric approach for identifying putative plasma membrane proteins of Arabidopsis leaves associated with cold acclimation. Plant Journal, 36: 141-154.
24. KIRCH H.H., VAN BERKEL J., GLACZINSKI H., SALAMINI F., GEBHARDT C. (1997): Structural organization, expression and promoter activity of a cold-stress-inducible gene of potato (Solanum tuberosum L). Plant Molecular Biology, 33: 897-909.
25. KOSOVÁ K., VÍTÁMVÁS P., PRÁŠIL I.T. (2007): The role of dehydrins in plant response to cold. Biologia Plantarum. (accepted)
26. KURAMITSU Y., NAKAMURA K. (2006): Proteomic analysis of cancer tissues: Shedding light on carcinogenesis and possible biomarkers. Proteomics, 6: 5650-5661.
27. LANG V., PALVA E.T. (1992): The expression of a rab-related gene, rab18, is induced by abscisic-acid during the cold-acclimation process of Arabidopsis thaliana (L) Heynh. Plant Molecular Biology, 20: 951-962.
28. MANN M., JENSEN O.N. (2003): Proteomic analysis of post-translational modifications. Natural Biotechnology, 21: 255-261.
29. MARRA R., AMBROSINO P., CARBONE V., VINALE F., WOO S.L., RUOCCO M., CILIENTO R., LANZUISE S., FERRAIOLI S., SORIENTE I., GIGANTE S., TURRA D., FOGLIANO V., SCALA F., LORITO M. (2006): Study of the three-way interaction between Trichoderma atroviride, plant and fungal pathogens by using a proteomic approach. Current Genetics, 50: 307-321.
30. MARTENS L., VAN DAMME P., VAN DAMME J., STAES A., TIMMERMAN E., GHESQUIERE B., THOMAS G.R., VANDEKERCKHOVE J., GEVAERT K. (2005): The human platelet proteome mapped by peptide-centric proteomics: A functional protein profile. Proteomics, 5: 3193-3204.
31. MCDONALD W.H., OHI R., MIYAMOTO D.T., MITCHISON T.J., YATES J.R. (2002): Comparison of three directly coupled HPLC MS/MS strategies for identification of proteins from complex mixtures: single-dimension LC-MS/MS, 2-phase MudPIT, and 3-phase MudPIT. International Journal of Mass Spectrometry, 219: 245-251.
32. NDIMBA B.K., CHIVASA S., SIMON W.J., SLABAS A.R. (2005): Identification of Arabidopsis salt and osmotic stress responsive proteins using two-dimensional difference gel electrophoresis and mass spectrometry. Proteomics, 5: 4185-4196.
33. O'FARRELL P.H. (1975): High resolution two-dimensional electrophoresis of proteins. Journal of Biological Chemistry, 250: 4007-4021.
34. ONG S.E., BLAGOEV B., KRATCHMAROVA I., KRISTENSEN D.B., STEEN H., PANDEY A., MANN M. (2002): Stable isotope labeling by amino acids in cell culture, SILAC, as a simple and accurate approach to expression proteomics. Molecular and Cellular Proteomics, 1: 376-386.
35. PAN S.Q., CARTER C.J., RAIKHEL N.V. (2005): Understanding protein trafficking in plant cells through proteomics. Expert Review of Proteomics, 2: 781-792.
36. RENAUT J., LUTTS S., HOFFMANN L., HAUSMAN J.F. (2004): Responses of poplar to chilling temperatures: Proteomic and physiological aspects. Plant Biology, 6: 81-90.
37. RENAUT J., HAUSMAN J.F., WISNIEWSKI M.E. (2006): Proteomics and low-temperature studies: bridging the gap between gene expression and metabolism. Physiologia Plantarum, 126: 97-109.
38. ROSSIGNOL M., PELTIER J.B., MOCK H.P., MATROS A., MALDONADO A.M., JORRIN J.V (2006): Plant proteome analysis: A 2004-2006 update. Proteomics, 6: 5529-5548.
39. SCHAGGER H., VON JAGOW G. (1991): Blue native electrophoresis for isolation of membrane-protein complexes in enzymatically active form. Analytical Biochemistry, 199: 223-231.
40. SCHWEPPE R.E., HAYDON C.E., LEWIS T.S., RESING K.A., AHN N.G. (2003): The characterization of protein post-translational modifications by mass spectrometry. Accounts of Chemical Research, 36: 453-461.
41. SEKI M., NARUSAKA M., YAMAGUCHI- SHINOZAKI K., CARNINCI P., KAWAI J., HAYASHIZAKI Y., SHINOZAKI K. (2001): Arabidopsis encyclopaedia using full-length cDNAs and its application. Plant Physiology and Biochemistry, 39: 211-220.
42. STROHER E., DIETZ K.J. (2006): Concepts and approaches towards understanding the cellular redox proteome. Plant Biology, 8: 407-418.
43. TAYLOR N.L., HEAZLEWOOD J.L., DAY D.A., MILLAR A.H. (2005): Differential impact of environmental stresses on the pea mitochondrial proteome. Molecular and Cellular Proteomics, 4: 1122-1133.
44. THIELLEMENT H., ZIVY M., PLOMION C. (2002): Combining proteomic and genetic studies in plants. Journal of Chromatography B, 782: 137-149.
45. TONGE R., SHAW J., MIDDLETON B., ROWLINSON R., RAYNER S., YOUNG J., POGNAN F., HAWKINS E., CURRIE I., DAVISON M. (2001): Validation and development of fluorescence two-dimensional differential gel electrophoresis proteomics technology. Proteomics, 1: 377-396.
46. VAGUJFALVI A., CROSATTI C., GALIBA G., DUBCOVSKY J., CATTIVELLI L. (2000): Two loci on wheat chromosome 5A regulate the differential cold-dependent expression of the cor14b gene in frost-tolerant and frost-sensitive genotypes. Molecular and General Genetics, 263: 194-200.
47. VÍTÁMVÁS P., SAALBACH G., PRÁŠIL I. T., ČAPKOVÁ V., OPATRNÁ J., JAHOOR A. (2007): WCS120 protein family and proteins soluble upon boiling in cold-acclimated winter wheat. Journal of Plant Physiology. (in press)
48. WANG Y.J., ZHANG Z.G., HE X.J., ZHOU H.L., WEN Y.X., DAI J.X., ZHANG J.S., CHEN S.Y (2003): A rice transcription factor OsbHLH1 is involved in cold stress response. Theoretical and Applied Genetics, 107: 1402-1409.
49. WELLING A., RINNE P., VIHERA-AARNIO A., KONTUNEN-SOPPELA S., HEINO P., PALVA E.T. (2004): Photoperiod and temperature differentially regulate the expression of two dehydrin genes during overwintering of birch (Betula pubescens Ehrh.). Journal of Experimental Botany, 55: 507-516.
50. ZHU H., BILGIN M., BANGHAM R., HALL D., CASAMAYOR A., BERTONE P., LAN N., JANSEN R., BIDLINGMAIER S., HOUFEK T., MITCHELL T., MILLER P., DEAN R.A., GERSTEIN M., SNYDER M. (2001): Global analysis of protein activities using proteome chips. Science, 293: 2101-2105.