Gene expression profiling of single epidermal, basal and trichome cells of Arabidopsis thaliana

Journal of Plant Physiology

Volumn 165, Issue 14, 2008, Pages 1530-1544

  Lieckfeldt, Elke ^a   Simon Rosin, Ulrike ^a   Kose, Frank ^a   Zoeller, Daniela ^a   Schliep, Martin ^a   Fisahn, Joachim ^a  

^a MAX PLANCK INSTITUTE OF MOLECULAR PLANT PHYSIOLOGY   (Germany)

Author keywords

Arabidopsis; Basal cell; Gene expression profiling; Single cell sampling; Trichome

Indexed keywords

ARABIDOPSIS; ARABIDOPSIS THALIANA;

EID: 50449088361     PISSN: 01761617     EISSN: None     Source Type: Journal    
DOI: 10.1016/j.jplph.2007.06.017     Document Type: Article

References (74)

1. Agrawal A. Benefits and costs of induced plant defence for Lepidium virginicum Brassicaceae. Ecology 81 (2000) 1804-1813
2. Aharoni A., and Vorst O. DNA microarrays for functional plant genomics. Plant Mol Biol 48 (2001) 99-118
3. Alba R., Fei Z., Payton P., Liu Y., Moore S.L., Debbie P., et al. ESTs, cDNA microarrays, and gene expression profiling: tools for dissecting plant physiology and development. Plant J 39 (2004) 697-714
4. Axelos M, Curie C, Liboz T, Bardet C, Atanassova R, Chaubet N, et al. Regulation of expression of the gene family encoding the Arabidopsis thaliana translation elongation factor EF-1-alpha. In: Plant sciences today, First general colloquium on plant sciences 25. Series Information: Colloques de l'INRA, Vol. 59, 1991.
5. Belyavsky A., Vinogradova T., and Rajewsky K. PCR based cDNA library construction; general cDNA libraries at the level of a few cells. Nucleic Acid Res 17 (1989) 2919-2932
6. Brady G. Expression profiling of single mammalian cells - small is beautiful. Yeast 17 (2000) 211-217
7. Brandt S., Kehr J., Walz C., Imlau A., Willmitzer L., and Fisahn J. A rapid method for detection of plant gene transcripts from single epidermal, mesophyll and companion cells of intact leaves. Plant J 20 (1999) 245-250
8. Brandt S., Kloska S., Altmann T., and Kehr J. Using array hybridization to monitor gene expression at the single cell level. J Exp Bot 53 (2002) 2315-2323
9. Chang P.W., Tsui S.K., Liew C., Lee C.C., Waye M.M., and Fung K.P. Isolation, characterization, and chromosomal mapping of a novel cDNA clone encoding human selenium binding protein. J Cell Biochem 64 (1997) 217-224
10. Chen G., Wang H., Miller C.T., Thomas D.G., Gharib T.G., Misek D.E., et al. Reduced selenium-binding protein 1 expression is associated with poor outcome in lung adenocarcinomas. J Pathol 202 (2004) 321-329
11. Cobbett C.S. Phytochelatins and their roles in heavy metal detoxification. Plant Physiol 123 (2000) 825-832
12. Dangl J., and Jones J.D.G. Plant pathogens and integrated defense responses to infection. Nature 411 (2001) 833
13. DeRisi J.L., Iyer V.R., and Brown P.O. Exploring the metabolic and genomic control of gene expression on a genomic scale. Science 278 (1997) 680-686
14. Dhankher O.P., Rosen B.P., Shi J., Salt D., Senecoff J.F., Sashti N.A., et al. Engineering tolerance and hyperaccumulation of arsenic in plants by combining arsenate reductase and gamma-glutamylcysteine synthetase expression. Nat Biotechnol 20 (2002) 1140-1145
15. Dulac C., and Axel R. A novel familiy of genes encoding putative pheromone receptors in mammals. Cell 83 (1995) 195-206
16. Eberwine J., Yeh H., Miyashiro K., Cao Y., Nair S., Finnell R., et al. Analysis of gene expression in single live neurons. Proc Natl Acad Sci USA 89 (1992) 3010-3014
17. Eisen M.B., Spellman P.T., Brown P.O., and Botstein D. Cluster analysis and display of genome-wide expression patterns. Proc Natl Acad Sci USA 9 (1998) 14863-14868
18. Esau K. Anatomy of seed plants. 2nd ed (1977), Wiley, New York
19. Feldman A.L., Costouros N.G., Wang E., Qian M., Marincola F.M., Alexander H.R., et al. Advantages of mRNA amplification for microarray analysis. Biotechniques 33 (2002) 906-914
20. Flemetakis E., Agalou A., Kayroulakis N., Dimou M., Martsikovskava A., Slater H.P., et al. Lotus japonicus gene Ljsbp is highly conserved among plants and animals and encodes a homologue to the mammalian selenium-binding proteins. Plant Microbe Int 15 (2001) 313-322
21. Foley R.C., and Singh K.B. Isolation of Vicia faba metallothionein-like gene: expression in foliar trichomes. Plant Mol Biol 26 (1994) 435-444
22. Fricke W., Hinde P., Leigh R.A., and Tomos A.D. Vacuolar solutes in the upper epidermis of barley leaves. Intercellular differences follow patterns. Planta 196 (1995) 40-49
23. Glanzer J.G., and Eberwine J.H. Expression profiling of small cellular samples in cancer: less is more. Br J Cancer 90 (2004) 1111-1114
24. Glover B.J. Differentiation in plant epidermal cells. J Exp Bot 51 (2000) 497-505
25. Gotor C., Cejudo F.J., Barroso C., and Vega J.M. Tissue-specific expression of ATCYS-3A, a gene encoding the cytosolic isoform of O-acetylserine thiol lyase in Arabidopsis. Plant J 11 (1997) 347-352
26. Guo W., Bundithya W., and Goldsbrough P.B. Characterization of the Arabidopsis metallothionein gene family: tissue-specific expression and induction during senescence and in response to copper. New Phytol 159 (2003) 369-381
27. Gutierrez-Alcala G., Gotor C., Meyer A.J., Fricker M., Vega J.M., and Romero L.C. Glutathione biosynthesis in Arabidopsis trichome cells. Proc Natl Acad Sci USA 97 (2000) 11108-11113
28. Hasty J., McMillan D., Isaacs F., and Collins J.J. Computational studies of gene regulatory networks: in numero molecular biology. Nat Rev Gen 2 (2001) 268-279
29. Horling F., Lamkemeyer P., König J., Finkemeier I., Baier M., Kandlbinder A., et al. Divergent light-, ascorbate- and oxidative stress-dependent regulation of expression of the peroxiredoxin gene family in Arabidopsis thaliana. Plant Physiol 131 (2003) 317-325
30. Howden R., Andersen C.R., Goldsbrough P.B., and Cobbett C.S. A cadmium-sensitive, glutathione-deficient mutant of Arabidopsis thaliana. Plant Physiol 107 (1995) 1067-1073
31. Howden R., Goldsbrough P.B., Andersen C.R., and Cobbett C.S. Cadmium-sensitive cad1 mutants of Arabidopsis thaliana are phytochelatin deficient. Plant Physiol 107 (1995) 1059-1066
32. Hülskamp M. Plant trichomes: a model for cell differentiation. Mol Cell Biol 5 (2004) 471-480
33. Hülskamp M., Misera S., and Jurgens G. Genetic dissection of trichome cell-development in Arabidopsis. Cell 76 (1994) 555-566
34. Kamme F., Salunga R., Yu J., Tran D.T., Zhu J., Luo L., et al. Single-cell microarray analysis in hippocampus CA1: demonstration and validation of cellular heterogeneity. J Neurosci 23 (2003) 3607-3615
35. Karrer E.E., Lincoln J.E., Hogenhout S., Bennet A.B., Bostock R.M., Martineau B., et al. In situ isolation of mRNA from individual plant cells: creation of cell specific cDNA libraries. Proc Natl Acad Sci USA 92 (1995) 3814-3818
36. Kehr J. High resolution spatial analysis of plant systems. Curr Opin Plant Biol 4 (2001) 197-201
37. Kelsey R.G. Glandular trichomes - a helpful taxonomic character for Artemisia-Nova Black Sagebrush. J Range Manage 37 (1984) 370-372
38. Keltjens W.G., and Vanbeusichem M.L. Phytochelatins as biomarkers for heavy metal stress in maize Zea mays L and wheat Triticum aestivum L - combined effects of copper and cademium 203 (1998) 119-126
39. Kliebenstein D.J., Monde R.A., and Last R.L. Superoxide dismutase in Arabidopsis: an eclectic enzyme family with disparate regulation and protein localization. Plant Physiol 118 (1998) 637-650
40. Koroleva O.A., Farrar J.F., Tomos A.D., and Pollock C.J. Carbohydrates in individual cells of epidermis, mesophyll and bundle sheath in barley leaves with changed export or photosynthetic rate. Plant Physiol 118 (1998) 1525-1532
41. Küpper H., Lombi E., Zhao F.J., and McGrath S.T. Cellular compartmentation of cadmium and zinc in relation to other elements in the hyperaccumulator Arabidopsis halleri. Planta 212 (2000) 75-84
42. Lambolez B., Audinat E., Bochet P., Crepel F., and Rossier J. AMPA receptor subunits expressed by single Purkinje cells. Neuron 9 (1992) 247-258
43. Larkin J.C., Walker J.D., Bolognesi-Winfield A.C., Gray J.C., and Walker A.R. Allele-specific interactions between ttg and gl1 during trichome development in Arabidopsis thaliana. Genetics 151 (1999) 1591-1604
44. Lemaire S., Keryer E., Stein M., Schepens I., Isskidis-Bourguet E., Gerard-Hirne C., et al. Heavy-metal regulation of thioredoxin gene expression in Chlamydomonas reinhardtii. Plant Physiol 120 (1999) 773-778
45. Leonhardt N., Kwak J., Robert N., Waner D., Leonhardt G., and Schroeder J. Microarray expression analyses of Arabidopsis guard cells and isolation of a recessive abscisic acid hypersensitive protein phosphatase 2C mutant. Plant Cell 16 (2004) 561-596
46. Levsky J.M., Shenoy S.M., Pezo R.C., and Singer R.H. Single cell gene expression profiling. Science 297 (2002) 836-840
47. Marks M.D. Molecular genetic analysis of trichome development in Arabidopsis. Annu Rev Plant Physiol Plant Mol Biol 48 (1997) 137-163
48. Mauricio R. Costs of resistance to natural enemies in field populations of the annual plant Arabidopsis thaliana. Am Nat 151 (1998) 20-28
49. Meagher R.B. Phytoremediation of toxic elemental and organic pollutants. Curr Opin Plant Biol 3 (2000) 153-162
50. Melaragno J.E., Mehrotra B., and Coleman A.W. Relationship between endopolyplody and cell size in epidermal tissue of Arabidopsis. Plant Cell 5 (1993) 1661-1668
51. Munos S., Cazettes C., Fizames C., Gaymard F., Tillard P., Lepetit M., et al. Transcript profiling in the chl1-5 mutant of Arabidopsis reveals a role of the nitrate transporter NRT1.1 in the regulation of another nitrate transporter, NRT2.1. Plant Cell 16 (2004) 2433-2447
52. Nadeau J.A., and Sack F.D. Control of stomatal distribution on the Arabidopsis leaf surface. Science 296 (2002) 1697-1700
53. Nakazono M., Qiu F., Borsuk L.A., and Schnable P.S. Laser-capture microssection, a tool for the global analysis of gene expression in specific plant cell types: identification of genes expressed differentially in epidermal cells or vascular tissues of maize. Plant Cell 15 (2003) 583-596
54. Newman T., Debruijn F.J., Green P., Keegstra K., Kende H., McIntosh L., et al. Genes galore: a summary of the methods for accessing the results of large scale partial sequencing of anonymous Arabidopsis thaliana cDNA clones. Plant Physiol 106 (1994) 1241-1255
55. Oppenheimer D.G., Herman P.L., Sivakumaran S., Esch J., and Marks M.D. A myb gene required for leag trichome differentiation in Arabidopsis is expressed in stipules. Cell 67 (1991) 483-493
56. Osada T., Uehara H., Kim H., and Ikai A. mRNA analysis of single living cells. J Nanobiotechnol 1 (2003) 2
57. Persson A.E., Ling G., Williams C., Bäckvall H., Ponten J., Ponten F., et al. Analysis of p53 mutations in single cells obtained from histological tissue sections. Anal Biochem 287 (2000) 25-31
58. Phillips J., and Eberwine J.H. Antisense RNA amplification: a linear amplification method for analysing the mRNA population from single living cells. Methods 10 (1996) 283-288
59. Ponten F., Williams C., Ling G., Ahmadian A., Nister M., Lundeberg J., et al. Genomic analysis of single cells from human basal cell cancer using laser-assisted capture microscopy. Mutat Res 382 (1997) 45-55
60. Roberts M.R., Salinas J., and Collinge D.B. 14-3-3 proteins and the response to abiotic and biotic stress. Plant Mol Biol 1031 (2002) 1031-1039
61. Schulze A., and Downward J. Navigating gene expression using microarrays - a technology review. Nat Cell Biol 3 (2001) 190-195
62. Tan-Kristanto A., Hoffmann A., Woods R., Batterham P., Cobbett C., and Sinclair C. Translational asymmetry as a sensitive indicator of cadmium stress in plants: a laboratory test with wild type and mutant Arabidopsis thaliana. New Phytol 159 (2003) 471-477
63. Tanabe Y., and Jessell T.M. Diversity and pattern in the developing spinal cord. Science 274 (1996) 1115-1123
64. Tietjen I., Rihel J.M., Cao Y., Koentges G., Zakhary L., and Dulac C. Single-cell transcriptional analysis of neuronal progenitors. Neuron 38 (2003) 161-175
65. Tamayo P., Slonim D., Mesirov J., Zhu Q., Kitareewan S., Dmitrovsky E., et al. Interpreting patterns of gene expression with self-organizing maps: methods and application to hematopoietic differentiation. Proc Natl Acad Sci USA 96 (1999) 2907-2912
66. Thimm O., Essigmann B., Kloska S., Altmann T., and Buckhout T.J. Response of Arabidopsis thaliana to Fe deficiency stress as revealed by microarray hybridization. Plant Physiol 115 (2001) 817-826
67. Tomos A.D., and Leigh R.A. The pressure probe: a versatile tool in plant cell physiology. Ann Rev Plant Physiol Plant Mol Biol 50 (1999) 447-472
68. Van Camp W., Bowler C., Villarroel R., Tsang E.W.T., Van Montagu M., and Inze D. Characterization of iron superoxide dismutase cDNAs from plants obtained by genetic complementation in Escherichia coli. Proc Natl Acad Sci USA 87 (1990) 9903-9907
69. Wada T., Tachibana T., Shimura Y., and Okada K. Epidermal cell differentiation in Arabidopsis determined by a myb homolog, CPD. Science 277 (1997) 1113-1116
70. Wienkoop S., Zoeller D., Ebert B., Simon-Rosin U., Fisahn J., Glinski M., et al. Cell-specific protein profiling in Arabidopsis thaliana trichomes identification of trichome-located proteins involved in sulfur metabolism and detoxifcation. Phytochemistry 65 (2004) 1641-1649
71. Xiang C., Werner B.L., Christensen E.M., and Oliver D.J. The biological functions of glutathione revisited in Arabidopsis transgenic plants with altered glutathione levels. Plant Physiol 126 (2001) 564-574
72. Yeung K.Y., Haynor D.R., and Ruzzo W.L. Validating clustering for gene expression data. Bioinformatics 17 (2001) 309-318
73. Ying S.Y., Lui H.M., Lin S.L., and Chuong C.M. Generation of full length cDNA library from single human prostate cancer cells. Biotechniques 27 (1999) 410-412
74. Zhou J., and Goldsbrough J. Functional homologs of fungal metallothionein genes from Arabidopsis. Plant Cell 6 (1994) 875-884