Sequential subtractive approach facilitates identification of differentially expressed genes

Plant Physiology and Biochemistry

Volumn 40, Issue 4, 2002, Pages 307-312

  Nakata, Paul A ^a   McConn, Michele M ^a  

^a BAYLOR COLLEGE OF MEDICINE   (United States)

Author keywords

Calcium oxalate; Calcium oxalate defective; Cod; GFP; Green fluorescent protein; Medicago truncatula; SH; SSH; Subtractive hybridization; Suppression subtractive hybridization

Indexed keywords

GADUS MORHUA; MEDICAGO; MEDICAGO TRUNCATULA;

EID: 0037934844     PISSN: 09819428     EISSN: None     Source Type: Journal    
DOI: 10.1016/S0981-9428(02)01380-3     Document Type: Article

References (23)

1. Barnabas A.D., Arnott H.J. Calcium oxalate crystal formation in the bean (Phaseolus vulgaris L.) seed coat. Bot. Gaz. 151:1990;331-341.
2. Barr F.G., Emanuel B.S. Application of a subtraction hybridization technique involving photoactivatable biotin and organic extraction to solution hybridization analysis of genomic DNA. Anal. Biochem. 186:1990;369-373.
3. Davies C., Robinson S.P. Differential screening indicates a dramatic change in mRNA profiles during grape berry ripening. Cloning and characterization of cDNAs encoding putative cell wall and stress response proteins. Plant Physiol. 122:2000;803-812.
4. Diatchenko L., Lau Y.F.C., Campbell A.P., Chenchik A., Moqadam F., Huang B., Lukyanov S., Lukyanov K., Gurskaya N., Sverdlov E.D., Siebert P.D. Suppression subtractive hybridization: a method for generating differentially regulated or tissue-specific cDNA probes and libraries. Proc. Natl. Acad. Sci. USA. 93:1996;6025-6030.
5. Duguid J.R. Library subtraction of in vitro cDNA libraries to identify differentially expressed genes in scrapie infection. Nucleic Acids Res. 18:1989;2789.
6. Franceschi V.R. Calcium oxalate formation is a rapid and reversible process in Lemna minor L. Protoplasma. 148:1989;130-137.
7. Fuchs B., Zhang K., Bolander M.E., Sarkar G. Identification of differentially expressed genes by mutually subtracted RNA fingerprinting. Anal. Biochem. 286:2000;91-98.
8. Geng M., Wallrapp C., Müller-Pillasch F., Frohme M., Hoheisel J.D., Gress T.M. Isolation of differentially expressed genes by combining representational difference analysis (RDA) and cDNA library arrays. BioTechniques. 25:1998;434-438.
9. Gurskaya N.G., Diatchenko L., Chenchik A., Siebert P.D., Khaspekov G.L., Lukyanov K.A., Vagner L.L., Ermolaeva O.D., Lukyanov S.A., Sverdlov E.D. Equalizing cDNA subtraction based on selective suppression of polymerase chain reaction: cloning of Jurkat cell transcripts induced by phytohemaglutinin and phorbol 12-myristate 13-acetate. Anal. Biochem. 240:1996;90-97.
10. Horner H.T., Wagner B.L. Calcium oxalate formation in higher plants. Khan S.R. Calcium Oxalate in Biological Systems. 1995;53-72 CRC Press, Boca Raton.
11. Hubank M., Schatz D.G. Identifying differences in mRNA expression by representational difference analysis of cDNA. Nucleic Acids Res. 22:1994;5640-5648.
12. Jiang H., Kang D.C., Alexandre D., Fisher P.B. RaSH, a rapid subtraction hybridization approach for identifying and cloning differentially expressed genes. Proc. Natl. Acad. Sci. USA. 97:2000;12684-12689.
13. Kim S., Zeller K., Dang C.V., Sandgren E.P., Lee L.A. A strategy to identify differentially expressed genes using representational difference analysis and cDNA arrays. Anal. Biochem. 288:2001;141-148.
14. Kuhn E. From library screening to microarray technology: strategies to determine gene expression profiles and to identify differentially regulated genes in plants. Ann. Botany. 87:2001;139-155.
15. Liang P., Pardee A.B. Differential display of eukaryotic messenger RNA by means of the polymerase chain reaction. Science. 257:1992;967.
16. Lisitsyn N., Lisitsyn N., Wigler M. Cloning the differences between two complex genomes. Science. 259:1993;946.
17. Lockhart D.J., Winzeler E.A. Genomics, gene expression and DNA arrays. Nature. 405:2000;827.
18. Nakata P.A., McConn M.M. Isolation of Medicago truncatula mutants defective in calcium oxalate crystal formation. Plant Physiol. 124:2000;1097-1104.
19. Pardinas J.R., Combates N.J., Prouty S.M., Stenn K.S., Parimoo S. Differential subtraction display: A unified approach for isolation of cDNAs from differentially expressed genes. Anal. Biochem. 257:1998;161-168.
20. von Stein O.D., Thies W.G., Hofmann M. A high throughput screening for rarely transcribed differentially expressed genes. Nucleic Acids Res. 25:1997;2598-2602.
21. Wang Z., Brown D.D. A gene expression screen. Proc. Natl. Acad. Sci. USA. 88:1991;11505-11509.
22. Webb M.A. Cell-mediated crystallization of calcium oxalate in plants. Plant Cell. 11:1999;751.
23. Zhu F., Yan W., Zhao Z.L., Chai Y.B., Lu F., Wang Q., Peng W.D., Yang A.G., Wang C.J., Improved. PCR-based subtractive hybridization strategy for cloning differentially expressed genes. BioTechniques. 29:2000;310-313.