Identification of fungal ( Magnaporthe grisea) stress-induced genes in wild rice ( Oryza minuta)

• Published in: Plant cell reports 2004-03, Vol.22 (8), p.599-607
• Main Authors: Shim, K S, Cho, S K, Jeung, J U, Jung, K W, You, M K, Ok, S H, Chung, Y S, Kang, K H, Hwang, H G, Choi, H C, Moon, H P, Shin, J S
• Format: Article
• Language: English
• Subjects: Blotting, Northern - methods; DNA, Fungal - genetics; DNA, Plant - genetics; Expressed Sequence Tags; Gene expression; Gene Expression Profiling; Gene Library; Genes, Plant - physiology; Magnaporthe - genetics; Magnaporthe - pathogenicity; Magnaporthe grisea; Oligonucleotide Array Sequence Analysis; Oryza - genetics; Oryza - microbiology; Oryza minuta; Sequence Alignment; Sequence Analysis, DNA
• ISSN: 0721-7714; 1432-203X
• DOI: 10.1007/s00299-003-0742-2

To identify fungal stress-related genes in wild rice, Oryza minuta, we constructed a subtracted library using suppression subtractive hybridization in combination with mirror orientation selection. DNA chips containing 960 randomly selected cDNA clones were applied by reverse Northern analysis to eliminate false positive clones from the library and to prescreen differentially expressed genes. In total, 377 cDNA clones were selected on the basis of their signal intensities and expression ratios. Sequence analyses of these 377 cDNA fragments revealed that 180 of them (47.7%) represented unique genes. Of these 180 cDNAs, 89 clones (49.6%) showed significant homologies to previously known genes, while the remaining 91 did not match any known sequences. The putative functions of the 180 unique ESTs were categorized by aligning them with MIPS data. They were classified into seven different groups using microarray data-derived expression patterns and verified by Northern blotting.