water-deficit stress- and red-rot-related genes in sugarcane

• Published in: Functional & integrative genomics 2010-05, Vol.10 (2), p.207-214
• Main Authors: Gupta, Vikrant, Raghuvanshi, Saurabh, Gupta, Ambika, Saini, Navin, Gaur, Anupama, Khan, M. S, Gupta, R. S, Singh, J, Duttamajumder, S. K, Srivastava, S, Suman, A, Khurana, Jitendra P, Kapur, Raman, Tyagi, Akhilesh K
• Format: Article
• Language: English
• Subjects: Animal Genetics and Genomics; Base Sequence; Biochemistry; Bioinformatics; Biological and medical sciences; Biomedical and Life Sciences; cDNA library; Cell Biology; Cluster Analysis; Colletotrichum - physiology; Colletotrichum falcatum; Deoxyribonucleic acid; Disease-related genes; DNA; EST; Expressed Sequence Tags; Fundamental and applied biological sciences. Psychology; Gene expression; Gene Expression Regulation, Plant; General aspects; Genes, Plant - genetics; Genomics; Kinetics; Life Sciences; Mathematics in biology. Statistical analysis. Models. Metrology. Data processing in biology (general aspects); Microbial Genetics and Genomics; Plant biology; Plant Diseases - genetics; Plant Diseases - microbiology; Plant Genetics and Genomics; Quantitative real-time PCR; Red-rot; Reverse Transcriptase Polymerase Chain Reaction; Saccharum - genetics; Sequence Analysis, DNA; Short Communication; Stress, Physiological - genetics; Sugarcane; Water - metabolism; Water-deficit stress-related genes
• ISSN: 1438-793X; 1438-7948
• DOI: 10.1007/s10142-009-0144-9

Sugarcane is an important international commodity as a valuable agricultural crop especially in developing countries. Sequencing was carried out to generate >35,000 expressed sequence tags (ESTs) from healthy as well as red-rot-infected tissue of Indian subtropical variety of sugarcane. Subsequent clustering with existing sugarcane ESTs in public databases identified 4,087 clusters, including 85 clusters that preferentially express upon Colletotrichum falcatum (red-rot) infection, which were previously unreported. Real-time reverse transcription-PCR profiling of selected EST clusters identified several sugarcane clusters that show differential expression in response to biotic and abiotic stress conditions. Twenty-five stress-related clusters showed >2-fold relative expression during water-deficit stress in sugarcane. Similarly, EST clusters could be identified, which exhibit association with red-rot disease when assessed in red-rot-susceptible and red-rot-resistant varieties of sugarcane. Such EST clusters are good candidates for in-depth analysis to elucidate stress-responsive pathways in sugarcane and facilitate genetic manipulation to tailor this crop for tolerance to various stresses.