BMC Genomics 2009, 10:415 http://www.biomedcentral.com/1471-2164/10/415 Sambrook et al., 2001 [105]. After 2 hrs of prehybridiza- tion in 0.3 M Nacl, 5% formamide, 10% dextran sulfate and 1% SDS, at 42°C, the radiolabeled probe was added and hybridization was carried out at the same temperature for 16-18 h. After stringent washing, the blot was exposed to X ray film (Kodak, Rochester, NY). List of abbreviations EST: (Expressed sequence tags); SSR: (simple sequence repeats); SNP: (single nucleotide polymorphism); BLAST: (basic local alignment and search tool); KOG: (eukaryotic orthologous groups); TCA: (tricarboxylic acid cycle); ADH: (alcohol dehydrogenase); GAPDH: (glyceraldehyde3-phosphate dehydrogenase); PEP: (phosphoenol pyruvate); PGIP: (Polygalactouronase inhibiting proteins); PR: (pathogenesis related); NDK: (nucleoside diphosphate kinase); ROS: (reactive oxygen species); PAL: (phenyl ammonia lyase); SAUR: (small auxin up RNA); DRRG: (disease response regulated gene); (DHS): deoxyhypusine synthase; FDR: (false discovery rate); LOWESS: (locally weighted scatterplot smoothing). Authors' contributions NA, DG, AD, NC and SC designed the research. carried out plasmid isolation, sequencing, microarray experi- ments and all analysis. DG constructed the subtracted libraries, performed sequencing and RNA gel blot. PB and SB performed all in silico analysis. NA, PB and SB devel- oped the CaEST, CaUnigene and CaSNP databases. GN and MKM carried out plasmid isolation and sequencing. GN, and SC designed the microarray. NA, PB and SC analyzed the data. SC conceived the study and coordi- nated. NA, NC and SC wrote the manuscript. All authors have read and approved the final manuscript. Additional material Additional file 1 Annotation of CaEST contigs. Table showing summary of CaEST contigs including contig length, total and genotype specific ESTs in each contig and functional annotation based on BLASTX and BLASTN. Click here for file [http://www.biomedcentral.com/content/supplementary/1471- 2164-10-415-S1.pdf] Additional file 2 Annotation of CaEST singletons. Table showing Summary of CaEST singletons including their length and functional annotation based on BLASTX and BLASTN. Click here for file [http://www.biomedcentral.com/content/supplementary/1471- 2164-10-415-S2.pdf] Additional file 3 Functional class annotation of CaUnigenes. Table listing functional annotation and assignment of CaUnigenes into different functional classes using BLAST, GO, MetaCyc and COG. Click here for file [http://www.biomedcentral.com/content/supplementary/1471- 2164-10-415-S3.pdf] Additional file 4 Gene family identification. Table listing chickpea gene families identi- fied by single linkage clustering. Click here for file [http://www.biomedcentral.com/content/supplementary/1471- 2164-10-415-S4.pdf] Additional file 5 Genotype dependent CaSNP identification. Table listing identification of single nucleotide polymorphisms (SNPs) from chickpea genotypes. Click here for file [http://www.biomedcentral.com/content/supplementary/1471- 2164-10-415-S5.pdf] Additional file 6 Microarray analysis of CaESTs in resistant genotype. Table showing list of chickpea genes showing differential expression (upregulated and down- regulated) in response to Fusarium infection at 24 hrs post inoculation during incompatible interaction. Click here for file [http://www.biomedcentral.com/content/supplementary/1471- 2164-10-415-S6.pdf] Acknowledgements Authors thank Mr. Rajbir Singh for help in plasmid isolation, quality check and running part of the BLAST programme. Authors also thank Mr. Jasbeer Singh for illustrations and graphical representation in the manuscript. NA, DG, GN and MKM are the recipients of pre-doctoral fellowships from the Council of Scientific and Industrial Research (CSIR), Govt. of India. This work was supported by a grant from the Department of Biotechnology (DBT), Govt. of India, and a grant from National Institute of Plant Genome Research, New Delhi, India, to S.C. References 1. White JA, Todd J, Newman T, Focks N, Girke T, de Ilarduya M, Jawor- ski JG, Ohlrogge JB, Benning C: A new set of Arabidopsis expressed sequence tags from developing seeds. The meta- bolic pathway from carbohydrates to seed oil. Plant Physiol 2000, 124:1582-1594. 2. Ewing RM, Kahla AB, Poirot O, Lopez F, Audic S, Claverie JM: Large- scale statistical analyses of rice ESTs reveal correlated pat- terns of gene expression. Genome Res 1999, 9:950-959. 3. Jantasuriyarat C, Gowda M, Haller K, Hatfield J, Lu G, Stahlberg E, Zhou B, Li H, Kim H, Yu Y, Dean RA, Wing RA, Soderlund C, Wang GL: Large-scale identification of expressed sequence tags involved in rice and rice blast fungus interaction. Plant Physiol 2005, 138:105-115. 4. Ramírez M, Graham MA, Blanco-López L, Silvente S, Medrano-Soto A, Blair MW, Hernández G, Vance CP, Lara M: Sequencing and anal- ysis of common bean ESTs. Building a foundation for func- tional genomics. Plant Physiol 2005, 137:1211-1227. 5. Udall JA, Swanson JM, Haller K, Rapp RA, Sparks ME, Hatfield J, Yu Y, Wu Y, Dowd C, Arpat AB, et al.: A global assembly of cotton ESTs. Genome Res 2006, 16:441-450. Page 18 of 21 (page number not for citation purposes)