TOLL AND INTERLEUKIN-1 RECEPTOR (TIR) DOMAINS IN Cajanus cajan: AN In-Silico PERSPECTIVE

SINGH V.K.¹, SINGH A.K.², SINGH N.K.³, SINGH B.D.^4
1School of Biotechnology, Faculty of Science, Banaras Hindu University, Varanasi-221 005, UP, India.
²Department of Genetics and Plant Breeding, Institute of Agricultural Sciences, Banaras Hindu University, Varanasi-221 005, UP, India.
³National Research Center on Plant Biotechnology, Indian Agricultural Research Institute, New Delhi-110 012, India.
⁴School of Biotechnology, Faculty of Science, Banaras Hindu University, Varanasi-221 005, UP, India.

Received : 07-11-2013     Accepted : 03-12-2013     Published : 27-12-2013
Volume : 1     Issue : 1       Pages : 1 - 8
World Res J Bioinformatics 1.1 (2013):1-8

Conflict of Interest : None declared

Toll and interleukin-1 receptor (TIR) domain is associated with plant disease resistance (R) proteins known to play important role in plant immunity by regulating defense responses against invading pathogens. To verify this, we identified the candidate genes associated with TIR signature from pigeonpea (Cajanus cajan). Using various in silico techniques 103 genes were successfully identified from the available datasets. Cis-acting element analysis revealed that the identified genes have hormone responsive elements, seed-specific elements and biotic and abiotic stress specific elements. The hormone response elements included gibberellin, salicylic acid, abscisic acid, MeJA, ethylene and auxin response elements, Skn-1, GCN4 and RY elements are seed-specific and impart endosperm specific expression. In case of biotic and abiotic stress elements, TC-rich repeats are involved in defense and stress response, WUN-motif is concern with wound response, HSE and MBS for heat and drought response, respectively, while Box W1 and AT-rich sequences function in fungal elicitor elements for maximal elicitor-mediated activation. In silico expression studies suggest that 5 genes seem to have major roles in seed developmental stages during 10DAF (Days after Flowering) to 42DAF based on pod length and seed size. TIR domain consistency was further verified in 38 cultivars of C. cajan. PCR products of TIR domain from one candidate gene (AFSP01036179.1_ 5692_ 6123) amplified from three cultivars BSMR-846, MAL-13 and Bahar were successfully deposited with accession numbers JX667781.1, JX667782.1 and JX667783.1, respectively. Structural analysis of this TIR domain with PMDB number PM0078097 suggested that this domain is mainly involved in signaling and auto regulation with respect to plant immunity.