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Differential transcript accumulation in chickpea during early phases of compatible interaction with a necrotrophic fungus Ascochyta rabiei

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Abstract

The initial phases of the disease establishment are very crucial for the compatible interactions. Pathogens must overcome the responses generated by the host for the onset of disease invasion. The compatible interaction is inadequately represented in plant-pathogen interaction studies. To gain broader insight into the early responses elicited by chickpea blight fungus Ascochyta rabiei during compatible interaction; we isolated early responsive genes of chickpea using PCR based suppression subtractive hybridization (SSH) strategy. We obtained ~250 unique genes after homology search and redundancy elimination. Based on their potential cellular functions, these genes were broadly classified into eleven different categories viz. stress, signaling, gene regulation, cellular metabolism and genes of unknown functions. Present study revealed few unexpected genes which have a possible role in induced immunity and disease progression. We employed macroarray, northern blot, real-time PCR and cluster analysis to develop transcript profiles. Most of the genes analyzed were early induced and were transcriptionally upregulated upon 24 h post inoculation. Our approach has rendered the isolation of early responsive genes involved in signaling and regulation of metabolic changes upon fungal infection. The information obtained will help to dissect the molecular mechanisms during compatible chickpea–Ascochyta interactions.

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Acknowledgments

This work was supported by the research grant provided by Department of Biotechnology, Government of India and National Institute of Plant Genome Research, New Delhi. Authors acknowledge Dr. Birendra Singh (Indian Agricultural Research Institute) and Mr. Ashok Kumar (National Institute of Plant Genome Research) for technical help.

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Correspondence to Praveen Kumar Verma.

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Jyothi Reddy Cheruku, Kamal Kumar, Saurabh Yadav and Archana Singh have equally contributed in this work.

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Table S1 List of primer sequences used for quantitative real time PCR (DOC 134 kb)

11033_2011_1255_MOESM2_ESM.doc

Table S2 Functional annotation of the unigenes from SSH library. The cDNA sequences of all unigenes obtained in 24 h and 3 h SSH libraries were submitted to the GenBank database and the assigned Accession no. was mentioned. BlastX searches were conducted to determine homologous genes and the putative function. BlastN was performed for cDNAs which did not show any significant homology in BlastX. GenBank Accession no. marked with (*) are cDNAs that showed significant homology in BlastN (e-value cutoff ≥ 1e-10) instead of BlastX (e-value cutoff ≥ 1e-5) (DOC 265 kb)

Table S3 Macroarray analysis of genes differentially expressed during Ascochyta infection (DOC 126 kb)

Table S4 Expression ratios of selected genes estimated by quantitative real-time PCR (DOC 247 kb)

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Jaiswal, P., Cheruku, J.R., Kumar, K. et al. Differential transcript accumulation in chickpea during early phases of compatible interaction with a necrotrophic fungus Ascochyta rabiei . Mol Biol Rep 39, 4635–4646 (2012). https://doi.org/10.1007/s11033-011-1255-7

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