Characterization and 3D structure prediction of chitinase induced in sugarcane during pathogenesis of Colletotrichum falcatum

Rahul, P. R.; Kumar, Vikas; Sathyabhama, M.; Viswanathan, R.; Sundar, A. Ramesh; Malathi, P.

doi:10.1007/s13562-013-0226-6

Cited by 15 publications

(16 citation statements)

References 36 publications

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“…Subsequent differential display (DD) RT-PCR, clearly established upregulation of potential defense relative transcripts like putative chitinase, glycine rich protein, 14-3-3 protein and xylanase inhibitor protein in sugarcane upon C. falcatum inoculation (Viswanathan 2012). Recently we found involvement of PR-protein gene chitinase and defense related transcription factors in conferring red rot resistance in sugarcane (Rahul et al 2013). In the present study, we employed suppression subtractive hybridization (SSH) to understand the interaction between sugarcane and C. falcatum in red rot resistant sugarcane cv.…”

Section: Introductionmentioning

confidence: 99%

Identification of Differentially Expressed Genes in Sugarcane During Pathogenesis of Colletotrichum falcatum by Suppression Subtractive Hybridization (SSH)

et al. 2015

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A suppression subtractive hybridization technique was used to identify differentially expressed genes in sugarcane in response to Colletotrichum falcatum, the fungal pathogen causing red rot in sugarcane. Messenger RNA (mRNA) samples collected from red rot resistant cv. Co 93009 at 6, 12, 24 and 48 h after pathogen challenge were pooled together and used as tester population. mRNA samples collected from red rot susceptible cv. CoC 671 at 6, 12, 24 and 48 h after pathogen challenge and control of samples of cv. Co 93009 and cv. CoC 671 were pooled together and used as the driver population. A forward subtraction enriched for differentially expressed ESTs in the resistant cultivar was carried out. At the end of subtraction, cloning and sequencing, 136 EST sequences were assembled into ten clusters/contigs. Based on TIGR homology search, the clusters were found to be involved in reactive oxygen species signaling, defense and the secretory pathway of plant innate immunity associated with hypersensitive response-mediated programmed cell death. Temporal gene expression pattern of the EST clusters by quantitative real time PCR revealed that, resistant cultivar had a higher level of gene expression than the susceptible cultivar in all the clusters till 48 h after pathogen inoculation. In conclusion, this study identified for the first time a set of differentially expressed EST clusters in red rot resistant sugarcane cultivar in response to C. falcatum infection.

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Section: Introductionmentioning

confidence: 99%

Identification of Differentially Expressed Genes in Sugarcane During Pathogenesis of Colletotrichum falcatum by Suppression Subtractive Hybridization (SSH)

et al. 2015

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“…In sugarcane, chitinase genes have been cloned and identified by their individual classes 22 33 34 . Ten nucleotide sequences of sugarcane chitinases are currently found in the GenBank database (GU219846.1, KF664180.1, KF279662.1, KF279661.1, EF123043.1, EU914816.1, EU914815.1, EF120468.1, EF113913.1, AF402937.1).…”

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confidence: 99%

“…Ten nucleotide sequences of sugarcane chitinases are currently found in the GenBank database (GU219846.1, KF664180.1, KF279662.1, KF279661.1, EF123043.1, EU914816.1, EU914815.1, EF120468.1, EF113913.1, AF402937.1). Among these, only three full-length chitinase genes, ScChi (KF664180), ScChi VII1 (KF279662) and ScChiB1 (EU914815.1) have been functionally analyzed 22 33 34 . A class III chitinase gene ScChi , highly expressed in sugarcane leaf and stem epidermal tissues, has been cloned and characterized 22 .…”

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confidence: 99%

Identification, Phylogeny and Transcript of Chitinase Family Genes in Sugarcane

Wang

et al. 2015

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Chitinases are pathogensis-related proteins, which play an important role in plant defense mechanisms. The role of the sugarcane chitinase family genes remains unclear due to the highly heterozygous and aneuploidy chromosome genetic background of sugarcane. Ten differentially expressed chitinase genes (belonging to class I~VII) were obtained from RNA-seq analysis of both incompatible and compatible sugarcane genotypes during Sporisorium scitamineum challenge. Their structural properties and expression patterns were analyzed. Seven chitinases (ScChiI1, ScChiI2, ScChiI3, ScChiIII1, ScChiIII2, ScChiIV1 and ScChiVI1) showed more positive with early response and maintained increased transcripts in the incompatible interaction than those in the compatible one. Three (ScChiII1, ScChiV1 and ScChiVII1) seemed to have no significant difference in expression patterns between incompatible and compatible interactions. The ten chitinases were expressed differentially in response to hormone treatment as well as having distinct tissue specificity. ScChiI1, ScChiIV1 and ScChiVII1 were induced by various abiotic stresses (NaCl, CuCl2, PEG and 4 °C) and their involvement in plant immunity was demonstrated by over-expression in Nicotiana benthamiana. The results suggest that sugarcane chitinase family exhibit differential responses to biotic and abiotic stress, providing new insights into their function.

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“…Preliminary studies conducted to elucidate the interaction between sugarcane and C. falcatum established that chitinases, thaumatin like proteins (TLPs) [14] and phytoalexins [15] accumulate in sugarcane tissues as a defence response against C. falcatum. RT-PCR profiling revealed the up regulation of chitinase B and metallothionein genes in red rot resistant cultivar [16]. DD-RT-PCR profiling of the interaction between sugarcane and C. falcatum in an invitro system revealed the upregulation of putative chitinase, glycine rich protein and 14-3-3-like protein in the suspension cells of red rot resistant cultivar [17].…”

Section: Introductionmentioning

confidence: 99%

Understanding sugarcane defence responses during the initial phase of Colletotrichum falcatum pathogenesis by suppression subtractive hybridization (SSH)

Sathyabhama

Viswanathan

Nandakumar

et al. 2015

Physiological and Molecular Plant Pathology

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Characterization and 3D structure prediction of chitinase induced in sugarcane during pathogenesis of Colletotrichum falcatum

Cited by 15 publications

References 36 publications

Identification of Differentially Expressed Genes in Sugarcane During Pathogenesis of Colletotrichum falcatum by Suppression Subtractive Hybridization (SSH)

Identification of Differentially Expressed Genes in Sugarcane During Pathogenesis of Colletotrichum falcatum by Suppression Subtractive Hybridization (SSH)

Identification, Phylogeny and Transcript of Chitinase Family Genes in Sugarcane

Understanding sugarcane defence responses during the initial phase of Colletotrichum falcatum pathogenesis by suppression subtractive hybridization (SSH)

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