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Comprehensive transcriptome profiling of squamous cell carcinoma of horn in Bos indicus
Author(s) -
Koringa P. G.,
Jakhesara S. J.,
Bhatt V. D.,
Meshram C. P.,
Patel A. K.,
Fefar D. T.,
Joshi C. G.
Publication year - 2016
Publication title -
veterinary and comparative oncology
Language(s) - English
Resource type - Journals
SCImago Journal Rank - 0.864
H-Index - 34
eISSN - 1476-5829
pISSN - 1476-5810
DOI - 10.1111/vco.12079
Subject(s) - transcriptome , biology , gene , gene expression profiling , gene expression , population , cancer research , rna seq , cell , genetics , computational biology , microbiology and biotechnology , medicine , environmental health
Squamous cell carcinoma ( SCC ) of horn is frequently observed in Bos indicus affecting 1% of cattle population and accounting 83.34% of total tumours found. The transcriptome profile of horn cancer ( HC ) tissue and the matched normal ( HN ) tissue were analysed by RNA ‐seq using Roche 454 sequencing. A total of 1 504 900 reads comprising of 612 MB data were used to identify differentially expressed genes using CLC Genomic Workbench. These include up‐regulation of KRT6A , KRT6B , KRT6C , KRT14 , SFN , KRT84 , PI3 , COL17A1 , ANLN , SERPINB5 and down‐regulation of BOLA , SCGB1A1 , CXCL17 , KRT19 , BPIFB1 , NR4A1 and TFF3 in HC , which are involved in regulation of gene transcription, cell proliferation, apoptosis, cell survival and metabolic pathways. The qPCR analysis of several targets suggested concordance of gene expression profile with RNA ‐seq analysis. The present findings would provide basis for further screening of genes and identification of markers for early diagnosis and therapeutic intervention of HC .