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OJBTM

Online Journal of Bioinformatics

Volume 21(2): 147-153, 2020.


Effect of stress on Candida albicans genes determined by next generational sequencing.

 

Mani P, Gandham BS, Sasmal K, Achutharao HP, Talukder A.

 

GeschicktenBiosciences, 601, Oxford Chambers, 5th floor, Rustam Bagh, Main Road, Bangalore , Karnakata, India.

ABSTRACT

 

Mani P, Gandham BS, Sasmal K, Achutharao HP, Talukder A. Effect of stress on Candida albicans genes determined by next generational sequencing, Onl J Bioinform., 21(2): 147-153, 2020. Candida albicans fungal pathogen adapts to pH and other stresses to survive in hosts. Authors describe effects of stresses on Candida albicans genes by In silico next generational sequencing. We used algorithms to include 5 de novo techniques and 3 reference assemblies of 35 Candida albicans SC5314 to generate gene differences from previously analysed RNA-Seq data. For de novo assembly we performed strand-specific sequencing, independent processing of each file, strand with non-strand sequencing or treated read lengths independently. For reference assembly we ref-mapped strand, non strand and independent samples against candida 21. For gene modelling, we used evidence based homology search BLAST for Saccharomycetales, open reading frames, digital and putative genes. We identified 3002 conserved undiscovered genes and 70 new open reading frames. Our RNA-Seq data can be compared with published data to reveal new genes in Candida albicans.

 

Keywords: Stress, transcriptome, genes, Candida albicans.


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