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