Comparative de novo transcriptome analysis and metabolic pathway studies of Citrus paradisi flavedo from naive stage to ripened stage.
Grapefruit (Citrus pardisi) is a popular citrus fruit that is a cross between a sweet orange and pummelo. This research article focuses on an in silico approach for comparative analysis of C. paradisi green flavedo (GF) and ethylene treated flavedo (ETF) transcriptome data. Our pathway analysis provides comprehensive information of genes playing significant role in different stages of ripening in fruit. De novo assembly was carried out using six different assemblers namely GS assembler, SeqMan NGEN, Velvet/Oases, CLC, iAssembler and Cortex followed by subsequent meta-assembly, annotation and pathway analysis. We conclude that de novo transcriptome assembly using meta-assembly approach is used to increase assembly quality in comparison to single assembler.
Department of Genomics, Xcelris Genomics Research Centre, Ahmadabad, India.
Maulik
M
Patel
Toral
T
Manvar
Sachin
S
Apurwa
Arpita
A
Ghosh
Tanushree
T
Tiwari
Surendra K
SK
Chikara
D032083:Citrus paradisi / Q000235:genetics* / Q000378:metabolism*; D019295:Computational Biology; D020869:Gene Expression Profiling; D053858:Metabolic Networks and Pathways; D058977:Molecular Sequence Annotation; D059467:Transcriptome