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De novo transcriptome assembly and comprehensive expression profiling in Crocus sativus to gain insights into apocarotenoid biosynthesis

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Title De novo transcriptome assembly and comprehensive expression profiling in Crocus sativus to gain insights into apocarotenoid biosynthesis
 
Creator Jain, Mukesh
Srivastava, Prabhakar Lal
Verma, Mohit
Ghangal, Rajesh
Garg, Rohini
 
Subject Plant molecular biology
Secondary metabolism
 
Description Accepted date: 15 February 2016
Saffron (Crocus sativus L.) is commonly known as world’s most expensive spice with rich source of
apocarotenoids and possesses magnificent medicinal properties. To understand the molecular basis of
apocarotenoid biosynthesis/accumulation, we performed transcriptome sequencing from five different
tissues/organs of C. sativus using Illumina platform. After comprehensive optimization of de novo
transcriptome assembly, a total of 105, 269 unique transcripts (average length of 1047bp and N50
length of 1404bp) were obtained from 206 million high-quality paired-end reads. Functional annotation
led to the identification of many genes involved in various biological processes and molecular
functions. In total, 54% of C. sativus transcripts could be functionally annotated using public databases.
Transcriptome analysis of C. sativus revealed the presence of 16721 SSRs and 3819 transcription factor
encoding transcripts. Differential expression analysis revealed preferential/specific expression of
many transcripts involved in apocarotenoid biosynthesis in stigma. We have revealed the differential
expression of transcripts encoding for transcription factors (MYB, MYB related, WRKY, C2C2-YABBY
and bHLH) involved in secondary metabolism. Overall, these results will pave the way for understanding
the molecular basis of apocarotenoid biosynthesis and other aspects of stigma development in
C. sativus.
This work is financially supported by the Department of Biotechnology, Government of India (BT/PR5397/
PBD/16/974/2012 from 2013–2016). We are thankful to Ms. Jyoti Agarwal for help with real-time PCR analysis
of the selected transcripts.
 
Date 2016-03-07T08:41:02Z
2016-03-07T08:41:02Z
2016
 
Type Article
 
Identifier Scientific Reports, 6: 22456
2045-2322
http://172.16.0.77:8080/jspui/handle/123456789/626
http://www.nature.com/articles/srep22456
10.1038/srep22456
 
Language en_US
 
Publisher Nature Publishing Group