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Volume 9
Issue 3
10.3390/plants9030405
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Article

De novo Sequencing and Analysis of Salvia hispanica Tissue-Specific Transcriptome and Identification of Genes Involved in Terpenoid Biosynthesis

by
James Wimberley
1,2,
Joseph Cahill
3 and
Hagop S. Atamian
2,4,*
1
Computational and Data Sciences Program, Chapman University, Orange, CA 92866, USA
2
Schmid College of Science and Technology, Chapman University, Orange, CA 92866, USA
3
Ventura Botanical Gardens, Ventura, CA 93001, USA
4
Biological Sciences Program, Chapman University, Orange, CA 92866, USA
*
Author to whom correspondence should be addressed.
Plants 2020, 9(3), 405; https://doi.org/10.3390/plants9030405
Received: 25 February 2020 / Revised: 16 March 2020 / Accepted: 19 March 2020 / Published: 24 March 2020
(This article belongs to the Section Plant Genetics, Genomics and Biotechnology)
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Abstract

Salvia hispanica (commonly known as chia) is gaining popularity worldwide as a healthy food supplement due to its low saturated fatty acid and high polyunsaturated fatty acid content, in addition to being rich in protein, fiber, and antioxidants. Chia leaves contain plethora of secondary metabolites with medicinal properties. In this study, we sequenced chia leaf and root transcriptomes using the Illumina platform. The short reads were assembled into contigs using the Trinity software and annotated against the Uniprot database. The reads were de novo assembled into 103,367 contigs, which represented 92.8% transcriptome completeness and a diverse set of Gene Ontology terms. Differential expression analysis identified 6151 and 8116 contigs significantly upregulated in the leaf and root tissues, respectively. In addition, we identified 30 contigs belonging to the Terpene synthase (TPS) family and demonstrated their evolutionary relationships to tomato TPS family members. Finally, we characterized the expression of S. hispanica TPS members in leaves subjected to abiotic stresses and hormone treatments. Abscisic acid had the most pronounced effect on the expression of the TPS genes tested in this study. Our work provides valuable community resources for future studies aimed at improving and utilizing the beneficial constituents of this emerging healthy food source. View Full-Text
Keywords: RNA-seq; assembly; plant; differential expression RNA-seq; assembly; plant; differential expression
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MDPI and ACS Style

Wimberley, J.; Cahill, J.; Atamian, H.S. De novo Sequencing and Analysis of Salvia hispanica Tissue-Specific Transcriptome and Identification of Genes Involved in Terpenoid Biosynthesis. Plants 2020, 9, 405. https://doi.org/10.3390/plants9030405

AMA Style

Wimberley J, Cahill J, Atamian HS. De novo Sequencing and Analysis of Salvia hispanica Tissue-Specific Transcriptome and Identification of Genes Involved in Terpenoid Biosynthesis. Plants. 2020; 9(3):405. https://doi.org/10.3390/plants9030405

Chicago/Turabian Style

Wimberley, James, Joseph Cahill, and Hagop S. Atamian. 2020. "De novo Sequencing and Analysis of Salvia hispanica Tissue-Specific Transcriptome and Identification of Genes Involved in Terpenoid Biosynthesis" Plants 9, no. 3: 405. https://doi.org/10.3390/plants9030405

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