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Open Access Highly Accessed Research article

Polyploid genome of Camelina sativa revealed by isolation of fatty acid synthesis genes

Carolyn Hutcheon1, Renata F Ditt1, Mark Beilstein2, Luca Comai3, Jesara Schroeder1, Elianna Goldstein3, Christine K Shewmaker4, Thu Nguyen1, Jay De Rocher1* and Jack Kiser5

Author Affiliations

1 Targeted Growth, Inc., 2815 Eastlake Ave E Suite 300, Seattle, WA 98102, USA

2 Dept. of Biochemistry/Biophysics, Texas A&M University, TAMU 2128 College Station, TX 77843, USA

3 Plant Biology and Genome Center, 451 Health Sciences Drive, University of California Davis, Davis, CA 95616, USA

4 BluGoose Consulting, Woodland, CA 95776, USA

5 Sustainable Oils, LLC, 3208 Curlew St., Davis, CA 95616, USA

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BMC Plant Biology 2010, 10:233  doi:10.1186/1471-2229-10-233

Published: 27 October 2010

Abstract

Background

Camelina sativa, an oilseed crop in the Brassicaceae family, has inspired renewed interest due to its potential for biofuels applications. Little is understood of the nature of the C. sativa genome, however. A study was undertaken to characterize two genes in the fatty acid biosynthesis pathway, fatty acid desaturase (FAD) 2 and fatty acid elongase (FAE) 1, which revealed unexpected complexity in the C. sativa genome.

Results

In C. sativa, Southern analysis indicates the presence of three copies of both FAD2 and FAE1 as well as LFY, a known single copy gene in other species. All three copies of both CsFAD2 and CsFAE1 are expressed in developing seeds, and sequence alignments show that previously described conserved sites are present, suggesting that all three copies of both genes could be functional. The regions downstream of CsFAD2 and upstream of CsFAE1 demonstrate co-linearity with the Arabidopsis genome. In addition, three expressed haplotypes were observed for six predicted single-copy genes in 454 sequencing analysis and results from flow cytometry indicate that the DNA content of C. sativa is approximately three-fold that of diploid Camelina relatives. Phylogenetic analyses further support a history of duplication and indicate that C. sativa and C. microcarpa might share a parental genome.

Conclusions

There is compelling evidence for triplication of the C. sativa genome, including a larger chromosome number and three-fold larger measured genome size than other Camelina relatives, three isolated copies of FAD2, FAE1, and the KCS17-FAE1 intergenic region, and three expressed haplotypes observed for six predicted single-copy genes. Based on these results, we propose that C. sativa be considered an allohexaploid. The characterization of fatty acid synthesis pathway genes will allow for the future manipulation of oil composition of this emerging biofuel crop; however, targeted manipulations of oil composition and general development of C. sativa should consider and, when possible take advantage of, the implications of polyploidy.