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

Carolyn Hutcheon, Renata F. Ditt, Mark A Beilstein, Luca Comai, Jesara Schroeder, Elianna Goldstein, Christine K. Shewmaker, Thu Nguyen, Jay De Rocher, Jack Kiser

Research output: Contribution to journalArticle

69 Citations (Scopus)

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.

Original languageEnglish (US)
Article number233
JournalBMC Plant Biology
Volume10
DOIs
StatePublished - Oct 27 2010
Externally publishedYes

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Camelina sativa
polyploidy
fatty acids
synthesis
genome
genes
Camelina
haplotypes
oils
stearoyl-CoA desaturase
oilseed crops
energy crops
sequence alignment
Brassicaceae
intergenic DNA
biofuels
chromosome number
flow cytometry
diploidy
Arabidopsis

ASJC Scopus subject areas

  • Plant Science

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Polyploid genome of Camelina sativa revealed by isolation of fatty acid synthesis genes. / Hutcheon, Carolyn; Ditt, Renata F.; Beilstein, Mark A; Comai, Luca; Schroeder, Jesara; Goldstein, Elianna; Shewmaker, Christine K.; Nguyen, Thu; De Rocher, Jay; Kiser, Jack.

In: BMC Plant Biology, Vol. 10, 233, 27.10.2010.

Research output: Contribution to journalArticle

Hutcheon, C, Ditt, RF, Beilstein, MA, Comai, L, Schroeder, J, Goldstein, E, Shewmaker, CK, Nguyen, T, De Rocher, J & Kiser, J 2010, 'Polyploid genome of Camelina sativa revealed by isolation of fatty acid synthesis genes', BMC Plant Biology, vol. 10, 233. https://doi.org/10.1186/1471-2229-10-233
Hutcheon, Carolyn ; Ditt, Renata F. ; Beilstein, Mark A ; Comai, Luca ; Schroeder, Jesara ; Goldstein, Elianna ; Shewmaker, Christine K. ; Nguyen, Thu ; De Rocher, Jay ; Kiser, Jack. / Polyploid genome of Camelina sativa revealed by isolation of fatty acid synthesis genes. In: BMC Plant Biology. 2010 ; Vol. 10.
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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.",
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AU - Ditt, Renata F.

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AU - Schroeder, Jesara

AU - Goldstein, Elianna

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AU - Nguyen, Thu

AU - De Rocher, Jay

AU - Kiser, Jack

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