Genome-wide analysis of the omega-3 fatty acid desaturase gene family in Gossypium

Yurchenko, Olga P.; Park, Sunjung; Ilut, Daniel C.; Inmon, Jay J.; Millhollon, Jon C.; Liechty, Zach; Page, Justin T.; Jenks, Matthew A.; Chapman, Kent D.; Udall, Joshua A.; Gore, Michael A.; Dyer, John M.

doi:10.1186/s12870-014-0312-5

Title: Genome-wide analysis of the omega-3 fatty acid desaturase gene family in Gossypium

Journal Article · Tue Nov 18 00:00:00 EST 2014 · BMC Plant Biology

DOI:https://doi.org/10.1186/s12870-014-0312-5· OSTI ID:1221918

Yurchenko, Olga P. ^[1]; Park, Sunjung ^[2]; Ilut, Daniel C. ^[3]; Inmon, Jay J. ^[1]; Millhollon, Jon C. ^[1]; Liechty, Zach ^[4]; Page, Justin T. ^[4]; Jenks, Matthew A. ^[5]; Chapman, Kent D. ^[6]; Udall, Joshua A. ^[4]; Gore, Michael A. ^[3]; Dyer, John M. ^[1]

US Arid-Land Agricultural Research Center, Maricopa, AZ (United States)
US Arid-Land Agricultural Research Center, Maricopa, AZ (United States); Univ. of North Texas, Denton, TX (United States)
Cornell Univ., Ithaca, NY (United States)
Brigham Young Univ., Provo, UT (United States)
West Virginia Univ., Morgantown, WV (United States)
Univ. of North Texas, Denton, TX (United States)

The majority of commercial cotton varieties planted worldwide are derived from Gossypium hirsutum, which is a naturally occurring allotetraploid produced by interspecific hybridization of A- and D-genome diploid progenitor species. While most cotton species are adapted to warm, semi-arid tropical and subtropical regions, and thus perform well in these geographical areas, cotton seedlings are sensitive to cold temperature, which can significantly reduce crop yields. One of the common biochemical responses of plants to cold temperatures is an increase in omega-3 fatty acids, which protects cellular function by maintaining membrane integrity. The purpose of our study was to identify and characterize the omega-3 fatty acid desaturase (FAD) gene family in G. hirsutum, with an emphasis on identifying omega-3 FADs involved in cold temperature adaptation. Results: Eleven omega-3 FAD genes were identified in G. hirsutum, and characterization of the gene family in extant A and D diploid species (G. herbaceum and G. raimondii, respectively) allowed for unambiguous genome assignment of all homoeologs in tetraploid G. hirsutum. The omega-3 FAD family of cotton includes five distinct genes, two of which encode endoplasmic reticulum-type enzymes (FAD3-1 and FAD3-2) and three that encode chloroplast-type enzymes (FAD7/8-1, FAD7/8-2, and FAD7/8-3). The FAD3-2 gene was duplicated in the A genome progenitor species after the evolutionary split from the D progenitor, but before the interspecific hybridization event that gave rise to modern tetraploid cotton. RNA-seq analysis revealed conserved, gene-specific expression patterns in various organs and cell types and semi-quantitative RT-PCR further revealed that FAD7/8-1 was specifically induced during cold temperature treatment of G. hirsutum seedlings. Conclusions: The omega-3 FAD gene family in cotton was characterized at the genome-wide level in three species, showing relatively ancient establishment of the gene family prior to the split of A and D diploid progenitor species. The FAD genes are differentially expressed in various organs and cell types, including fiber, and expression of the FAD7/8-1 gene was induced by cold temperature. These data define the genetic and functional genomic properties of this important gene family in cotton and provide a foundation for future efforts to improve cotton abiotic stress tolerance through molecular breeding approaches.

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Research Organization:: Univ. of North Texas, Denton, TX (United States)

Sponsoring Organization:: USDOE Office of Science (SC)

Grant/Contract Number:: SC0000797

OSTI ID:: 1221918

Journal Information:: BMC Plant Biology, Vol. 14, Issue 1; ISSN 1471-2229

Publisher:: BioMed CentralCopyright Statement

Country of Publication:: United States

Language:: English

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Cited by: 32 works

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59 BASIC BIOLOGICAL SCIENCES
chilling tolerance
cotton
drought
fatty acid desaturase
Gossypium
linolenic acid
omega-3 fatty acid

Title: Genome-wide analysis of the omega-3 fatty acid desaturase gene family in Gossypium

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