Genome-wide analysis of the omega-3 fatty acid desaturase gene family in Gossypium
| Autor: | Zach S. Liechty, Olga Yurchenko, John M. Dyer, Daniel C. Ilut, Sunjung Park, Michael A. Gore, Justin T. Page, Jon C Millhollon, Joshua A. Udall, Matthew A. Jenks, Jay J Inmon, Kent D. Chapman |
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| Jazyk: | angličtina |
| Předmět: |
Fatty Acid Desaturases
Linolenic acid Molecular Sequence Data Cotton Plant Science Biology Omega-3 fatty acid Gossypium Genome Species Specificity Gene Expression Regulation Plant Gene family Amino Acid Sequence Omega 3 fatty acid Gene Phylogeny Plant Proteins 2. Zero hunger Regulation of gene expression Genetics Ploidies Drought Fatty acid desaturase biology.organism_classification Chilling tolerance Multigene Family biology.protein Ploidy Sequence Alignment Research Article Genome-Wide Association Study |
| Zdroj: | BMC Plant Biology |
| ISSN: | 1471-2229 |
| DOI: | 10.1186/s12870-014-0312-5 |
| Popis: | Background 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. Collectively, 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. Electronic supplementary material The online version of this article (doi:10.1186/s12870-014-0312-5) contains supplementary material, which is available to authorized users. |
| Databáze: | OpenAIRE |
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