Gene expression analysis of flax seed development
| Autor: | Edwin Wang, Gopalan Selvaraj, Prakash Venglat, Raju Datla, Dustin Cram, Shuqing Qiu, Sandra L. Stone, Michelle Alting-Mees, Faouzi Bekkaoui, Michael K. Deyholos, Gordon Rowland, Sylvie Cloutier, Jacek Nowak, Andrew G. Sharpe, Daoquan Xiang, Chabane Tibiche |
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| Jazyk: | angličtina |
| Rok vydání: | 2011 |
| Předmět: |
Crops
Agricultural Linum DNA Complementary DNA Plant Plant Science Homology (biology) Lignans Endosperm Gene Expression Regulation Plant Adhesives Flax lcsh:Botany Botany Cluster Analysis Gene Expressed Sequence Tags Flavonoids Expressed sequence tag biology Base Sequence Gene Expression Profiling Gene Expression Regulation Developmental food and beverages biology.organism_classification lcsh:QK1-989 Gene expression profiling Mucilage GenBank Seeds Research Article |
| Zdroj: | BMC Plant Biology, Vol 11, Iss 1, p 74 (2011) BMC Plant Biology |
| ISSN: | 1471-2229 |
| Popis: | Background Flax, Linum usitatissimum L., is an important crop whose seed oil and stem fiber have multiple industrial applications. Flax seeds are also well-known for their nutritional attributes, viz., omega-3 fatty acids in the oil and lignans and mucilage from the seed coat. In spite of the importance of this crop, there are few molecular resources that can be utilized toward improving seed traits. Here, we describe flax embryo and seed development and generation of comprehensive genomic resources for the flax seed. Results We describe a large-scale generation and analysis of expressed sequences in various tissues. Collectively, the 13 libraries we have used provide a broad representation of genes active in developing embryos (globular, heart, torpedo, cotyledon and mature stages) seed coats (globular and torpedo stages) and endosperm (pooled globular to torpedo stages) and genes expressed in flowers, etiolated seedlings, leaves, and stem tissue. A total of 261,272 expressed sequence tags (EST) (GenBank accessions LIBEST_026995 to LIBEST_027011) were generated. These EST libraries included transcription factor genes that are typically expressed at low levels, indicating that the depth is adequate for in silico expression analysis. Assembly of the ESTs resulted in 30,640 unigenes and 82% of these could be identified on the basis of homology to known and hypothetical genes from other plants. When compared with fully sequenced plant genomes, the flax unigenes resembled poplar and castor bean more than grape, sorghum, rice or Arabidopsis. Nearly one-fifth of these (5,152) had no homologs in sequences reported for any organism, suggesting that this category represents genes that are likely unique to flax. Digital analyses revealed gene expression dynamics for the biosynthesis of a number of important seed constituents during seed development. Conclusions We have developed a foundational database of expressed sequences and collection of plasmid clones that comprise even low-expressed genes such as those encoding transcription factors. This has allowed us to delineate the spatio-temporal aspects of gene expression underlying the biosynthesis of a number of important seed constituents in flax. Flax belongs to a taxonomic group of diverse plants and the large sequence database will allow for evolutionary studies as well. |
| Databáze: | OpenAIRE |
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