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Fatty acid composition of developing tree peony (Paeonia section Moutan DC.) seeds and transcriptome analysis during seed development.

Li SS, Wang LS, Shu QY, Wu J, Chen LG, Shao S, Yin DD - BMC Genomics (2015)

Bottom Line: Therefore, transcriptome data is needed to better understand the underlying mechanisms.These data lay the foundation for further understanding of molecular mechanism responsible for lipid biosynthesis and the high unsaturated fatty acids (especially ALA) accumulation.Meanwhile, it provides theoretical base for potential oilseed application in the respect of n-6 to n-3 ratio for human diets and future regulation of target healthy components of oils.

View Article: PubMed Central - PubMed

Affiliation: Key Laboratory of Plant Resources and Beijing Botanical Garden, Institute of Botany, Chinese Academy of Sciences, Beijing, 100093, China. shshli@ibcas.ac.cn.

ABSTRACT

Background: Tree peony (Paeonia section Moutan DC.) is known for its excellent ornamental and medicinal values. In 2011, seeds from P. ostii have been identified as novel resource of α-linolenic acid (ALA) for seed oil production and development in China. However, the molecular mechanism on biosynthesis of unsaturated fatty acids in tree peony seeds remains unknown. Therefore, transcriptome data is needed to better understand the underlying mechanisms.

Results: In this study, lipid accumulation contents were measured using GC-MS methods across developing tree peony seeds, which exhibited an extraordinary ALA content (49.3%) in P. ostii mature seeds. Transcriptome analysis was performed using Illumina sequencing platform. A total of 144 million 100-bp paired-end reads were generated from six libraries, which identified 175,874 contigs. In the KEGG Orthology enrichment of differentially expressed genes, lipid metabolism pathways were highly represented categories. Using this data we identified 388 unigenes that may be involved in de novo fatty acid and triacylglycerol biosynthesis. In particular, three unigenes (SAD, FAD2 and FAD8) encoding fatty acid desaturase with high expression levels in the fast oil accumulation stage compared with the initial stage of seed development were identified.

Conclusions: This study provides the first comprehensive genomic resources characterizing tree peony seeds gene expression at the transcriptional level. These data lay the foundation for further understanding of molecular mechanism responsible for lipid biosynthesis and the high unsaturated fatty acids (especially ALA) accumulation. Meanwhile, it provides theoretical base for potential oilseed application in the respect of n-6 to n-3 ratio for human diets and future regulation of target healthy components of oils.

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Functional classification of Gene Ontology annotation of tree peony unigenes. Unigenes were assigned to three categories: biological processes, cellular components, or molecular functions.
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Fig3: Functional classification of Gene Ontology annotation of tree peony unigenes. Unigenes were assigned to three categories: biological processes, cellular components, or molecular functions.

Mentions: Functional annotation using gene ontology (GO) terms was carried out using the BLASTp algorithm against the Swiss Prot and TrEMBL databases by the GoPipe program according to gene2go software (E-value cut-off, 1.0E-5) [35]. Altogether, a total of 12,726 predicted proteins were categorized into 57 functional groups under three main divisions (biological processes, cellular components, and molecular functions) (Figure 3). In the biological processes category, cellular process (26.97%) and macromolecule metabolism (16.96%) were the predominant groups, followed by nucleobase, nucleoside, nucleotide and nucleic acid metabolism (9.67%), response to stimulus (7.75%), biosynthesis (6.64%), regulation of biological process (6.52%), and transport (6.01%). In the cellular components category, cell (31.38%) and intracellular (24.80%) were the most representative ones, followed by cytoplasm (17.27%), membrane (12.42%), and nucleus (9.68%). With regard to molecular function category, the predominant categories were catalytic activity (22.17%) and binding (other binding, 19.97%), followed by protein binding (9.09%), hydrolase activity (8.57%), nucleic acid binding (8.06%) and transferase activity (7.96%). The distribution of genes in different functional categories in tree peony seeds were different from transcripts of flowers for reblooming and prolonging vase life due to the spatial and temporal characteristics of transcripts [29,30].Figure 3


Fatty acid composition of developing tree peony (Paeonia section Moutan DC.) seeds and transcriptome analysis during seed development.

Li SS, Wang LS, Shu QY, Wu J, Chen LG, Shao S, Yin DD - BMC Genomics (2015)

Functional classification of Gene Ontology annotation of tree peony unigenes. Unigenes were assigned to three categories: biological processes, cellular components, or molecular functions.
© Copyright Policy - open-access
Related In: Results  -  Collection

License 1 - License 2
Show All Figures
getmorefigures.php?uid=PMC4404109&req=5

Fig3: Functional classification of Gene Ontology annotation of tree peony unigenes. Unigenes were assigned to three categories: biological processes, cellular components, or molecular functions.
Mentions: Functional annotation using gene ontology (GO) terms was carried out using the BLASTp algorithm against the Swiss Prot and TrEMBL databases by the GoPipe program according to gene2go software (E-value cut-off, 1.0E-5) [35]. Altogether, a total of 12,726 predicted proteins were categorized into 57 functional groups under three main divisions (biological processes, cellular components, and molecular functions) (Figure 3). In the biological processes category, cellular process (26.97%) and macromolecule metabolism (16.96%) were the predominant groups, followed by nucleobase, nucleoside, nucleotide and nucleic acid metabolism (9.67%), response to stimulus (7.75%), biosynthesis (6.64%), regulation of biological process (6.52%), and transport (6.01%). In the cellular components category, cell (31.38%) and intracellular (24.80%) were the most representative ones, followed by cytoplasm (17.27%), membrane (12.42%), and nucleus (9.68%). With regard to molecular function category, the predominant categories were catalytic activity (22.17%) and binding (other binding, 19.97%), followed by protein binding (9.09%), hydrolase activity (8.57%), nucleic acid binding (8.06%) and transferase activity (7.96%). The distribution of genes in different functional categories in tree peony seeds were different from transcripts of flowers for reblooming and prolonging vase life due to the spatial and temporal characteristics of transcripts [29,30].Figure 3

Bottom Line: Therefore, transcriptome data is needed to better understand the underlying mechanisms.These data lay the foundation for further understanding of molecular mechanism responsible for lipid biosynthesis and the high unsaturated fatty acids (especially ALA) accumulation.Meanwhile, it provides theoretical base for potential oilseed application in the respect of n-6 to n-3 ratio for human diets and future regulation of target healthy components of oils.

View Article: PubMed Central - PubMed

Affiliation: Key Laboratory of Plant Resources and Beijing Botanical Garden, Institute of Botany, Chinese Academy of Sciences, Beijing, 100093, China. shshli@ibcas.ac.cn.

ABSTRACT

Background: Tree peony (Paeonia section Moutan DC.) is known for its excellent ornamental and medicinal values. In 2011, seeds from P. ostii have been identified as novel resource of α-linolenic acid (ALA) for seed oil production and development in China. However, the molecular mechanism on biosynthesis of unsaturated fatty acids in tree peony seeds remains unknown. Therefore, transcriptome data is needed to better understand the underlying mechanisms.

Results: In this study, lipid accumulation contents were measured using GC-MS methods across developing tree peony seeds, which exhibited an extraordinary ALA content (49.3%) in P. ostii mature seeds. Transcriptome analysis was performed using Illumina sequencing platform. A total of 144 million 100-bp paired-end reads were generated from six libraries, which identified 175,874 contigs. In the KEGG Orthology enrichment of differentially expressed genes, lipid metabolism pathways were highly represented categories. Using this data we identified 388 unigenes that may be involved in de novo fatty acid and triacylglycerol biosynthesis. In particular, three unigenes (SAD, FAD2 and FAD8) encoding fatty acid desaturase with high expression levels in the fast oil accumulation stage compared with the initial stage of seed development were identified.

Conclusions: This study provides the first comprehensive genomic resources characterizing tree peony seeds gene expression at the transcriptional level. These data lay the foundation for further understanding of molecular mechanism responsible for lipid biosynthesis and the high unsaturated fatty acids (especially ALA) accumulation. Meanwhile, it provides theoretical base for potential oilseed application in the respect of n-6 to n-3 ratio for human diets and future regulation of target healthy components of oils.

Show MeSH
Related in: MedlinePlus