Genetic diversity of SAD and FAD genes responsible for the fatty acid composition in flax cultivars and lines

Dmitriev, Alexey A.; Kezimana, Parfait; Rozhmina, Tatiana A.; Жученко, А. А.; Povkhova, Liubov V.; Pushkova, Elena N.; Novakovskiy, Roman O.; Pavelek, Miroslav; Vladimirov, Gleb; Nikolaev, Evgeny N.; Kovaleva, Oxana; Kostyukevich, Yury; Chagovets, Vitaliy; Романова, Е. В.; Snezhkina, Anastasiya V.; Kudryavtseva, Anna V.; Krasnov, George S.; Melnikova, Nataliya V.

doi:10.1186/s12870-020-02499-w

Cited by 25 publications

(52 citation statements)

References 30 publications

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“…The expression of FAD2A was higher in capsules and embryo than in other analyzed tissues, and clustering had some concordance with flax type, but it was poor enough (Supplementary Figure S4m). It is known that FAD2 catalyzes the desaturation of oleic acid into linoleic acid, while FAD3 catalyzes linoleic acid into linolenic acid, and polymorphisms of FAD genes are associated with the content of these fatty acids, which was especially clearly shown for FAD3A and FAD3B genes [34,71,[103][104][105]. However, the present study did not reveal an association between flax type and polymorphisms in FAD3A and FAD3B genes.…”

Section: Genes Involved In Fatty Acid Synthesiscontrasting

confidence: 80%

Genes Associated with the Flax Plant Type (Oil or Fiber) Identified Based on Genome and Transcriptome Sequencing Data

Povkhova

Melnikova

Rozhmina

et al. 2021

Plants

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As a result of the breeding process, there are two main types of flax (Linum usitatissimum L.) plants. Linseed is used for obtaining seeds, while fiber flax is used for fiber production. We aimed to identify the genes associated with the flax plant type, which could be important for the formation of agronomically valuable traits. A search for polymorphisms was performed in genes involved in the biosynthesis of cell wall components, lignans, fatty acids, and ion transport based on genome sequencing data for 191 flax varieties. For 143 of the 424 studied genes (4CL, C3′H, C4H, CAD, CCR, CCoAOMT, COMT, F5H, HCT, PAL, CTL, BGAL, ABC, HMA, DIR, PLR, UGT, TUB, CESA, RGL, FAD, SAD, and ACT families), one or more polymorphisms had a strong correlation with the flax type. Based on the transcriptome sequencing data, we evaluated the expression levels for each flax type-associated gene in a wide range of tissues and suggested genes that are important for the formation of linseed or fiber flax traits. Such genes were probably subjected to the selection press and can determine not only the traits of seeds and stems but also the characteristics of the root system or resistance to stresses at a particular stage of development, which indirectly affects the ability of flax plants to produce seeds or fiber.

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Section: Genes Involved In Fatty Acid Synthesiscontrasting

confidence: 80%

Genes Associated with the Flax Plant Type (Oil or Fiber) Identified Based on Genome and Transcriptome Sequencing Data

Povkhova

Melnikova

Rozhmina

et al. 2021

Plants

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“…Over 70% of ASO constitutes unsaturated FAs, and FAD is a key enzyme in their synthesis [ 32 , 33 ]. In this study, we identified four FAD genes, including two SAD and two FAD2 genes.…”

Section: Resultsmentioning

confidence: 99%

Transcriptome Analysis and GC-MS Profiling of Key Fatty Acid Biosynthesis Genes in Akebia trifoliata (Thunb.) Koidz Seeds

Zhong

Zhao

Wang

et al. 2022

Biology

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Akebia trifoliata (Thunb.) Koidz is an important Chinese medicinal and economic crop. Its seeds, which are rich in fatty acids, are usually discarded. As of now, A. trifoliata lipid biosynthesis pathways and genes have not been clearly described. In this work, we found that seed and fruit development of A. trifoliata were not synchronized, and that when the fruit was ripe, seed oil content was not at its highest. As seeds developed, linoleic and oleic acid content was found to decrease and increase, respectively. RNA sequencing yielded 108.45 GB of clean reads from 15 cDNA libraries, containing 8756 differentially expressed genes. We identified 65 unigenes associated with lipid biosynthesis, including fatty acid and triacylglycerol biosynthesis. The 65 unigenes were mapped to the A. trifoliata lipid synthesis pathway. There were 20 AtrFAD family members in A. trifoliata, which could be divided into four sub-groups with the highest number of AtrSADs. Our study revealed the dynamic changes in A. trifoliata seed oil content and composition during its growth period and provides large-scale and comprehensive transcriptome data of A. trifoliata seeds. These findings provide a basis for the improvement of A. trifoliata seed oil yield and quality.

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“…One microgram of RNA for each sample was treated with DNase I (Thermo Fisher Scientific, Waltham, MA, United States) and used for reverse transcription with random hexamer primers (Evrogen, Moscow, Russia) and Mint reverse transcriptase (Evrogen) following the manufacturer's protocol. Primers were designed for amplification of parts of the TCP, CLC, and MET1 genes and further sequencing on the Illumina platform as described in our previous works (Melnikova et al, 2019;Dmitriev et al, 2020;Novakovskiy et al, 2020). In brief, two PCRs were used for the library preparation.…”

Section: Targeted Genome and Transcriptome Sequencingmentioning

confidence: 99%

Genome and Transcriptome Sequencing of Populus × sibirica Identified Sex-Associated Allele-Specific Expression of the CLC Gene

et al. 2021

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Transcriptome sequencing of leaves, catkin axes, and flowers from male and female trees of Populus × sibirica and genome sequencing of the same plants were performed for the first time. The availability of both genome and transcriptome sequencing data enabled the identification of allele-specific expression. Such an analysis was performed for genes from the sex-determining region (SDR). P. × sibirica is an intersectional hybrid between species from sections Aigeiros (Populus nigra) and Tacamahaca (Populus laurifolia, Populus suaveolens, or Populus × moskoviensis); therefore, a significant number of heterozygous polymorphisms were identified in the SDR that allowed us to distinguish between alleles. In the SDR, both allelic variants of the TCP (T-complex protein 1 subunit gamma), CLC (Chloride channel protein CLC-c), and MET1 (DNA-methyltransferase 1) genes were expressed in females, while in males, two allelic variants were expressed for TCP and MET1 but only one allelic variant prevailed for CLC. Targeted sequencing of TCP, CLC, and MET1 regions on a representative set of trees confirmed the sex-associated allele-specific expression of the CLC gene in generative and vegetative tissues of P. × sibirica. Our study brings new knowledge on sex-associated differences in Populus species.

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Genetic diversity of SAD and FAD genes responsible for the fatty acid composition in flax cultivars and lines

Cited by 25 publications

References 30 publications

Genes Associated with the Flax Plant Type (Oil or Fiber) Identified Based on Genome and Transcriptome Sequencing Data

Genes Associated with the Flax Plant Type (Oil or Fiber) Identified Based on Genome and Transcriptome Sequencing Data

Transcriptome Analysis and GC-MS Profiling of Key Fatty Acid Biosynthesis Genes in Akebia trifoliata (Thunb.) Koidz Seeds

Genome and Transcriptome Sequencing of Populus × sibirica Identified Sex-Associated Allele-Specific Expression of the CLC Gene

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