RNA-seq data reveals a coordinated regulation mechanism of multigenes involved in the high accumulation of palmitoleic acid and oil in sea buckthorn berry pulp

Ding, Jian; Ruan, Chengjiang; Du, Wei; Guan, Ying

doi:10.1186/s12870-019-1815-x

Cited by 16 publications

(13 citation statements)

References 65 publications

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“…The down-regulation of Δ9D at Y/O stage was coordinated with high expressions of ketoacyl-ACP reductase ( KAR ) and ketoacyl-ACP synthase II ( KAS II ) and increased and decreased levels of C18:0 and C16:1, respectively (Fig. 8a ), indicating higher precursor availability for the synthesis of C18 unsaturated fatty acids 45 . It is possible that inhibition of Δ9D by gma-miR168b in sea buckthorn seed directs conversion of C16:0 to higher levels of C18:2 and C18:3.…”

Section: Discussionmentioning

confidence: 99%

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Identification of microRNAs involved in lipid biosynthesis and seed size in developing sea buckthorn seeds using high-throughput sequencing

Ding

Ruan

Guan

et al. 2018

Sci Rep

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Sea buckthorn is a plant of medicinal and nutritional importance owing in part to the high levels of essential fatty acids, linoleic (up to 42%) and α-linolenic (up to 39%) acids in the seed oil. Sea buckthorn can produce seeds either via the sexual pathway or by apomixis. The seed development and maturation programs are critically dependent on miRNAs. To understand miRNA-mediated regulation of sea buckthorn seed development, eight small RNA libraries were constructed for deep sequencing from developing seeds of a low oil content line ‘SJ1’ and a high oil content line ‘XE3’. High-throughput sequencing identified 137 known miRNA from 27 families and 264 novel miRNAs. The potential targets of the identified miRNAs were predicted based on sequence homology. Nineteen (four known and 15 novel) and 22 (six known and 16 novel) miRNAs were found to be involved in lipid biosynthesis and seed size, respectively. An integrated analysis of mRNA and miRNA transcriptome and qRT-PCR identified some key miRNAs and their targets (miR164d-ARF2, miR168b-Δ9D, novelmiRNA-108-ACC, novelmiRNA-23-GPD1, novelmiRNA-58-DGAT1, and novelmiRNA-191-DGAT2) potentially involved in seed size and lipid biosynthesis of sea buckthorn seed. These results indicate the potential importance of miRNAs in regulating lipid biosynthesis and seed size in sea buckthorn.

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Section: Discussionmentioning

confidence: 99%

“…The system was equipped with Agilent J&W DB-23 capillary column (60 m × 0.25 mm × 0.25 μm). Fatty acid composition was measured and expressed as weight percentage of each fatty acid to the total fatty acids according to our previous study 45 . The analyses were conducted in three replicates.…”

Section: Methodsmentioning

confidence: 99%

Identification of microRNAs involved in lipid biosynthesis and seed size in developing sea buckthorn seeds using high-throughput sequencing

Ding

Ruan

Guan

et al. 2018

Sci Rep

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“…This fatty acid is only accumulated largely in several wild plants including cat’s claw ( Doxantha unguis-cati L.), macadamia ( Macadamia sp. ), and sea buckthorn ( Hippophae rhamnoides ) with content of >64%, ∼30%, and ∼32%, respectively ( Wu et al, 2012 ; Ding et al, 2019 ). However, the poor agronomic traits (small seeds, low yield, and narrow distribution) greatly limit the commercial production of palmitoleic acid derived from those plants ( Nguyen et al, 2015 ; Ding et al, 2019 ).…”

Section: Introductionmentioning

confidence: 99%

“…), and sea buckthorn ( Hippophae rhamnoides ) with content of >64%, ∼30%, and ∼32%, respectively ( Wu et al, 2012 ; Ding et al, 2019 ). However, the poor agronomic traits (small seeds, low yield, and narrow distribution) greatly limit the commercial production of palmitoleic acid derived from those plants ( Nguyen et al, 2015 ; Ding et al, 2019 ). Recently, rising cost of palmitoleic acid together with increased market need have led to an unprecedented contradiction between supply and demand ( Nguyen et al, 2015 ).…”

Section: Introductionmentioning

confidence: 99%

Characterization of a Novel Acyl-ACP Δ9 Desaturase Gene Responsible for Palmitoleic Acid Accumulation in a Diatom Phaeodactylum tricornutum

et al. 2020

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Palmitoleic acid (16:1Δ9) possesses a double bond at the seventh carbon atom from methyl end of the acyl chain and belongs to unusual ω-7 monounsaturated fatty acids with broad applications in food, pharmaceuticals, cosmetics, biofuel, and other industries. This high-value fatty acid accumulates up to >40% of total lipid in the marine diatom Phaeodactylum tricornutum. The present study was conducted to determine the key gene responsible for 16:1Δ9 biosynthesis in this unicellular alga. A new full-length cDNA and genomic DNA encoding acyl-ACP Δ9 desaturase (PtAAD) were isolated from P. tricornutum cells. Expression levels of PtAAD gene under normal and stress culture conditions were both positively correlated with 16:1Δ9 accumulation, implying its potential role for fatty acid determination. Functional complementation assay of a yeast mutant strain BY4839 evidenced that PtAAD could restore the synthesis of unsaturated fatty acid, especially generating high levels of 16:1Δ9. Further transient expression of PtAAD gene in Nicotiana benthamiana leaves was accompanied by the accumulation of 16:1Δ9, which was absent from control groups. Three-dimensional structure modeling studies showed that functional domain of PtAAD contained three variant amino acids (F160, A223, and L156), which may narrow the space shape of substrate-binding cavity to ensure the entry of 16:0-ACP. Consistent with this prediction, the mutated version of PtAAD gene (F160L, A223T, and L156M) in N. benthamiana systems failed to accumulate 16:1Δ9, but increased levels of 18:1Δ9. Taken together, PtAAD exhibits a strong enzymatic activity and substrate preference for 16:0-ACP, acting as the key player for high biosynthesis and accumulation of 16:1Δ9 in this alga. These findings provide new insights for better understanding the palmitoleic acid and oil biosynthetic mechanism in P. tricornutum, indicating that PtAAD gene may have practical applications for enriching palmitoleic acid and oil yield in other commercial oleaginous algae and crops.

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“…Currently, miRNA-mediated regulatory networks controlling multiple biological and metabolic processes have been revealed via the functional analysis of some woody oil plants, such as oil palm [29], peony [17] and olive [30]. In developing sea buckthorn, 19 (four known and 15 novel) and 22 (six known and 16 novel) miRNAs were found to be involved in lipid biosynthesis and seed size, respectively [31], and an integrated analysis of the mRNA and miRNA transcriptomes and qRT-PCR revealed key miRNAs and their targets (miR164d-ARF2, novelmiRNA-108-ACC, novelmiRNA-23-GPD1, novelmiRNA-58-DGAT1, and novelmiRNA-191-DGAT2) that are potentially involved in the seed size and lipid biosynthesis of the sea buckthorn seed. However, there is no report on the roles of miRNAs in the different developmental stages of the seeds of high-and low-oil cultivars of tea oil camellia.…”

Section: Introductionmentioning

confidence: 99%

Comparative profiling of microRNA expression in the developing seeds of high- and low-oil tea oil camellia (Camellia oleifera) cultivars

Ruan

Zhang

et al. 2019

Preprint

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KEYWORDStea oil camellia, small RNA sequencing, miRNA-mRNA function modules, lipid metabolism, seed size However, the seed yield of tea oil camellia is unstable, and the seed oil content varies greatly, which seriously restricts the sustainable development of the tea oil camellia industry in China. One 3 important strategy is the cultivation of tea oil camellia cultivars with high seed oil contents and high and stable seed yields. MicroRNAs (miRNAs) are a class of endogenous noncoding small RNAs with lengths of approximately 20-25 nucleotides and play crucial roles in mediating the posttranscriptional regulation of gene expression by targeting mRNA degradation or inhibiting target mRNA translational in eukaryotes. Studies have confirmed the key roles of miRNAs in various biological and metabolic processes in plants, such as fatty acid biosynthesis [6], lipid metabolism [7], growth and development [8], responses to stresses [9], and cellular proliferation and differentiation [10]. To date, a total of 5,141 miRNA sequences have been deposited in the database miRBase [11, 12], and many conserved and novel miRNAs have been identified in soybean [13], Arabidopsis [14], Brassica napus [15], rice [16], peony [17] and maize [18]. miRNAs control and influence a variety of physiological processes by regulating target genes. For example, the KAS and KAR genes targeted by miR159 and miR156, respectively, are important for lipid biosynthesis [19]. The FAD2 gene targeted by miR159b and miR5026 regulates and influences fatty acid biosynthesis [13, 20]. miR160 plays highly important roles in multiple aspects of shoot and root development by modulating ARF targeting [21]. In addition, transcription factors play important roles in regulating lipid biosynthesis [22], such as WRINKLED1 and LEAFY COTYLEDON, MYB, SPL, ARF and AP2 [23], which have been identified to be targeted by the major miRNAs [24]. Based on the high-throughput sRNA and degradome analyses of soybean seeds 15 days after flower, 55 annotated and 26 novel miRNAs, which targeted 145 genes, were identified [13]; 82% of the targeted genes were transcription factors, including the ARF, MYB, TCP, GRF and NAC families [13]. The expression level of TCPs that are targeted by miR319 controls the coordination and regulation of two sequential processes in leaf development: the negative regulation of leaf growth and positive regulation of leaf senescence in A. thaliana [25]. miR160 negatively regulates ARFs that significantly affect seed development in A. thaliana [26]. SPL10 and SPL11 are targeted by miR156 and involved in the early morphogenesis of Arabidopsis embryos [27]. MYBs targeted by miR159 are involved in seed size, and a double mutation of miR159 (miR159ab) increased MYB33 and MYB65 expression, which promoted the formation of small seeds [28]. Currently, miRNA-mediated regulatory networks controlling multiple biological and metabolic processes have been revealed via the functional analysis of some woody oil plants, such as oil palm [29], peony [17] and olive [30]. In d...

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RNA-seq data reveals a coordinated regulation mechanism of multigenes involved in the high accumulation of palmitoleic acid and oil in sea buckthorn berry pulp

Cited by 16 publications

References 65 publications

Identification of microRNAs involved in lipid biosynthesis and seed size in developing sea buckthorn seeds using high-throughput sequencing

Identification of microRNAs involved in lipid biosynthesis and seed size in developing sea buckthorn seeds using high-throughput sequencing

Characterization of a Novel Acyl-ACP Δ9 Desaturase Gene Responsible for Palmitoleic Acid Accumulation in a Diatom Phaeodactylum tricornutum

Comparative profiling of microRNA expression in the developing seeds of high- and low-oil tea oil camellia (Camellia oleifera) cultivars

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