iTRAQ-based quantitative proteomics analysis of an immature high-oleic acid near-isogenic line of rapeseed

Wang, Yue; Yang, Qian; Xiao, Gang; Zhang, Zhenqian; Guan, Chunyun; Liu, Zhongsong; Guan, Mei; Wu, Xianmeng; Chen, Hao; Li, Qin

doi:10.1007/s11032-017-0760-3

Cited by 8 publications

(4 citation statements)

References 58 publications

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“…As this plant is considered as a non-model organism, we have used the transcriptome non-redundant sequences as our reference sequence database for protein identification (proteomics informed by transcriptomics approach) and as such comparative analysis is important to illuminate complementing or contrasting trends between the different molecular levels, proteins and transcripts. Other plant proteomics studies have only utilised qRT-PCR for complementing their protein expression levels such as in Botrytis infected kiwifruit ( Liu et al, 2018 ), virus infected rice ( Yu et al, 2017 ) and rapeseed varieties ( Wang et al, 2018 ). The comparison between both proteome and transcriptome as performed in this report will allow even wider comparative analysis of the expression profiles between these two omics studies.…”

Section: Discussionmentioning

confidence: 99%

Proteomics (SWATH-MS) informed by transcriptomics approach of tropical herbPersicaria minorleaves upon methyl jasmonate elicitation

Aizat

Ibrahim

Rahnamaie-Tajadod

et al. 2018

PeerJ

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BackgroundJasmonic acid (JA) and its derivative, methyl JA (MeJA) are hormonal cues released by plants that signal defense response to curb damages from biotic and abiotic stresses. To study such response, a tropical herbal plant, Persicaria minor, which possesses pungent smell and various bioactivities including antimicrobial and anticancer, was treated with MeJA. Such elicitation has been performed in hairy root cultures and plants such as Arabidopsis and rice, yet how MeJA influenced the proteome of an herbal species like P. minor is unknown.MethodIn this study, P. minor plants were exogenously elicited with MeJA and leaf samples were subjected to SWATH-MS proteomics analysis. A previously published translated transcriptome database was used as a reference proteome database for a comprehensive protein sequence catalogue and to compare their differential expression.ResultsFrom this proteomics informed by transcriptomics approach, we have successfully profiled 751 proteins of which 40 proteins were significantly different between control and MeJA-treated samples. Furthermore, a correlation analysis between both proteome and the transcriptome data sets suggests that significantly upregulated proteins were positively correlated with their cognate transcripts (Pearson’s r = 0.677) while a weak correlation was observed for downregulated proteins (r = 0.147).DiscussionMeJA treatment induced the upregulation of proteins involved in various biochemical pathways including stress response mechanism, lipid metabolism, secondary metabolite production, DNA degradation and cell wall degradation. Conversely, proteins involved in energy expensive reactions such as photosynthesis, protein synthesis and structure were significantly downregulated upon MeJA elicitation. Overall protein-transcript correlation was also weak (r = 0.341) suggesting the existence of post-transcriptional regulation during such stress. In conclusion, proteomics analysis using SWATH-MS analysis supplemented by the transcriptome database allows comprehensive protein profiling of this non-model herbal species upon MeJA treatment.

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Section: Discussionmentioning

confidence: 99%

Proteomics (SWATH-MS) informed by transcriptomics approach of tropical herbPersicaria minorleaves upon methyl jasmonate elicitation

Aizat

Ibrahim

Rahnamaie-Tajadod

et al. 2018

PeerJ

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“…The near-isogenic rapeseed lines with high (81.4%) and low (56.2%) OA contents were provided by Rapeseed Molecular Breeding of Hunan Agricultural University, high OA rapeseed materials became known as HOAR and low OA rapeseed materials became known as LOAR, the strain was originally cultivated by National Oil Improvement Center of Hunan Agricultural University. The materials exhibited stable traits and were planted in the experimental field of Hunan Agricultural University, China (Changsha, China) with standard agronomic methods [ 69 ]. The seeds 20 d after pollination were quickly frozen in liquid nitrogen and stored at -80 °C for subsequent studies [ 70 ].…”

Section: Methodsmentioning

confidence: 99%

Clone and Function Verification of the OPR gene in Brassica napus Related to Linoleic Acid Synthesis

et al. 2022

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Background Fatty acid composition and content affect rapeseed oil quality. Fatty acid synthesis-related genes in rapeseed have been studied globally by researchers. Nevertheless, rapeseed oil is mainly composed of seven different fatty acids (FA), and each fatty acid was regulated by different genes. Furthermore, different FA affect each other, which needs continuous and in-depth research to obtain more clear results in Brassica napus. Results In this paper, broad-scale miRNA expression profiles were constructed and 21 differentially expressed miRNAs were detected. GO enrichment analysis showed that most up-regulated proteins were involved in transcription factor activity and catalytic activity. KEGG pathway enrichment analysis indicated that 20 pathways involving 36 target genes were enriched, of which the bna00592 pathway may be involved in fatty acid metabolism. The results were verified using a quantitative real-time PCR (RT-qPCR) analysis, we found that the target gene of bna-miR156b > c > g was the OPR (12-oxo-phytodienoic acid reductase). Four copies of OPR gene were found, and the over-expression vectors (pCAMBIA1300-35 s-OPR and pCAMBIA1300-RNAi-OPR) were constructed to verify their functions. In T1 and T2 generation, the content of linoleic acid (LA) increased significantly in OE but deceased in OPRi. Conclusions This is the first study to provide four copies of the OPR gene that regulates LA metabolism, can be used for the molecular mechanism of LA and optimizing fatty acid profiles in oilseed for breeding programs.

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“…The elution of products was detected by measuring absorbance at 214 nm. Finally, the eluted peptides collected in 20 fractions were desalted on a Strata X C18 column and then vacuum-dried [23].…”

Section: Itraq Labeling and Strong Cation Exchange (Scx) Fractionationmentioning

confidence: 99%

Specific functions of single pistil S-RNases in S-gene homozygous Pyrus germplasm

Qi,

Gao,

et al. 2023

Preprint

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Gametophytic self-incompatibility (SI) is regulated by S-allele recognition; that is, pollen in a style with the same S-genotype will undergo programmed cell death and stop growing so that it is unable to complete double fertilization, ultimately resulting in the SI response. S-RNase is the female determinant of SI in pear (Pyrus bretschneideri). In the Pyrus genome, there are two different S-RNase genes at the same S-locus, which generate two different S-RNase products in the pistil. The extracted S-glycoprotein is actually a protein complex. In this study, artificial self-pollination was conducted at the bud stage to overcome SI in ‘Huanghua’ (S1S2) pear. Seven plants homozygous for S1-RNase and four homozygous for S2-RNase were selected from the selfed progeny of ‘Huanghua’ by S-gene molecular identification biotechnology. We investigated the function of single S-RNases isolated from the pistils of S-gene homozygous Pyrus germplasm. The pollen of ‘Huanghua’ could smoothly pass through the style of the S-gene homozygous germplasm and complete fertilization. S-RNases were extracted from flower styles of different genotypes and used to treat different types of pollen. The S-RNase from ‘Huanghua’ completely inhibited the growth of S1S2,S1S1, and S2S2 pollen, while the S-RNase from homozygous germplasm allowed some S1S2 pollen and different single genotypes of pollen to continue growing. These results further validate the core events of SI including cytoskeleton depolymerization and programmed cell death. By iTRAQ-based proteomic analysis of style proteins, a total of 13 S-RNase-related proteins were identified. In summary, we have created reliable S-RNase gene homozygous germplasm, which will play a crucial role in further research on SI in pear and in the development of the pear industry.

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iTRAQ-based quantitative proteomics analysis of an immature high-oleic acid near-isogenic line of rapeseed

Cited by 8 publications

References 58 publications

Proteomics (SWATH-MS) informed by transcriptomics approach of tropical herbPersicaria minorleaves upon methyl jasmonate elicitation

Proteomics (SWATH-MS) informed by transcriptomics approach of tropical herbPersicaria minorleaves upon methyl jasmonate elicitation

Clone and Function Verification of the OPR gene in Brassica napus Related to Linoleic Acid Synthesis

Specific functions of single pistil S-RNases in S-gene homozygous Pyrus germplasm

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