Label-free quantitative proteomics analysis of Cytosinpeptidemycin responses in southern rice black-streaked dwarf virus-infected rice

Yu, Lu; Wang, Wenli; Zeng, Song; Chen, Zhuo; Yang, Anne Yuqing; Shi, Jing; Zhao, Xiaozhen; Song, Baoan

doi:10.1016/j.pestbp.2017.06.005

Cited by 33 publications

(40 citation statements)

References 37 publications

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“…A label-free quantitative proteomics analysis provided a comprehensive view about the response of RBSDV-infected rice to cytosinpeptidemycin treatment. Several abscisic acid-related proteins were regulated, suggesting that cytosinpeptidemycin may activate the abscisic acid pathway to eliminate RBSDV in rice [ 24 ]. In maize, approximately 1200 protein spots were detected and 91 DAPs were identified under RBSDV infection by 2-D method [ 25 ].…”

Section: Discussionmentioning

confidence: 99%

Comparative proteomic analysis of maize (Zea mays L.) seedlings under rice black-streaked dwarf virus infection

Yue

Han

et al. 2018

BMC Plant Biol

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BackgroundMaize rough dwarf disease (MRDD) is a severe disease that has been occurring frequently in southern China and many other Asian countries. MRDD is caused by the infection of Rice black streaked dwarf virus (RBSDV) and leads to significant economic losses in maize production. To well understand the destructive effects of RBSDV infection on maize growth, comparative proteomic analyses of maize seedlings under RBSDV infection was performed using an integrated approach involving LC-MS/MS and Tandem Mass Tag (TMT) labeling.ResultsIn total, 7615 maize proteins, 6319 of which were quantified. A total of 116 differentially accumulated proteins (DAPs) were identified, including 35 up- and 81 down-regulated proteins under the RBSDV infection. Enrichment analysis showed that the DAPs were most strongly associated with cyanoamino acid metabolism, protein processing in ER, and ribosome-related pathways. Two sulfur metabolism-related proteins were significantly reduced, indicating that sulfur may participate in the resistance against RBSDV infection. Furthermore, 15 DAPs involved in six metabolic pathways were identified in maize under the RBSDV infection.ConclusionsOur data revealed that the responses of maize to RBSDV infection were controlled by various metabolic pathways.Electronic supplementary materialThe online version of this article (10.1186/s12870-018-1419-x) contains supplementary material, which is available to authorized users.

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Section: Discussionmentioning

confidence: 99%

Comparative proteomic analysis of maize (Zea mays L.) seedlings under rice black-streaked dwarf virus infection

Yue

Han

et al. 2018

BMC Plant Biol

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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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“…The sequences of all differentially expressed proteins were searched according to their accession numbers in FASTA format obtained from the UniProt database (http://www.uniprot.org/). To generate the significant GO term, we analyzed the Gene Ontology (GO), which determines gene function in a standardized classification system, in three aspects: biological process, cellular components, and molecular functions . Significant correlations for GO enrichment functional item analysis were determined, and differentially expressed proteins and functional categories were identified through the Fisher's exact test under all identified proteins as the background …”

Section: Methodsmentioning

confidence: 99%

Design, synthesis, and insecticidal activity evaluation of novel 4‐(N, N‐diarylmethylamines)furan‐2(5H)‐one derivatives as potential acetylcholine receptor insecticides

Tian

Liu

et al. 2018

Pest Management Science

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Label-free quantitative proteomics analysis of Cytosinpeptidemycin responses in southern rice black-streaked dwarf virus-infected rice

Cited by 33 publications

References 37 publications

Comparative proteomic analysis of maize (Zea mays L.) seedlings under rice black-streaked dwarf virus infection

Comparative proteomic analysis of maize (Zea mays L.) seedlings under rice black-streaked dwarf virus infection

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

Design, synthesis, and insecticidal activity evaluation of novel 4‐(N, N‐diarylmethylamines)furan‐2(5H)‐one derivatives as potential acetylcholine receptor insecticides

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