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Comparative Transcriptome and iTRAQ Proteome Analyses of Citrus Root Responses to Candidatus Liberibacter asiaticus Infection.

Zhong Y, Cheng CZ, Jiang NH, Jiang B, Zhang YY, Wu B, Hu ML, Zeng JW, Yan HX, Yi GJ, Zhong GY - PLoS ONE (2015)

Bottom Line: Notably, nutrient absorption was impaired by HLB-infection as the expression of the genes involved in Fe, Zn, N and P adsorption and transportation were significantly changed.HLB-infection induced some cellular defense responses but simultaneously reduced the biosynthesis of the three major classes of secondary metabolites, many of which are known to have anti-pathogen activities.Other interesting genes and pathways that were changed by HLB-infection were also discussed based on our findings.

View Article: PubMed Central - PubMed

Affiliation: Institute of Fruit Tree Research, Guangdong Academy of Agricultural Sciences, Guangzhou, 510640, P.R.China; Key Laboratory of South Subtropical Fruit Biology and Genetic Resource Utilization, Ministry of Agriculture, Guangzhou, 510640, P.R.China; Key Laboratory of Tropical and Subtropical Fruit Tree Researches, Guangdong Province, Guangzhou, 510640, P.R.China.

ABSTRACT
Root samples of 'Sanhu' red tangerine trees infected with and without Candidatus Liberibacter asiaticus (CLas) were collected at 50 days post inoculation and subjected to RNA-sequencing and isobaric tags for relative and absolute quantification (iTRAQ) to profile the differentially expressed genes (DEGs) and proteins (DEPs), respectively. Quantitative real-time PCR was subsequently used to confirm the expression of 16 selected DEGs. Results showed that a total of 3956 genes and 78 proteins were differentially regulated by HLB-infection. Among the most highly up-regulated DEPs were sperm specific protein 411, copper ion binding protein, germin-like proteins, subtilisin-like proteins and serine carboxypeptidase-like 40 proteins whose transcript levels were concomitantly up-regulated as shown by RNA-seq data. Comparison between our results and those of the previously reported showed that known HLB-modulated biological pathways including cell-wall modification, protease-involved protein degradation, carbohydrate metabolism, hormone synthesis and signaling, transcription activities, and stress responses were similarly regulated by HLB infection but different or root-specific changes did exist. The root unique changes included the down-regulation in genes of ubiquitin-dependent protein degradation pathway, secondary metabolism, cytochrome P450s, UDP-glucosyl transferases and pentatricopeptide repeat containing proteins. Notably, nutrient absorption was impaired by HLB-infection as the expression of the genes involved in Fe, Zn, N and P adsorption and transportation were significantly changed. HLB-infection induced some cellular defense responses but simultaneously reduced the biosynthesis of the three major classes of secondary metabolites, many of which are known to have anti-pathogen activities. Genes involved in callose deposition were up-regulated whereas those involved in callose degradation were also up-regulated, indicating that the sieve tube elements in roots were hanging on the balance of life and death at this stage. In addition, signs of carbohydrate starvation were already eminent in roots at this stage. Other interesting genes and pathways that were changed by HLB-infection were also discussed based on our findings.

No MeSH data available.


Related in: MedlinePlus

Mapman analysis for differentailly expressed genes (A) and diferentially expressed proteins (B) involved in stress response.Red squares represent genes or proteins that were significantly up-regulated; green squares represent genes or proteins that were significantly down-regulated.
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pone.0126973.g002: Mapman analysis for differentailly expressed genes (A) and diferentially expressed proteins (B) involved in stress response.Red squares represent genes or proteins that were significantly up-regulated; green squares represent genes or proteins that were significantly down-regulated.

Mentions: Analysis showed the largest proportion of the DEGs were related to biotic and abiotic stress responses since 434 and 1164 DEGs were categorized into the ‘plant and pathogen interaction’ and the ‘stress-related’ when analyzed by KEGG (Table 1) and by MapMan (S1 Table and Fig 2), respectively. Representative DEGs were 2 RIN4 (RPM1 interacting protein 4), 7 MEKK1, 5 JAZ (Jasmonate-ZIM-domain protein), 1 HSP90 (heat shock protein 90), 3 PR1 (pathogenesis-related 1), 1 NPR1, 1 ALD1 (AGD2-like defense response protein 1), and 12 of the 13 βGlu that were the up-regulated. Notably, one of the βGlu genes, BG1, was even up-regulated by more than 10-fold. Some PR proteins such as PR3 and PR4 were also shown to be up-regulated.


Comparative Transcriptome and iTRAQ Proteome Analyses of Citrus Root Responses to Candidatus Liberibacter asiaticus Infection.

Zhong Y, Cheng CZ, Jiang NH, Jiang B, Zhang YY, Wu B, Hu ML, Zeng JW, Yan HX, Yi GJ, Zhong GY - PLoS ONE (2015)

Mapman analysis for differentailly expressed genes (A) and diferentially expressed proteins (B) involved in stress response.Red squares represent genes or proteins that were significantly up-regulated; green squares represent genes or proteins that were significantly down-regulated.
© Copyright Policy
Related In: Results  -  Collection

License
Show All Figures
getmorefigures.php?uid=PMC4457719&req=5

pone.0126973.g002: Mapman analysis for differentailly expressed genes (A) and diferentially expressed proteins (B) involved in stress response.Red squares represent genes or proteins that were significantly up-regulated; green squares represent genes or proteins that were significantly down-regulated.
Mentions: Analysis showed the largest proportion of the DEGs were related to biotic and abiotic stress responses since 434 and 1164 DEGs were categorized into the ‘plant and pathogen interaction’ and the ‘stress-related’ when analyzed by KEGG (Table 1) and by MapMan (S1 Table and Fig 2), respectively. Representative DEGs were 2 RIN4 (RPM1 interacting protein 4), 7 MEKK1, 5 JAZ (Jasmonate-ZIM-domain protein), 1 HSP90 (heat shock protein 90), 3 PR1 (pathogenesis-related 1), 1 NPR1, 1 ALD1 (AGD2-like defense response protein 1), and 12 of the 13 βGlu that were the up-regulated. Notably, one of the βGlu genes, BG1, was even up-regulated by more than 10-fold. Some PR proteins such as PR3 and PR4 were also shown to be up-regulated.

Bottom Line: Notably, nutrient absorption was impaired by HLB-infection as the expression of the genes involved in Fe, Zn, N and P adsorption and transportation were significantly changed.HLB-infection induced some cellular defense responses but simultaneously reduced the biosynthesis of the three major classes of secondary metabolites, many of which are known to have anti-pathogen activities.Other interesting genes and pathways that were changed by HLB-infection were also discussed based on our findings.

View Article: PubMed Central - PubMed

Affiliation: Institute of Fruit Tree Research, Guangdong Academy of Agricultural Sciences, Guangzhou, 510640, P.R.China; Key Laboratory of South Subtropical Fruit Biology and Genetic Resource Utilization, Ministry of Agriculture, Guangzhou, 510640, P.R.China; Key Laboratory of Tropical and Subtropical Fruit Tree Researches, Guangdong Province, Guangzhou, 510640, P.R.China.

ABSTRACT
Root samples of 'Sanhu' red tangerine trees infected with and without Candidatus Liberibacter asiaticus (CLas) were collected at 50 days post inoculation and subjected to RNA-sequencing and isobaric tags for relative and absolute quantification (iTRAQ) to profile the differentially expressed genes (DEGs) and proteins (DEPs), respectively. Quantitative real-time PCR was subsequently used to confirm the expression of 16 selected DEGs. Results showed that a total of 3956 genes and 78 proteins were differentially regulated by HLB-infection. Among the most highly up-regulated DEPs were sperm specific protein 411, copper ion binding protein, germin-like proteins, subtilisin-like proteins and serine carboxypeptidase-like 40 proteins whose transcript levels were concomitantly up-regulated as shown by RNA-seq data. Comparison between our results and those of the previously reported showed that known HLB-modulated biological pathways including cell-wall modification, protease-involved protein degradation, carbohydrate metabolism, hormone synthesis and signaling, transcription activities, and stress responses were similarly regulated by HLB infection but different or root-specific changes did exist. The root unique changes included the down-regulation in genes of ubiquitin-dependent protein degradation pathway, secondary metabolism, cytochrome P450s, UDP-glucosyl transferases and pentatricopeptide repeat containing proteins. Notably, nutrient absorption was impaired by HLB-infection as the expression of the genes involved in Fe, Zn, N and P adsorption and transportation were significantly changed. HLB-infection induced some cellular defense responses but simultaneously reduced the biosynthesis of the three major classes of secondary metabolites, many of which are known to have anti-pathogen activities. Genes involved in callose deposition were up-regulated whereas those involved in callose degradation were also up-regulated, indicating that the sieve tube elements in roots were hanging on the balance of life and death at this stage. In addition, signs of carbohydrate starvation were already eminent in roots at this stage. Other interesting genes and pathways that were changed by HLB-infection were also discussed based on our findings.

No MeSH data available.


Related in: MedlinePlus