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Differential gene expression in foxtail millet during incompatible interaction with Uromyces setariae-italicae.

Li ZY, Wang N, Dong L, Bai H, Quan JZ, Liu L, Dong ZP - PLoS ONE (2015)

Bottom Line: In this study, we determined the most abundant differentially expressed signaling pathways of up-regulated genes in foxtail millet and identified significantly up-regulated genes.Expression levels of the genes were also compared between a resistant cultivar Shilixiang and a susceptible cultivar Yugu-1, and the result indicated that expression level of Shilixiang is higher than that of Yugu-1.This study reveals the relatively comprehensive mechanisms of rust-responsive transcription in foxtail millet.

View Article: PubMed Central - PubMed

Affiliation: Department of plant protect, Millet Institute, Hebei Academy of Agricultural and Forestry Sciences, National Foxtail Millet Improvement Center, Minor Cereal Crops Laboratory of Hebei Province, Shijiazhuang, China.

ABSTRACT
Foxtail millet (Setaria italica) is an important food and fodder grain crop that is grown for human consumption. Production of this species is affected by several plant diseases, such as rust. The cultivar Shilixiang has been identified as resistant to the foxtail millet rust pathogen, Uromyces setariae-italicae. In order to identify signaling pathways and genes related to the plant's defense mechanisms against rust, the Shilixiang cultivar was used to construct a digital gene expression (DGE) library during the interaction of foxtail millet with U. setariae-italicae. In this study, we determined the most abundant differentially expressed signaling pathways of up-regulated genes in foxtail millet and identified significantly up-regulated genes. Finally, quantitative real-time polymerase chain reaction (qRT-PCR) analysis was used to analyze the expression of nine selected genes, and the patterns observed agreed well with DGE analysis. Expression levels of the genes were also compared between a resistant cultivar Shilixiang and a susceptible cultivar Yugu-1, and the result indicated that expression level of Shilixiang is higher than that of Yugu-1. This study reveals the relatively comprehensive mechanisms of rust-responsive transcription in foxtail millet.

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Quantitative RT-PCR validation of DGE analysis.TPM, transcription per million mapped reads. Relative quantification was carried out to measure changes in target gene expression in foxtail millet leaf samples relative to an endogenous reference gene; 18S rRNA was used as a reference gene. The X axis indicates the inoculation time. The Y axis indicates the fold change of target gene in qRT-PCR and TPM in DGE analysis. Bars represent standard errors of the means.
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pone.0123825.g006: Quantitative RT-PCR validation of DGE analysis.TPM, transcription per million mapped reads. Relative quantification was carried out to measure changes in target gene expression in foxtail millet leaf samples relative to an endogenous reference gene; 18S rRNA was used as a reference gene. The X axis indicates the inoculation time. The Y axis indicates the fold change of target gene in qRT-PCR and TPM in DGE analysis. Bars represent standard errors of the means.

Mentions: To validate the results of the DGE, nine genes were selected for confirmation using qRT-PCR (Fig 6). They included a suppressor of G2 allele of skp1 and related proteins (SGT), a WRKY transcription factor 70 (WRKY70), an NBS-LRR disease resistance protein (RPM1/RPS2), a mitogen-activated protein kinase kinase 6 (MKK1/2), a heat shock protein 90 (HSP90), a phenylalanine ammonia-lyase (PAL), a peroxidase (PER), a glutathione-S-transferase 24 (GST), and a β-1,3-glucanase (GLU). The expressions patterns of all nine genes demonstrated by qRT-PCR agreed well with DGE analysis. Among them, four genes (RPM1/RPS2, HSP90, GST, and GLU) were induced mainly after 24 h of post-inoculation, and five genes (SGT, WRKY70, MKK1/2, PAL, and PER) showed higher transcript levels in infected plants at 48 h of interaction.


Differential gene expression in foxtail millet during incompatible interaction with Uromyces setariae-italicae.

Li ZY, Wang N, Dong L, Bai H, Quan JZ, Liu L, Dong ZP - PLoS ONE (2015)

Quantitative RT-PCR validation of DGE analysis.TPM, transcription per million mapped reads. Relative quantification was carried out to measure changes in target gene expression in foxtail millet leaf samples relative to an endogenous reference gene; 18S rRNA was used as a reference gene. The X axis indicates the inoculation time. The Y axis indicates the fold change of target gene in qRT-PCR and TPM in DGE analysis. Bars represent standard errors of the means.
© Copyright Policy
Related In: Results  -  Collection

License
Show All Figures
getmorefigures.php?uid=PMC4401669&req=5

pone.0123825.g006: Quantitative RT-PCR validation of DGE analysis.TPM, transcription per million mapped reads. Relative quantification was carried out to measure changes in target gene expression in foxtail millet leaf samples relative to an endogenous reference gene; 18S rRNA was used as a reference gene. The X axis indicates the inoculation time. The Y axis indicates the fold change of target gene in qRT-PCR and TPM in DGE analysis. Bars represent standard errors of the means.
Mentions: To validate the results of the DGE, nine genes were selected for confirmation using qRT-PCR (Fig 6). They included a suppressor of G2 allele of skp1 and related proteins (SGT), a WRKY transcription factor 70 (WRKY70), an NBS-LRR disease resistance protein (RPM1/RPS2), a mitogen-activated protein kinase kinase 6 (MKK1/2), a heat shock protein 90 (HSP90), a phenylalanine ammonia-lyase (PAL), a peroxidase (PER), a glutathione-S-transferase 24 (GST), and a β-1,3-glucanase (GLU). The expressions patterns of all nine genes demonstrated by qRT-PCR agreed well with DGE analysis. Among them, four genes (RPM1/RPS2, HSP90, GST, and GLU) were induced mainly after 24 h of post-inoculation, and five genes (SGT, WRKY70, MKK1/2, PAL, and PER) showed higher transcript levels in infected plants at 48 h of interaction.

Bottom Line: In this study, we determined the most abundant differentially expressed signaling pathways of up-regulated genes in foxtail millet and identified significantly up-regulated genes.Expression levels of the genes were also compared between a resistant cultivar Shilixiang and a susceptible cultivar Yugu-1, and the result indicated that expression level of Shilixiang is higher than that of Yugu-1.This study reveals the relatively comprehensive mechanisms of rust-responsive transcription in foxtail millet.

View Article: PubMed Central - PubMed

Affiliation: Department of plant protect, Millet Institute, Hebei Academy of Agricultural and Forestry Sciences, National Foxtail Millet Improvement Center, Minor Cereal Crops Laboratory of Hebei Province, Shijiazhuang, China.

ABSTRACT
Foxtail millet (Setaria italica) is an important food and fodder grain crop that is grown for human consumption. Production of this species is affected by several plant diseases, such as rust. The cultivar Shilixiang has been identified as resistant to the foxtail millet rust pathogen, Uromyces setariae-italicae. In order to identify signaling pathways and genes related to the plant's defense mechanisms against rust, the Shilixiang cultivar was used to construct a digital gene expression (DGE) library during the interaction of foxtail millet with U. setariae-italicae. In this study, we determined the most abundant differentially expressed signaling pathways of up-regulated genes in foxtail millet and identified significantly up-regulated genes. Finally, quantitative real-time polymerase chain reaction (qRT-PCR) analysis was used to analyze the expression of nine selected genes, and the patterns observed agreed well with DGE analysis. Expression levels of the genes were also compared between a resistant cultivar Shilixiang and a susceptible cultivar Yugu-1, and the result indicated that expression level of Shilixiang is higher than that of Yugu-1. This study reveals the relatively comprehensive mechanisms of rust-responsive transcription in foxtail millet.

Show MeSH
Related in: MedlinePlus