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Global expression profiling of transcription factor genes provides new insights into pathogenicity and stress responses in the rice blast fungus.

Park SY, Choi J, Lim SE, Lee GW, Park J, Kim Y, Kong S, Kim SR, Rho HS, Jeon J, Chi MH, Kim S, Khang CH, Kang S, Lee YH - PLoS Pathog. (2013)

Bottom Line: Mutants of in planta inducible genes not only exhibited sensitive to oxidative stress but also failed to infect rice.These experimental validations clearly demonstrated the value of TF expression patterns in predicting the function of individual TF genes.The regulatory network of TF genes revealed by this study provides a solid foundation for elucidating how M. oryzae regulates its pathogenesis, development, and stress responses.

View Article: PubMed Central - PubMed

Affiliation: Department of Agricultural Biotechnology, Fungal Bioinformatics Laboratory, Center for Fungal Genetic Resources, and Center for Fungal Pathogenesis, Seoul National University, Seoul, Korea.

ABSTRACT
Because most efforts to understand the molecular mechanisms underpinning fungal pathogenicity have focused on studying the function and role of individual genes, relatively little is known about how transcriptional machineries globally regulate and coordinate the expression of a large group of genes involved in pathogenesis. Using quantitative real-time PCR, we analyzed the expression patterns of 206 transcription factor (TF) genes in the rice blast fungus Magnaporthe oryzae under 32 conditions, including multiple infection-related developmental stages and various abiotic stresses. The resulting data, which are publicly available via an online platform, provided new insights into how these TFs are regulated and potentially work together to control cellular responses to a diverse array of stimuli. High degrees of differential TF expression were observed under the conditions tested. More than 50% of the 206 TF genes were up-regulated during conidiation and/or in conidia. Mutations in ten conidiation-specific TF genes caused defects in conidiation. Expression patterns in planta were similar to those under oxidative stress conditions. Mutants of in planta inducible genes not only exhibited sensitive to oxidative stress but also failed to infect rice. These experimental validations clearly demonstrated the value of TF expression patterns in predicting the function of individual TF genes. The regulatory network of TF genes revealed by this study provides a solid foundation for elucidating how M. oryzae regulates its pathogenesis, development, and stress responses.

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A model for the regulatory network controlling the expression of conidiation-specific TF genes.Solid diamonds indicate the genes deleted in ΔMohox2, ΔMohox4, ΔMoaps1, ΔMoaps2, ΔMoleu3, and ΔMonit4. Spheres correspond to up-regulated (red line) or down-regulated (blue line) TF genes in one or more of these mutants. Different colors of the sphere indicate different TF families: Green (Zn2Cys6); black (C2H2); violet (Homobox); orange (APSES); red (GATA); blue (bHLH); olive (Myb); violet (Forkhead). A detailed description of these genes is shown in Tables S5 and S6.
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ppat-1003350-g007: A model for the regulatory network controlling the expression of conidiation-specific TF genes.Solid diamonds indicate the genes deleted in ΔMohox2, ΔMohox4, ΔMoaps1, ΔMoaps2, ΔMoleu3, and ΔMonit4. Spheres correspond to up-regulated (red line) or down-regulated (blue line) TF genes in one or more of these mutants. Different colors of the sphere indicate different TF families: Green (Zn2Cys6); black (C2H2); violet (Homobox); orange (APSES); red (GATA); blue (bHLH); olive (Myb); violet (Forkhead). A detailed description of these genes is shown in Tables S5 and S6.

Mentions: Among the remaining 41 genes, TF116 (MGG_02474.6, C2H2 family) and TF192 (MGG_03711.6, Zn2Cys6) were down-regulated in all mutants, suggesting that their expression requires the mutated genes, whereas three genes, including TF035 (MGG_07319.6, GATA type), TF220 (MGG_06243.6, Zn2Cys6), and TF269 (MGG_09829.6, Zn2Cys6), were up-regulated in all mutants. Expression of several genes were up- or down-regulated only in one mutant: TF094 (MGG_00373.6, C2H2) and TF150 (MGG_06507.6, C2H2) in ΔMohox2; TF206 (MGG_04951.6, Zn2Cys6), TF260 (MGG_09263.6, Zn2Cys6), TF231 (MGG_07131.6, Zn2Cys6) in Δ Mohox4; TF241 (MGG_07681.6, Zn2Cys6), TF246 (MGG_08094.6, Zn2Cys6), and TF268 (MGG_09825.6, Zn2Cys6) in ΔMoaps1 ;TF271 (MGG_09950.6, Zn2Cys6), MoFOK1, MoHOX3 in ΔMoAPS2; TF263 (MGG_09312.6, Zn2Cys6), TF117 (MGG_02505.6, C2H2), and MoHOX8 in ΔMonit4. In addition, expression of TF134 (MGG_02845.6, C2H2), TF008 (MGG_10837.6, bHLH), and TF276 (MGG_10528.6, Zn2Cys6) seems to require both MoHOX2 and MoHOX4, while MoHOX1 requires only MoAPS2 and is down-regulated in ΔMoaps1, ΔMoleu3 and ΔMonit4. Based on the results shown in Figure 6, we developed a model for the regulatory network controlling the expression of conidiation-specific TF genes (Figure 7).


Global expression profiling of transcription factor genes provides new insights into pathogenicity and stress responses in the rice blast fungus.

Park SY, Choi J, Lim SE, Lee GW, Park J, Kim Y, Kong S, Kim SR, Rho HS, Jeon J, Chi MH, Kim S, Khang CH, Kang S, Lee YH - PLoS Pathog. (2013)

A model for the regulatory network controlling the expression of conidiation-specific TF genes.Solid diamonds indicate the genes deleted in ΔMohox2, ΔMohox4, ΔMoaps1, ΔMoaps2, ΔMoleu3, and ΔMonit4. Spheres correspond to up-regulated (red line) or down-regulated (blue line) TF genes in one or more of these mutants. Different colors of the sphere indicate different TF families: Green (Zn2Cys6); black (C2H2); violet (Homobox); orange (APSES); red (GATA); blue (bHLH); olive (Myb); violet (Forkhead). A detailed description of these genes is shown in Tables S5 and S6.
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Related In: Results  -  Collection

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ppat-1003350-g007: A model for the regulatory network controlling the expression of conidiation-specific TF genes.Solid diamonds indicate the genes deleted in ΔMohox2, ΔMohox4, ΔMoaps1, ΔMoaps2, ΔMoleu3, and ΔMonit4. Spheres correspond to up-regulated (red line) or down-regulated (blue line) TF genes in one or more of these mutants. Different colors of the sphere indicate different TF families: Green (Zn2Cys6); black (C2H2); violet (Homobox); orange (APSES); red (GATA); blue (bHLH); olive (Myb); violet (Forkhead). A detailed description of these genes is shown in Tables S5 and S6.
Mentions: Among the remaining 41 genes, TF116 (MGG_02474.6, C2H2 family) and TF192 (MGG_03711.6, Zn2Cys6) were down-regulated in all mutants, suggesting that their expression requires the mutated genes, whereas three genes, including TF035 (MGG_07319.6, GATA type), TF220 (MGG_06243.6, Zn2Cys6), and TF269 (MGG_09829.6, Zn2Cys6), were up-regulated in all mutants. Expression of several genes were up- or down-regulated only in one mutant: TF094 (MGG_00373.6, C2H2) and TF150 (MGG_06507.6, C2H2) in ΔMohox2; TF206 (MGG_04951.6, Zn2Cys6), TF260 (MGG_09263.6, Zn2Cys6), TF231 (MGG_07131.6, Zn2Cys6) in Δ Mohox4; TF241 (MGG_07681.6, Zn2Cys6), TF246 (MGG_08094.6, Zn2Cys6), and TF268 (MGG_09825.6, Zn2Cys6) in ΔMoaps1 ;TF271 (MGG_09950.6, Zn2Cys6), MoFOK1, MoHOX3 in ΔMoAPS2; TF263 (MGG_09312.6, Zn2Cys6), TF117 (MGG_02505.6, C2H2), and MoHOX8 in ΔMonit4. In addition, expression of TF134 (MGG_02845.6, C2H2), TF008 (MGG_10837.6, bHLH), and TF276 (MGG_10528.6, Zn2Cys6) seems to require both MoHOX2 and MoHOX4, while MoHOX1 requires only MoAPS2 and is down-regulated in ΔMoaps1, ΔMoleu3 and ΔMonit4. Based on the results shown in Figure 6, we developed a model for the regulatory network controlling the expression of conidiation-specific TF genes (Figure 7).

Bottom Line: Mutants of in planta inducible genes not only exhibited sensitive to oxidative stress but also failed to infect rice.These experimental validations clearly demonstrated the value of TF expression patterns in predicting the function of individual TF genes.The regulatory network of TF genes revealed by this study provides a solid foundation for elucidating how M. oryzae regulates its pathogenesis, development, and stress responses.

View Article: PubMed Central - PubMed

Affiliation: Department of Agricultural Biotechnology, Fungal Bioinformatics Laboratory, Center for Fungal Genetic Resources, and Center for Fungal Pathogenesis, Seoul National University, Seoul, Korea.

ABSTRACT
Because most efforts to understand the molecular mechanisms underpinning fungal pathogenicity have focused on studying the function and role of individual genes, relatively little is known about how transcriptional machineries globally regulate and coordinate the expression of a large group of genes involved in pathogenesis. Using quantitative real-time PCR, we analyzed the expression patterns of 206 transcription factor (TF) genes in the rice blast fungus Magnaporthe oryzae under 32 conditions, including multiple infection-related developmental stages and various abiotic stresses. The resulting data, which are publicly available via an online platform, provided new insights into how these TFs are regulated and potentially work together to control cellular responses to a diverse array of stimuli. High degrees of differential TF expression were observed under the conditions tested. More than 50% of the 206 TF genes were up-regulated during conidiation and/or in conidia. Mutations in ten conidiation-specific TF genes caused defects in conidiation. Expression patterns in planta were similar to those under oxidative stress conditions. Mutants of in planta inducible genes not only exhibited sensitive to oxidative stress but also failed to infect rice. These experimental validations clearly demonstrated the value of TF expression patterns in predicting the function of individual TF genes. The regulatory network of TF genes revealed by this study provides a solid foundation for elucidating how M. oryzae regulates its pathogenesis, development, and stress responses.

Show MeSH
Related in: MedlinePlus