Characterization of the Rosellinia necatrix Transcriptome and Genes Related to Pathogenesis by Single-Molecule mRNA Sequencing

Kim, Hyeongmin; Lee, Seung-Jae; Jo, Ick-Hyun; Lee, Jinsu; Bae, Wonsil; Kim, Hye Min; Won, Kyungho; Hyun, Tae Kyung; Ryu, Hojin

doi:10.5423/ppj.oa.03.2017.0046

Cited by 7 publications

(12 citation statements)

References 30 publications

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“…The number of predicted genes (12,104) obtained in this study is congruent with data from previous transcriptomes from R. necatrix (10,616 [12];), as well as other plant pathogenic Ascomycota, such as Fusarium graminearum (13,332 genes [22];), Valsa mali (13,046 genes [11];), or Magnaporte oryzae (11,101 genes [23];). When comparing gene expression profiles between R. necatrix infecting avocado roots or growing on PDA medium, a number of transcripts were related with major fungal traits involved in the interaction with the host, among others, CWDE [24], production of toxic compounds and detoxification of those produced by the host, or potential effectors.…”

Section: Discussionsupporting

confidence: 86%

“…Transcriptome analysis of R. necatrix strains growing on rich medium, has recently been addressed as an alternative to provide insights into plant pathogenicity mechanisms used by this ascomycete [12, 13]. However, neither of the two studies was carried out using R. necatrix directly interacting with a host.…”

Section: Discussionmentioning

confidence: 99%

“…The transcriptome analysis of the hypovirulent strain W97, infected with the megabirnavirus 1 (RNmbv1), revealed that primary and secondary metabolism, as well as genes encoding transcriptional regulators, plant cell wall-degradating enzymes (CWDE), and toxin production such as cytochalasin E, were greatly disturbed in the hypovirulent strain. In another study, the transcriptome analysis of the virulent R. necatrix strain (KACC40445) identified 10,616 full-length transcripts among which, pathogen related effectors and CWDE encoding genes were predicted [12]. Data presented in both transcriptomics studies are a valuable resource of genetic information; however, to get a deep insight into pathogenesis of R. necatrix a comprehensive transcriptomic analysis of a virulent R. necatrix strain interacting with its host is necessary.…”

Section: Introductionmentioning

confidence: 99%

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Transcriptome analysis of the fungal pathogen Rosellinia necatrix during infection of a susceptible avocado rootstock identifies potential mechanisms of pathogenesis

et al. 2019

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BackgroundWhite root rot disease caused by Rosellinia necatrix is one of the most important threats affecting avocado productivity in tropical and subtropical climates. Control of this disease is complex and nowadays, lies in the use of physical and chemical methods, although none have proven to be fully effective. Detailed understanding of the molecular mechanisms underlying white root rot disease has the potential of aiding future developments in disease resistance and management. In this regard, this study used RNA-Seq technology to compare the transcriptomic profiles of R. necatrix during infection of susceptible avocado ‘Dusa’ roots with that obtained from the fungus cultured in rich medium.ResultsThe transcriptomes from three biological replicates of R. necatrix colonizing avocado roots (RGA) and R. necatrix growing on potato dextrose agar media (RGPDA) were analyzed using Illumina sequencing. A total of 12,104 transcripts were obtained, among which 1937 were differentially expressed genes (DEG), 137 exclusively expressed in RGA and 160 in RGPDA. During the root infection process, genes involved in the production of fungal toxins, detoxification and transport of toxic compounds, hormone biosynthesis, gene silencing and plant cell wall degradation were overexpressed. Interestingly, 24 out of the 137 contigs expressed only during R. necatrix growth on avocado roots, were predicted as candidate effector proteins (CEP) with a probability above 60%. The PHI (Pathogen Host Interaction) database revealed that three of the R. necatrix CEP showed homology with previously annotated effectors, already proven experimentally via pathogen-host interaction.ConclusionsThe analysis of the full-length transcriptome of R. necatrix during the infection process is suggesting that the success of this fungus to infect roots of diverse crops might be attributed to the production of different compounds which, singly or in combination, interfere with defense or signaling mechanisms shared among distinct plant families. The transcriptome analysis of R. necatrix during the infection process provides useful information and facilitates further research to a more in -depth understanding of the biology and virulence of this emergent pathogen. In turn, this will make possible to evolve novel strategies for white root rot management in avocado.

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Section: Discussionsupporting

confidence: 86%

Section: Discussionmentioning

confidence: 99%

Section: Introductionmentioning

confidence: 99%

See 1 more Smart Citation

Transcriptome analysis of the fungal pathogen Rosellinia necatrix during infection of a susceptible avocado rootstock identifies potential mechanisms of pathogenesis

et al. 2019

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show abstract

“…Transcriptome analysis has recently been addressed as an alternative to provide insights into plant pathogenicity mechanisms used by R. necatrix [12,13]. However, neither of the two studies was carried out using R. necatrix directly interacting with a host.…”

Section: Discussionmentioning

confidence: 99%

Transcriptome analysis of the fungal pathogen Rosellinia necatrix during infection of a susceptible avocado rootstock identifies potential mechanisms of pathogenesis

Zumaquero

Kanematsu

Nakayashiki

et al. 2019

Preprint

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Background White root rot disease caused by Rosellinia necatrix is one of the most important threats affecting avocado productivity in tropical and subtropical climates. Control of this disease is complex and nowadays, lies in the use of physical and chemical methods, although none have proven to be fully effective. Detailed understanding of the molecular mechanisms underlying white root rot disease has the potential of aiding future developments in disease resistance and management. In this regard, this study used RNA-Seq technology to compare the transcriptomic profiles of R. necatrix during infection of susceptible avocado `Dusa´ roots with that obtained from the fungus cultured in rich medium. Results The transcriptomes from three biological replicates of R. necatrix colonizing avocado roots (RGA) and R. necatrix growing on potato dextrose agar media (RGPDA) were analyzed using Illumina sequencing. A total of 12,104 transcripts were obtained, among which 1,937 were differentially expressed genes (DEG), 137 exclusively expressed in RGA and 160 in RGPDA. During the root infection process, genes involved in the production of fungal toxins, detoxification and transport of toxic compounds, hormone biosynthesis, gene silencing and plant cell wall degradation were overexpressed. Interestingly, 24 out of the 137 contigs expressed only during R. necatrix growth on avocado roots, were predicted as candidate effector proteins (CEP) with a probability above 60%. The PHI (Pathogen Host Interaction) database revealed that three of the R. necatrix CEP showed homology with previously annotated effectors, already proven experimentally via pathogen-host interaction. Conclusions The analysis of the full-length transcriptome of R. necatrix during the infection process is suggesting that the success of this fungus to infect roots of diverse crops might be attributed to the production of a wide range of compounds which, singly or in combination, interfere with defense or signaling mechanisms shared among different plant families. The transcriptome analysis of R. necatrix during the infection process provides useful information and facilitates further research to a more in -depth understanding of the biology and virulence of this emergent pathogen. In turn, this will make possible to evolve novel strategies for white root rot management in avocado.

show abstract

“…The transcriptome analysis of the hypovirulent strain W97, infected with the megabirnavirus 1 (RNmbv1), revealed that primary and secondary metabolism, as well as genes encoding transcriptional regulators, plant cell walldegradating enzymes (CWDE), and toxin production such as cytochalasin E, were greatly disturbed in the hypovirulent strain. In another study, the transcriptome analysis of the virulent R. necatrix strain (KACC40445) identified 10,616 full-length transcripts among which, pathogen related effectors and CWDE encoding genes were predicted [12]. Data presented in both transcriptomics studies are a analysis was also applied to the Top 100 over-expressed genes (Fig.…”

Section: Introductionmentioning

confidence: 99%

Transcriptome analysis of the fungal pathogen Rosellinia necatrix during infection of a susceptible avocado rootstock identifies potential mechanisms of pathogenesis

Zumaquero

Kanematsu

Nakayashiki

et al. 2019

Preprint

View full text Add to dashboard Cite

Background White root rot disease caused by Rosellinia necatrix is one of the most important threats affecting avocado productivity in tropical and subtropical climates. Control of this disease is complex and nowadays, lies in the use of physical and chemical methods, although none have proven to be fully effective. Detailed understanding of the molecular mechanisms underlying white root rot disease has the potential of aiding future developments in disease resistance and management. In this regard, this study used RNA-Seq technology to compare the transcriptomic profiles of R. necatrix during infection of susceptible avocado `Dusa´ roots with that obtained from the fungus cultured in rich medium. Results The transcriptomes from three biological replicates of R. necatrix colonizing avocado roots (RGA) and R. necatrix growing on potato dextrose agar media (RGPDA) were analyzed using Illumina sequencing. A total of 12,104 transcripts were obtained, among which 1,937 were differentially expressed genes (DEG), 137 exclusively expressed in RGA and 160 in RGPDA. During the root infection process, genes involved in the production of fungal toxins, detoxification and transport of toxic compounds, hormone biosynthesis, gene silencing and plant cell wall degradation were overexpressed. Interestingly, 24 out of the 137 contigs expressed only during R. necatrix growth on avocado roots, were predicted as candidate effector proteins (CEP) with a probability above 60%. The PHI (Pathogen Host Interaction) database revealed that three of the R. necatrix CEP showed homology with previously annotated effectors, already proven experimentally via pathogen-host interaction. Conclusions The analysis of the full-length transcriptome of R. necatrix during the infection process is suggesting that the success of this fungus to infect roots of diverse crops might be attributed to the production of different compounds which, singly or in combination, interfere with defense or signaling mechanisms shared among distinct plant families. The transcriptome analysis of R. necatrix during the infection process provides useful information and facilitates further research to a more in -depth understanding of the biology and virulence of this emergent pathogen. In turn, this will make possible to evolve novel strategies for white root rot management in avocado.

show abstract

Characterization of the Rosellinia necatrix Transcriptome and Genes Related to Pathogenesis by Single-Molecule mRNA Sequencing

Cited by 7 publications

References 30 publications

Transcriptome analysis of the fungal pathogen Rosellinia necatrix during infection of a susceptible avocado rootstock identifies potential mechanisms of pathogenesis

Transcriptome analysis of the fungal pathogen Rosellinia necatrix during infection of a susceptible avocado rootstock identifies potential mechanisms of pathogenesis

Transcriptome analysis of the fungal pathogen Rosellinia necatrix during infection of a susceptible avocado rootstock identifies potential mechanisms of pathogenesis

Transcriptome analysis of the fungal pathogen Rosellinia necatrix during infection of a susceptible avocado rootstock identifies potential mechanisms of pathogenesis

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