Abstract
In this study, we used high-throughput deep nucleotide sequencing to characterize the global transcriptional response of Nicotiana benthamiana plants to transient expression of the RepA protein from Oat dwarf virus (ODV). We identified 7,878 significantly differentially expressed genes (DEG) that mapped to 125 pathways, suggesting that comprehensive networks are involved in regulation of RepA-induced cell death. Of the 202 DEG associated with photosynthesis, expression of 195 was found to be downregulated, indicating a significant inhibition of photosynthesis in response to RepA expression, which is associated with chloroplast disruption and physiological changes. We focused our analysis on NbFDN1, a member of the ferredoxin protein family that participates in the chloroplast electron transport chain performing oxygenic photosynthesis, which was identified to directly interact with NbTsip1. We separately knocked down the expression of NbFDN1 and NbTsip1 using virus-induced gene silencing, and found that NbFDN1 silencing speeded up the development of RepA-induced cell death, unlike NbTsip1 silencing, which showed an opposite effect on RepA-induced response. Further study showed increased H 2 O 2 accumulation and a negative correlation between the transcripts of NbFDN1 and NbTsip1 in NbFDN1-silenced plants. Hence, we speculate that NbFDN1 has an effect on RepA-induced hypersensitive response-like response by modulating NbTsip1 transcription as well as H 2 O 2 production.
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Claims 9
Claim · model-written summary
RepA expression induced 7,878 differentially expressed genes mapping to 125 pathways.
- Taxon
- Nicotiana benthamiana
Nicotiana benthamianae1 - Outcome
- differentially expressed genes (DEG)e0
- Value
- 7,878e0
Organisms pictured · Representative pictures of the matched species, not figures from the paper.
Verbatim
e0“We identified 7,878 significantly differentially expressed genes (DEG) that mapped to 125 pathways”
e1“Nicotiana benthamiana plants”
Claim · model-written summary
Among photosynthesis-associated DEGs, 195 of 202 were downregulated after RepA expression.
- Taxon
- Nicotiana benthamianaNicotiana benthamianae1
- Outcome
- expressione0
- Direction
- downregulatede0
- Value
- 195e0
- Qualifier
- 202 DEG associated with photosynthesise0
Organisms pictured · Representative pictures of the matched species, not figures from the paper.
Verbatim
e0“Of the 202 DEG associated with photosynthesis, expression of 195 was found to be downregulated”
e1“Nicotiana benthamiana plants”
Claim · model-written summary
RepA expression significantly inhibited photosynthesis and was associated with chloroplast disruption.
- Taxon
- Nicotiana benthamianaNicotiana benthamianae1
- Treatment
- RepA expressione0
- Outcome
- photosynthesise0
- Direction
- inhibitione0
- Qualifier
- associated with chloroplast disruption and physiological changese0
Organisms pictured · Representative pictures of the matched species, not figures from the paper.
Verbatim
e0“indicating a significant inhibition of photosynthesis in response to RepA expression, which is associated with chloroplast disruption and physiological changes.”
e1“Nicotiana benthamiana plants”
Claim · model-written summary
NbFDN1 was found to interact directly with NbTsip1.
- Taxon
- Nicotiana benthamianaNicotiana benthamianae1
- Gene
- NbFDN1e0
- Outcome
- directly interact with NbTsip1e0
Organisms pictured · Representative pictures of the matched species, not figures from the paper.
Verbatim
e0“NbFDN1, a member of the ferredoxin protein family that participates in the chloroplast electron transport chain performing oxygenic photosynthesis, which was identified to directly interact with NbTsip1.”
e1“Nicotiana benthamiana plants”
Claim · model-written summary
NbFDN1 silencing accelerated RepA-induced cell death.
- Taxon
- Nicotiana benthamianaNicotiana benthamianae1
- Treatment
- NbFDN1 silencinge0
- Gene
- NbFDN1e0
- Outcome
- RepA-induced cell deathe0
- Direction
- speeded upe0
Not reportedComparator
Organisms pictured · Representative pictures of the matched species, not figures from the paper.
Verbatim
e0“NbFDN1 silencing speeded up the development of RepA-induced cell death”
e1“Nicotiana benthamiana plants”
Claim · model-written summary
NbTsip1 silencing had the opposite effect on RepA-induced response.
- Taxon
- Nicotiana benthamianaNicotiana benthamianae1
- Treatment
- NbTsip1 silencinge0
- Gene
- NbTsip1e0
- Outcome
- RepA-induced responsee0
Not reportedComparatorDirection
Organisms pictured · Representative pictures of the matched species, not figures from the paper.
Verbatim
e0“unlike NbTsip1 silencing, which showed an opposite effect on RepA-induced response.”
e1“Nicotiana benthamiana plants”
Claim · model-written summary
NbFDN1-silenced plants accumulated more H2O2.
- Taxon
- Nicotiana benthamianaNicotiana benthamianae1
- Treatment
- NbFDN1-silenced plantse0
- Outcome
- H 2 O 2 accumulatione0
- Direction
- increasede0
Not reportedComparator
Organisms pictured · Representative pictures of the matched species, not figures from the paper.
Verbatim
e0“Further study showed increased H 2 O 2 accumulation and a negative correlation between the transcripts of NbFDN1 and NbTsip1 in NbFDN1-silenced plants.”
e1“Nicotiana benthamiana plants”
Claim · model-written summary
NbFDN1 and NbTsip1 transcripts were negatively correlated in NbFDN1-silenced plants.
- Taxon
- Nicotiana benthamianaNicotiana benthamianae1
- Treatment
- NbFDN1-silenced plantse0
- Gene
- NbFDN1e0
- Outcome
- transcripts of NbFDN1 and NbTsip1e0
- Direction
- negative correlatione0
Organisms pictured · Representative pictures of the matched species, not figures from the paper.
Verbatim
e0“a negative correlation between the transcripts of NbFDN1 and NbTsip1 in NbFDN1-silenced plants.”
e1“Nicotiana benthamiana plants”
Claim · model-written summary
The authors speculate that NbFDN1 modulates RepA-induced hypersensitive response through NbTsip1 transcription and H2O2 production.
- Taxon
- Nicotiana benthamianaNicotiana benthamianae1
- Gene
- NbFDN1e0
- Outcome
- RepA-induced hypersensitive response-like responsee0
- Qualifier
- modulating NbTsip1 transcription as well as H 2 O 2 productione0
Organisms pictured · Representative pictures of the matched species, not figures from the paper.
Verbatim
e0“we speculate that NbFDN1 has an effect on RepA-induced hypersensitive response-like response by modulating NbTsip1 transcription as well as H 2 O 2 production.”
e1“Nicotiana benthamiana plants”
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