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A novel method of transcriptome interpretation reveals a quantitative suppressive effect on tomato immune signaling by two domains in a single pathogen effector protein

Overview of attention for article published in BMC Genomics, March 2016
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  • In the top 25% of all research outputs scored by Altmetric
  • Good Attention Score compared to outputs of the same age (78th percentile)
  • High Attention Score compared to outputs of the same age and source (82nd percentile)

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13 X users
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Citations

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7 Dimensions

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25 Mendeley
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1 CiteULike
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Title
A novel method of transcriptome interpretation reveals a quantitative suppressive effect on tomato immune signaling by two domains in a single pathogen effector protein
Published in
BMC Genomics, March 2016
DOI 10.1186/s12864-016-2534-4
Pubmed ID
Authors

Jay N. Worley, Marina A. Pombo, Yi Zheng, Diane M. Dunham, Christopher R. Myers, Zhangjun Fei, Gregory B. Martin

Abstract

Effector proteins are translocated into host cells by plant-pathogens to undermine pattern-triggered immunity (PTI), the plant response to microbe-associated molecular patterns that interferes with the infection process. Individual effectors are found in variable repertoires where some constituents target the same pathways. The effector protein AvrPto from Pseudomonas syringae has a core domain (CD) and C-terminal domain (CTD) that each promotes bacterial growth and virulence in tomato. The individual contributions of each domain and whether they act redundantly is unknown. We use RNA-Seq to elucidate the contribution of the CD and CTD to the suppression of PTI in tomato leaves 6 h after inoculation. Unexpectedly, each domain alters transcript levels of essentially the same genes but to a different degree. This difference, when quantified, reveals that although targeting the same host genes, the two domains act synergistically. AvrPto has a relatively greater effect on genes whose expression is suppressed during PTI, and the effect on these genes appears to be diminished by saturation. RNA-Seq profiles can be used to observe relative contributions of effector subdomains to PTI suppression. Our analysis shows the CD and CTD multiplicatively affect the same gene transcript levels with a greater relative impact on genes whose expression is suppressed during PTI. The higher degree of up-regulation versus down-regulation during PTI is plausibly an evolutionary adaptation against effectors that target immune signaling.

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X Demographics

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Mendeley readers

Mendeley readers

The data shown below were compiled from readership statistics for 25 Mendeley readers of this research output. Click here to see the associated Mendeley record.

Geographical breakdown

Country Count As %
United States 1 4%
Colombia 1 4%
Unknown 23 92%

Demographic breakdown

Readers by professional status Count As %
Researcher 8 32%
Student > Ph. D. Student 6 24%
Professor > Associate Professor 3 12%
Student > Master 3 12%
Student > Bachelor 1 4%
Other 2 8%
Unknown 2 8%
Readers by discipline Count As %
Agricultural and Biological Sciences 15 60%
Biochemistry, Genetics and Molecular Biology 5 20%
Engineering 1 4%
Unknown 4 16%
Attention Score in Context

Attention Score in Context

This research output has an Altmetric Attention Score of 8. This is our high-level measure of the quality and quantity of online attention that it has received. This Attention Score, as well as the ranking and number of research outputs shown below, was calculated when the research output was last mentioned on 25 August 2016.
All research outputs
#4,187,249
of 23,544,006 outputs
Outputs from BMC Genomics
#1,685
of 10,789 outputs
Outputs of similar age
#63,814
of 301,260 outputs
Outputs of similar age from BMC Genomics
#37
of 211 outputs
Altmetric has tracked 23,544,006 research outputs across all sources so far. Compared to these this one has done well and is in the 82nd percentile: it's in the top 25% of all research outputs ever tracked by Altmetric.
So far Altmetric has tracked 10,789 research outputs from this source. They receive a mean Attention Score of 4.7. This one has done well, scoring higher than 84% of its peers.
Older research outputs will score higher simply because they've had more time to accumulate mentions. To account for age we can compare this Altmetric Attention Score to the 301,260 tracked outputs that were published within six weeks on either side of this one in any source. This one has done well, scoring higher than 78% of its contemporaries.
We're also able to compare this research output to 211 others from the same source and published within six weeks on either side of this one. This one has done well, scoring higher than 82% of its contemporaries.