skip to main content
US FlagAn official website of the United States government
dot gov icon
Official websites use .gov
A .gov website belongs to an official government organization in the United States.
https lock icon
Secure .gov websites use HTTPS
A lock ( lock ) or https:// means you've safely connected to the .gov website. Share sensitive information only on official, secure websites.


This content will become publicly available on June 4, 2026

Title: Defense-Suppressive Fragments of RIN4 generated by AvrRpt2 Participate in NDR1-dependent Activation of RPS2
Abstract Plant nucleotide-binding, leucine-rich-repeat (NLR) immune receptors recognize pathogen effectors and activate immunity. The NLR RPS2 recognizes AvrRpt2, aPseudomonaseffector that promotes virulence by proteolytically cleaving a membrane-tethered host protein, RIN4. RIN4 cleavage by AvrRpt2 generates fragments that activate RPS2. A model for RPS2 activation by RIN4 destruction is consistent with the ectopic activity of RPS2 in plants lacking RIN4 but does not explain the link between AvrRpt2’s virulence activity and RPS2 activation. We found that non-membrane-tethered RIN4 derivatives are potent cytosolic activators of RPS2. Activation of RPS2 by these RIN4 derivatives, like AvrRpt2-induced activation, and unlike ectopic activation in the absence of RIN4, requires the defense signaling protein NDR1. Cleavage products of RIN4 produced by AvrRpt2 play contrasting roles in the activation of RPS2, with the membrane-tethered C-terminal fragment suppressing RPS2 and the non-membrane-tethered internal fragment, dependent on compatibility with the C-terminal fragment, overcoming its suppression of RPS2. HighlightsNon-membrane tethered derivatives of RIN4 activate RPS2-induced cell deathActivation of RPS2 by non-membrane-tethered derivatives of RIN4 requires NDR1AvrRpt2-induced cleavage fragments of RIN4 play contrasting roles in RPS2 activation  more » « less
Award ID(s):
1953509
PAR ID:
10657867
Author(s) / Creator(s):
; ; ; ; ; ; ; ; ;
Publisher / Repository:
bioRxiv
Date Published:
Format(s):
Medium: X
Sponsoring Org:
National Science Foundation
More Like this
  1. Summary Activation of nucleotide‐binding leucine‐rich repeat receptors (NLRs) results in immunity and a localized cell death. NLR cell death activity requires oligomerization and in some cases plasma membrane (PM) localization. The exact mechanisms underlying PM localization of NLRs lacking predicted transmembrane domains or recognizable lipidation motifs remain elusive.We used confocal microscopy, genetically encoded molecular tools and protein‐lipid overlay assays to determine whether PM localization of members of the Arabidopsis HeLo‐/RPW8‐like domain ‘helper’ NLR (RNL) family is mediated by the interaction with negatively charged phospholipids of the PM.Our results show that PM localization and stability of some RNLs and one CC‐type NLR (CNL) depend on the direct interaction with PM phospholipids. Depletion of phosphatidylinositol‐4‐phosphate from the PM led to a mis‐localization of the analysed NLRs and consequently inhibited their cell death activity. We further demonstrate homo‐ and hetero‐association of members of the RNL family. Our results provide new insights into the molecular mechanism of NLR localization and defines an important role of phospholipids for CNL and RNL PM localization and consequently, for their function.We propose that RNLs interact with anionic PM phospholipids and that RNL‐mediated cell death and immune responses happen at the PM. 
    more » « less
  2. Abstract Growing evidence suggests that organisms with narrow niche requirements are particularly disadvantaged in small habitat patches, typical of fragmented landscapes. However, the mechanisms behind this relationship remain unclear. Dietary specialists may be particularly constrained by the availability of their food resources as habitat area shrinks. For herbivorous insects, host plants may be filtered out of small habitat fragments by neutral sampling processes and deterministic plant community shifts due to altered microclimates, edge effects and browsing by ungulates.We examined the relationship between forest fragment area and the abundance of dietary‐specialist and dietary‐generalist larval Lepidoptera (caterpillars) and their host plants in the northeastern USA. We surveyed caterpillars and their host plants over 3 years in equal‐sized plots within 32 forest fragments varying in area between 3 and 1014 ha. We tested whether the abundances and species richness of dietary specialists increased more than those of dietary generalists with increasing fragment area and, if so, whether the difference could be explained by reduced host plant availability or increased browsing by white‐tailed deer (Odocoileus virginianus).The overall abundance of dietary specialists was positively related to fragment area; the relationship was substantially weaker for dietary generalists. There was notable variation among species within diet breadth groups, however. There was no effect of fragment area on the diversity of dietary‐specialist or dietary‐generalist caterpillars. Deer activity was not related to the abundances of either dietary‐generalist or dietary‐specialist caterpillars.Plant community composition was strongly associated with fragment area. Larger fragments were more likely to include host plants for both dietary‐specialist and dietary‐generalist caterpillars. Deer activity was correlated with decreased host plant availability for both groups, with a slightly stronger impact on host plants of dietary specialists. Although dietary specialists were more likely to lack host plants in fragments, the relationship between fragment area and host availability did not depend on caterpillar diet breadth.This study provides further evidence that decreasing patch area disproportionately impacts specialist consumers. Because this relationship was derived from equal‐sized plots, it is robust to some criticisms levelled at fragmentation research. The mechanisms for specialist consumer declines, however, remain elusive. 
    more » « less
  3. AbstractThe relative effectiveness of reflection either through student generation of contrasting cases or through provided contrasting cases is not well‐established for adult learners. This paper presents a classroom study to investigate this comparison in a college level Computer Science (CS) course where groups of students worked collaboratively to design database access strategies. Forty‐four teams were randomly assigned to three reflection conditions ([GEN] directive to generate a contrasting case to the student solution and evaluate their trade‐offs in light of the principle, [CONT] directive to compare the student solution with a provided contrasting case and evaluate their trade‐offs in light of a principle, and [NSI] a control condition with a non‐specific directive for reflection evaluating the student solution in light of a principle). In the CONT condition, as an illustration of the use of LLMs to exemplify knowledge transformation beyond knowledge construction in the generation of an automated contribution to a collaborative learning discussion, an LLM generated a contrasting case to a group's solution to exemplify application of an alternative problem solving strategy in a way that highlighted the contrast by keeping many concrete details the same as those the group had most recently collaboratively constructed. While there was no main effect of condition on learning based on a content test, low‐pretest student learned more from CONT than GEN, with NSI not distinguishable from the other two, while high‐pretest students learned marginally more from the GEN condition than the CONT condition, with NSI not distinguishable from the other two. Practitioner notesWhat is already known about this topicReflection during or even in place of computer programming is beneficial for learning of principles for advanced computer science when the principles are new to students.Generation of contrasting cases and comparing contrasting cases have both been demonstrated to be effective as opportunities to learn from reflection in some contexts, though questions remain about ideal applicability conditions for adult learners.Intelligent conversational agents can be used effectively to deliver stimuli for reflection during collaborative learning, though room for improvement remains, which provides an opportunity to demonstrate the potential positive contribution of large language models (LLMs).What this paper addsThe study contributes new knowledge related to the differences in applicability conditions between generation of contrasting cases and comparison across provided contrasting cases for adult learning.The paper presents an application of LLMs as a tool to provide contrasting cases tailored to the details of actual student solutions.The study provides evidence from a classroom intervention study for positive impact on student learning of an LLM‐enabled intervention.Implications for practice and/or policyAdvanced computer science curricula should make substantial room for reflection alongside problem solving.Instructors should provide reflection opportunities for students tailored to their level of prior knowledge.Instructors would benefit from training to use LLMs as tools for providing effective contrasting cases, especially for low‐prior‐knowledge students. 
    more » « less
  4. AbstractActivation of the cAMP pathway is one of the common mechanisms underlying long‐term potentiation (LTP). In theDrosophilamushroom body, simultaneous activation of odour‐coding Kenyon cells (KCs) and reinforcement‐coding dopaminergic neurons activates adenylyl cyclase in KC presynaptic terminals, which is believed to trigger synaptic plasticity underlying olfactory associative learning. However, learning induces long‐term depression (LTD) at these synapses, contradicting the universal role of cAMP as a facilitator of transmission. Here, we developed a system to electrophysiologically monitor both short‐term and long‐term synaptic plasticity at KC output synapses and demonstrated that they are indeed an exception in which activation of the cAMP–protein kinase A pathway induces LTD. Contrary to the prevailing model, our cAMP imaging found no evidence for synergistic action of dopamine and KC activity on cAMP synthesis. Furthermore, we found that forskolin‐induced cAMP increase alone was insufficient for plasticity induction; it additionally required simultaneous KC activation to replicate the presynaptic LTD induced by pairing with dopamine. On the other hand, activation of the cGMP pathway paired with KC activation induced slowly developing LTP, proving antagonistic actions of the two second‐messenger pathways predicted by behavioural study. Finally, KC subtype‐specific interrogation of synapses revealed that different KC subtypes exhibit distinct plasticity duration even among synapses on the same postsynaptic neuron. Thus, our work not only revises the role of cAMP in synaptic plasticity by uncovering the unexpected convergence point of the cAMP pathway and neuronal activity, but also establishes the methods to address physiological mechanisms of synaptic plasticity in this important model.image Key pointsAlthough presynaptic cAMP increase generally facilitates synapses, olfactory associative learning inDrosophila, which depends on dopamine and cAMP signalling genes, induces long‐term depression (LTD) at the mushroom body output synapses.By combining electrophysiology, pharmacology and optogenetics, we directly demonstrate that these synapses are an exception where activation of the cAMP–protein kinase A pathway leads to presynaptic LTD.Dopamine‐ or forskolin‐induced cAMP increase alone is not sufficient for LTD induction; neuronal activity, which has been believed to trigger cAMP synthesis in synergy with dopamine input, is required in the downstream pathway of cAMP.In contrast to cAMP, activation of the cGMP pathway paired with neuronal activity induces presynaptic long‐term potentiation, which explains behaviourally observed opposing actions of transmitters co‐released by dopaminergic neurons.Our work not only revises the role of cAMP in synaptic plasticity, but also provides essential methods to address physiological mechanisms of synaptic plasticity in this important model system. 
    more » « less
  5. Protein tandem mass spectrometry (MS/MS) often generates sequence-informative fragments from backbone bond cleavages near the termini. This lack of fragmentation in the protein interior is particularly apparent in native top-down MS. Improved sequence coverage, critical for reliable annotation of posttranslational modifications (PTMs) and sequence variants, may be obtained from internal fragments generated by multiple backbone cleavage events. However, internal fragment assignments can be error prone due to isomeric/isobaric fragments from different parts of a protein sequence. Also, internal fragment generation propensity depends on the chosen MS/MS activation strategy. Here, we examine internal fragment formation in electron capture dissociation (ECD) and electron transfer dissociation (ETD) following native and denaturing MS, as well as liquid chromatography (LC)/MS of several proteins. Experiments were undertaken on multiple instruments, including Q-ToF, Orbitrap, and high-field FT-ICR across four laboratories. ECD was performed at both ultrahigh vacuum and at similar pressure to ETD conditions. Two complementary software packages were used for data analysis. When feasible, ETD-higher-energy collision dissociation (ETD-HCD) MS3 was performed to validate/refute potential internal fragment assignments, including differentiating MS3 fragmentation behavior of radical vs. even-electron primary fragments. We show that, under typical operating conditions, internal fragments cannot be confidently assigned in ECD, nor ETD. On the other hand, such fragments, along with some b-type terminal fragments (not typically observed in ECD/ETD spectra) appear at atypical ECD operating conditions, suggesting they originate from a separate ion-electron activation process. Furthermore, atypical fragment ion types, e.g., x ions, are observed at such conditions as well as upon EThcD, presumably due to vibrational activation of radical z-type ions. 
    more » « less