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The beneficial effects of dietary restriction on learning are distinct from its effects on longevity and mediated by depletion of a neuroinhibitory metabolite

  • Mihir Vohra,

    Roles Conceptualization, Methodology, Writing – original draft, Writing – review & editing

    Affiliation Department of Physiology, University of California San Francisco, San Francisco, California, United States of America

  • George A. Lemieux,

    Roles Methodology, Writing – original draft

    Affiliation Department of Physiology, University of California San Francisco, San Francisco, California, United States of America

  • Lin Lin,

    Roles Methodology

    Affiliation Department of Physiology, University of California San Francisco, San Francisco, California, United States of America

  • Kaveh Ashrafi

    Roles Conceptualization, Funding acquisition, Supervision, Writing – original draft, Writing – review & editing

    Kaveh.Ashrafi@ucsf.edu

    Affiliation Department of Physiology, University of California San Francisco, San Francisco, California, United States of America

    ORCID http://orcid.org/0000-0002-5887-0346

The beneficial effects of dietary restriction on learning are distinct from its effects on longevity and mediated by depletion of a neuroinhibitory metabolite

  • Mihir Vohra, 
  • George A. Lemieux, 
  • Lin Lin, 
  • Kaveh Ashrafi
PLOS
x

Abstract

In species ranging from humans to Caenorhabditis elegans, dietary restriction (DR) grants numerous benefits, including enhanced learning. The precise mechanisms by which DR engenders benefits on processes related to learning remain poorly understood. As a result, it is unclear whether the learning benefits of DR are due to myriad improvements in mechanisms that collectively confer improved cellular health and extension of organismal lifespan or due to specific neural mechanisms. Using an associative learning paradigm in C. elegans, we investigated the effects of DR as well as manipulations of insulin, mechanistic target of rapamycin (mTOR), AMP-activated protein kinase (AMPK), and autophagy pathways—processes implicated in longevity—on learning. Despite their effects on a vast number of molecular effectors, we found that the beneficial effects on learning elicited by each of these manipulations are fully dependent on depletion of kynurenic acid (KYNA), a neuroinhibitory metabolite. KYNA depletion then leads, in an N-methyl D-aspartate receptor (NMDAR)-dependent manner, to activation of a specific pair of interneurons with a critical role in learning. Thus, fluctuations in KYNA levels emerge as a previously unidentified molecular mechanism linking longevity and metabolic pathways to neural mechanisms of learning. Importantly, KYNA levels did not alter lifespan in any of the conditions tested. As such, the beneficial effects of DR on learning can be attributed to changes in a nutritionally sensitive metabolite with neuromodulatory activity rather than indirect or secondary consequences of improved health and extended longevity.

Author summary

Learning capacity is known to decline with age, and similar effects are also associated with several neurodegenerative diseases. Regulation of insulin signaling by dietary restriction (DR) modulates lifespan in many organisms, and it has been also shown to enhance learning and memory. However, the underlying mechanisms of these processes are largely unknown due to the difficulty in disentangling the systemic effects of DR from any potentially brain-specific effects. Here, we have analyzed the molecular effects of dietary restriction in C. elegans and show that associative learning is enhanced by reducing production of the tryptophan metabolite kynurenic acid (KYNA). KYNA is an antagonist of glutamatergic signaling in neurons, and we find that its depletion in the nervous system upon DR allows for increased activation of an interneuron that is both necessary and sufficient to mediate learning. Furthermore, we show that genetic or pharmacological modulation of diverse pathways known to be involved in the physiological responses to DR also enhance learning by reducing KYNA production, likely via the activation of a specific transcription factor. Finally, we demonstrate that KYNA levels have no effect on organismal lifespan, indicating that the effects of this KYNA-mediated response to dietary restriction is truly specific to brain function and not a secondary consequence of improved health or longevity. As altered KYNA levels are associated with neurodegenerative and psychiatric diseases, our results suggest that this component may be an important modulator of learning and memory in humans as well.

Introduction

Aging and various neurodegenerative disorders are characterized by progressive declines in learning capacity. There are well-established but poorly understood connections between molecular mechanisms that regulate longevity and those that influence learning and memory [1]. For example, reductions in insulin signaling are associated with lifespan extensions in many species [2,3]. In addition to its metabolic effects, dysregulation of insulin signaling has been implicated in cognitive defects such as Alzheimer disease [4]. In turn, dietary restriction (DR), a dietary intervention that is known to reduce insulin signaling and extend lifespan, is associated with enhancements in learning and memory and delays in cognitive decline, even in the context of neurodegenerative disorders [1,57]. However, given that DR or reductions in insulin signaling affect a wide range of cellular and organismal processes that can collectively promote longevity, it is unclear whether the beneficial effects elicited by these manipulations are due to direct effects on mechanisms of learning or due to myriad indirect consequences of lifespan extension and general improvements in neural maintenance and survival [7,8].

Caenorhabditis elegans provides an opportunity for investigating the connections between metabolism, aging, and learning. As in mammals, in C. elegans, various forms of dietary and caloric restriction extend lifespan [2,8]. And many of the findings that helped solidify the beneficial effects of reduced insulin signaling on lifespan extension initially emerged from studies on C. elegans [2]. Similarly, other manipulations that recapitulate some of the physiological responses to reduced food intake—for example, reductions in certain components of mechanistic target of rapamycin (mTOR) signaling and activation of AMP-activated protein kinase (AMPK), as well as activation of autophagy—promote longevity even when C. elegans have unlimited access to food [2].

C. elegans have also been used to investigate molecular underpinnings of learning and memory with paradigms for both short-term and long-term memory [912]. Many of the key molecular components implicated in mammalian learning are evolutionarily conserved in C. elegans, including N-methyl D-aspartate receptors (NMDARs), which are required for spatial memory and long-term potentiation in mice [13] and certain forms of associative learning in C. elegans [10]. One paradigm for studying short-term, associative learning in C. elegans is to pair food with butanone, an odorant that in naïve animals is only mildly attractive. This pairing results in subsequent attraction to butanone, which can be scored in a chemotaxis assay [11,12]. The proportion of animals attracted to butanone is calculated as a chemotaxis index, and a learning index is the difference between the chemotaxis index of conditioned animals and that of naïve animals that have not previously been exposed to butanone, which allows for normalized comparisons between treatments or strains that may differ in innate responses to butanone [11,12].

Using the butanone association assay, we investigated the effects of DR and perturbations of molecular mechanisms that change upon restricting nutritional intake—hereafter referred to as DR mimetics—on the learning capacity of C. elegans. Specifically, we investigated the effects of reductions in either insulin or mTOR signaling pathways, as well as the effects of pharmacological and genetic interventions that lead to activations of AMPK and autophagy. Here, we show that DR and these DR mimetics each result in learning enhancements. Despite their wide-ranging cellular and organismal effects, we find that the beneficial effects of each of these interventions on learning are fully dependent on reductions in kynurenic acid (KYNA), a tryptophan-derived metabolite that can be a competitive antagonist of NMDARs [14]. We identify the neuronal sites of KYNA production and KYNA-responsive, NMDAR-expressing neurons required for learning. Although each of DR, insulin, mTOR, AMPK, and autophagy has been under intensive investigation, their effects on the kynurenine pathway (KP) have remained largely unknown. We show that each of these interventions modulate transcription of a gene encoding key enzyme of the pathway and thereby provide a potential explanation of how molecular mechanisms that function in the periphery of the animal can affect levels of a neuronal metabolite. Finally, we show that changes in KYNA levels do not alter lifespans in the context of any of the dietary, genetic, or pharmacological interventions tested, suggesting that the effects of DR and its mimetics on learning can be disentangled from their broad effects on cellular maintenance and lifespan.

Results

NMDAR-dependent activity of a single pair of interneurons promotes learning

Associative learning helps animals predict outcomes based on environmental stimuli. We used the well-established butanone learning paradigm to investigate the effects of various manipulations on short-term learning capacity of C. elegans (S1 Fig) [11,12]. The learned attraction to butanone was notable after 30 min of pairing butanone with the food Escherichia coli (conditioning) and reached maximal levels by 1 hour (Fig 1A). This learned attraction was dependent on the previously identified ODR-1 receptor and function of the AWC neurons, the site of ODR-1 function in butanone sensation [15] (Fig 1B).

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Fig 1. Dietary restriction and activation of RIM interneurons enhance learning.

(A) Effects of various durations of conditioning on the learning index of wild-type animals. n = 6, *p < 0.05, ***p < 0.001 by 1-way ANOVA (Tukey). (B) Animals mutant in odr-1 or with nonfunctional AWC neurons fail to learn in response to butanone. n = 6, ***p < 0.001 by one-way ANOVA (Tukey). (C) Chronic dietary restriction (DR) (50%–90% of ad libitum food levels for animals’ entire lives) enhance learning. n = 3, *p < 0.05, **p < 0.01, ***p < 0.001 by 1-way ANOVA (Tukey). (D) Acute DR (DR for 1 hour) as well as a 1-hour fast enhance learning. n = 3–6, ***p < 0.001 by 1-way ANOVA (Tukey). (E) Effects of various durations of fasting prior to a 1-hour conditioning period on learning. n = 3–10, *p < 0.05, ***p < 0.001 by 1-way ANOVA (Tukey). (F) Animals mutant in glutamatergic receptors fail to learn. n = 6–10, ***p < 0.001 by 1-way ANOVA (Tukey). (G) Reconstitution of nmr-1 in only the RIM neurons is sufficient to restore learning capacity to nmr-1 mutants. Learning index values for nmr-1 mutants with nmr-1 reconstituted under its own promoter, an RIM-specific promoter, or an AVA-specific promoter are shown. tg denotes transgenic animals; non-tg denotes non-transgenic siblings. n = 3, *p < 0.05, **p < 0.01, ***p < 0.001 by 1-way ANOVA (Tukey). (H) Average intensity of spontaneous GCaMP transients in RIM from the 250-second imaging window aligned to a −5-second to 20-second time axis. (I) Average total intensity of RIM GCaMP fluorescence over the entire 250-second imaging window shows that conditioning significantly increases transient intensity, and fasting before conditioning has an even greater effect. n = 6–10, *p < 0.05, **p < 0.01, ***p < 0.001 by 1-way ANOVA (Tukey). (J) Chronic activation of RIM by using a constitutively active protein kinase C (PKC) encoded by pkc-1(gf) promotes learning even in animals fed ad libitum while silencing of RIM using an overactive potassium channel endcoded by unc-103(gf) abolishes learning capacity. tg denotes transgenic animals; non-tg denotes non-transgenic siblings. n = 4–9, *p < 0.05, ***p < 0.001 by 1-way ANOVA (Tukey). Animals in panels (F), (G), and (J) were fed ad libitum and conditioned for 1 hour. All data are represented as mean ± SEM. Underlying data can be found in S1 Data.

https://doi.org/10.1371/journal.pbio.2002032.g001

Associative learning to butanone can be enhanced if animals are given a brief fast before conditioning. This is not simply modulation of the attraction to butanone by fasting, because fasted animals that are re-fed in the absence of butanone do not exhibit any enhanced attraction to butanone [11]. Consistent with these prior results, we found that learned attraction to butanone was progressively enhanced by chronic DR, where animals were grown on decreasing concentrations of food for their entire lives prior to the assay (Fig 1C). The learning-enhancing effects of chronic DR were also observed upon a short-term fast or acute DR, where, immediately before conditioning, animals were cultured with decreasing concentrations of food for 1 hour had a similar effect (Fig 1D). While there was a progressive enhancement of learning by increasing the duration of the fast, additional benefits did not accrue beyond a 1-hour fast (Fig 1E). The extent of the learning enhancement seen with a 1-hour acute DR was the same as that seen in animals that were exposed to chronic DR.

In mammals, members of the ionotropic glutamate receptors of both the N-methyl D-aspartate (NMDA) and the non-NMDA classes are required for learning [13] and, in C. elegans, a requirement for glr-1, encoding a non-NMDA α-amino-3-hydroxy-5-methyl-4-isoxazolepropionic acid (AMPA) receptor (AMPAR), in butanone learning has been previously reported [11]. We found similar requirements for nmr-1 and nmr-2, which encode the 2 subunits of C. elegans NMDARs [10], and glr-4, which encodes a putative kainate receptor homolog [16] (Fig 1F).

While AMPARs and kainate receptors are widely expressed in the C. elegans nervous system, expression of NMDARs is restricted to only a few neurons, including the RIM and AVA interneurons [17]. Therefore, we chose to focus on the NMDAR-expressing neurons as a strategy for identifying specific neurons that are involved in this learning circuit. We previously found that activity of NMR-1 in AVA but not RIM controls the elevated feeding behavior that animals exhibit post-fast [18]. By contrast, reconstitution of wild-type nmr-1 in RIM conferred learning ability to nmr-1 mutants, while reconstitution of nmr-1 in AVA could rescue post-fast feeding behavior but not learning (Fig 1G and S2A Fig). Thus, while these behaviors reflect NMDAR-dependent food-related plasticity, they are mediated through distinct circuits.

To better understand the function of RIM in learning, we used a genetically encoded calcium reporter, GCaMP3.0, specifically expressed in RIM to measure intracellular Ca2+ transients as a proxy for neuronal activity. We first assessed the basal state of RIM activity by measuring spontaneous transients over an extended period (250 s). To compare average intensities of transients, we identified transients during the 250-second imaging window and plotted fluorescence over the following 20 seconds. Similar to other reports [19], spontaneous transients were largely absent in naïve, ad libitum fed animals. However, spontaneous Ca2+ transient intensity increased substantially after ad libitum fed animals were conditioned on butanone, and this was even further increased when animals were fasted before conditioning (Fig 1H). We also analyzed Ca2+ transients by measuring the total intensity from all transients during the entire 250-second imaging window and found that the results were similar (Fig 1I). In contrast, there was no change in transients when nmr-1 mutants were similarly fasted and conditioned (S2B and S2C Fig). As it is known that the presence of both NMR-1 and NMR-2 is required for NMDAR function [10,20], nmr-1 mutants lack functional NMDARs, indicating that learning requires NMDAR activity in RIM. Thus, RIM activity positively correlates with learned attraction to butanone.

To determine a causal relationship between RIM and learning, we genetically controlled RIM activity. We expressed a constitutively active protein kinase C (PKC) to chronically activate RIM [21] and an overactive potassium channel, UNC-103, to chronically silence it [22]. Activating RIM-enhanced butanone learning while silencing RIM blocked it (Fig 1J) without changing naïve chemotaxis (S2D Fig). Thus, not only do RIM’s Ca2+ dynamics correlate with learning, but its activity determines the extent to which learning occurs.

KYNA acts as an NMDAR neuromodulator to regulate learning

Given the requirement of NMDARs in the butanone learning paradigm, we next examined KYNA as a potential mechanism by which fasting may promote learning. This seemed possible because the tryptophan-derived KYNA (Fig 2A) is an endogenous NMDAR antagonist [14], and we previously found that, in the context of C. elegans feeding regulation, KYNA is depleted during fasting, which results in the activation of NMDAR-expressing neurons [18]. To demonstrate that the KYNA levels change in a time frame consistent with the effects of acute fasting on learning enhancement, we extracted KYNA from animals fasted for 30 min or 60 min and found it to be depleted to the same low levels as those reported for 2-hour-fasted animals [18] (Fig 2B). This was consistent with our finding that fasting beyond 1 hour does not further improve learning.

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Fig 2. Reduction of neuronally produced kynurenic acid (KYNA) mimics the effects of dietary restriction (DR) on learning.

(A) Schematic of the kynurenine pathway (KP). (B) KYNA levels are reduced upon fasting, as indicated by high-performance liquid chromatography (HPLC) measurements of whole-animal extracts. n = 5–18, **p < 0.01, ***p < 0.001 by 1-way ANOVA (Tukey). (C) Mutants with reduced KYNA levels have enhanced learning, while those with elevated levels have learning deficits. n = 6–10, *p < 0.05, ***p < 0.001 by 1-way ANOVA (Bonferroni). (D) The learning deficits of kmo-1 mutants but not those of nmr mutants are fully reversed by nkat-1 RNA interference (RNAi). n = 3, ***p < 0.001 by 2-way ANOVA (Bonferroni). (E) Learning index values for nkat-1 mutants with nkat-1 reconstituted under its own promoter, an RIM-specific promoter, or an RID-specific promoter. tg denotes transgenic animals; non-tg denotes non-transgenic siblings. n = 3, *p < 0.05, **p < 0.01, ***p < 0.001 by 1-way ANOVA (Tukey). (F) Average total intensity of RIM GCaMP fluorescence over the entire 250-second imaging window shows that conditioning and exposure to nkat-1 RNAi results in increased transient intensity. n = 6–10, *p < 0.05, **p < 0.01, ***p < 0.001 by 1-way ANOVA (Tukey). (G) Average total intensity of RIM GCaMP fluorescence over the entire 250-second imaging window shows that fasting and conditioning does not increase transient intensity in RIM in kmo-1 mutants. n = 6–10, ***p < 0.001 by 2-way ANOVA (Bonferroni). Animals in panels (C), (D), and (E) were fed ad libitum and conditioned for 1 hour. All data are represented as mean ± SEM. Underlying data can be found in S1 Data.

https://doi.org/10.1371/journal.pbio.2002032.g002

KYNA, a terminal metabolite of the KP, is synthesized from kynurenine by the action of kynurenine amino transferases, encoded by nkat genes in C. elegans [18]. However, if kynurenine is acted upon by kynurenine monooxygenase, encoded by kmo-1, and 3-hydroxyanthranilate 3,4-dioxygenase, encoded by haao-1, it is converted to the NMDAR agonist quinolinic acid (QA) [23] (Fig 2A). We and others have previously found that inactivation of nkat-1, which is expressed in only a small subset of neurons, results in depleted levels of KYNA, while kmo-1(tm4529) or haao-1(tm5627) mutants have elevated KYNA levels [18,24]. Consistent with a role for KYNA in inhibition of NMDAR signaling, kmo-1 and haao-1 mutants had learning defects, while nkat-1(ok566) mutants had enhanced learning that was not further elevated by fasting (Fig 2C and S3A Fig). To ascertain whether the learning improvements of nkat-1 were due to reduced KYNA or elevated QA, we examined nkat-1; kmo-1 double mutants, which are predicted to be doubly deficient for KYNA and QA biosynthetic capacity. We found them to have enhanced learning, suggesting that an inhibitory role for KYNA predominates in this behavior (Fig 2C).

We considered the possibility that the learning defects of KYNA-replete animals may be due to altered development or damage to learning circuits. However, prolonged conditioning rescued learning defects in kmo-1 and haao-1 mutants (S3B Fig). Similarly, fasting, which reduces KYNA levels even in kmo-1 and haao-1 mutants, partially reversed their learning deficits (S3A Fig). Chronic DR had similar effects on kmo-1 mutants (S3C Fig), whereas it did not further elevate nkat-1 mutants’ learning (S3D Fig). By contrast, neither depleting KYNA (via RNAi interference [RNAi] of nkat-1) nor prolonged conditioning conferred a similar increase in learning capacity to the nmr-1 or nmr-2 mutants (Fig 2D and S3B Fig). Together, these findings support the notion that NMDARs play a critical role in this learning paradigm and that levels of KYNA modulate the activity of these receptors without being fundamentally required for learning.

In C. elegans, nkat-1 and nmr genes are expressed in a small subset of neurons that are either in close proximity to each other or, as in the case of RIM, overlapping [18]. To determine the relationship between sites of KYNA production and the NMDAR-dependent response of RIM neurons to this neuromodulatory metabolite, we reconstituted nkat-1 in subsets of neurons in which nkat-1 is normally expressed. Reconstitution of nkat-1 in RIM was sufficient to blunt the enhanced learning of nkat-1 mutants. In contrast, reconstitution in another pair of nkat-1-expressing neurons, RID, had no effect on learning but could rescue nkat-1 mutants’ hyperactivated feeding (Fig 2E and S3E Fig). Given that KYNA has been shown to directly bind to the glycine site of NMDARs to decrease their activity [14], our findings are consistent with KYNA regulation of NMDAR activity in an autocrine fashion but do not rule out more complicated possibilities, including indirect effects on NMDAR activity (for example, through modulation of receptors) that, in turn, affect the release of glutamate or other agonists of NMDARs.

Finally, we found that KP metabolites affect Ca2+ influx into RIM in a manner consistent with behavioral results. As before, naïve, ad libitum fed animals on vector RNAi exhibited very little Ca2+ influx, which was increased upon conditioning (Fig 2F). Depletion of KYNA via nkat-1 RNAi resulted in animals with already elevated Ca2+ transients that were further increased upon conditioning (Fig 2F and S3F Fig). The elevated Ca2+ transients of ad libitum fed, KYNA-deficient animals were similar to those seen in wild-type animals that were fasted and conditioned (Fig 2G). By contrast, elevation of KYNA via kmo-1 mutation largely abrogated the elevation of Ca2+ transients seen upon conditioning of fasting animals (Fig 2G and S3G Fig). Together with previous results, these data are consistent with a model whereby levels of KYNA modulate responsiveness of RIM neurons in an NMDAR-dependent fashion.

KYNA also modulates NMDAR-dependent aversive learning behaviors

nmr-1 and nmr-2 are known to mediate aversive learning when C. elegans are exposed to high NaCl concentrations without food [10]. As with attractive butanone learning, the ability of animals to learn the aversive signal of high NaCl was diminished with excess levels of KYNA but promoted upon KYNA depletion (Fig 3A). Moreover, extending the conditioning period could enhance learning of wild-type animals to the level of nkat-1 mutants but had no effect on nmr-1 or nmr-2 mutants (Fig 3B). Fasting animals in a normal NaCl environment to deplete KYNA and subsequently conditioning them with high NaCl also enhanced learning in wild-type and kmo-1 animals to the level of nkat-1 mutants with no effect on nmr-1 or nmr-2 mutants (S4 Fig). Thus, KYNA-mediated modulation of learning is independent of the sensory modality or valence of the paradigm: elevated KYNA dampens learning and reduced KYNA enhances learning, regardless of whether the stimulus is olfactory or gustatory and whether the learned association is attractive or aversive.

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Fig 3. Kynurenic acid (KYNA) depletion enhances learning only in paradigms that require N-methyl D-aspartate receptors (NMDARs).

(A) NaCl aversion short-term training: learning index values for animals conditioned with high NaCl without food for 3 hours. n = 3–6, *p < 0.05, ***p < 0.001 by 1-way ANOVA (Bonferroni). (B) NaCl aversion long-term training: learning index values for animals conditioned with high NaCl without food for 6 hours. n = 3–6, *p < 0.05, ***p < 0.001 by 1-way ANOVA (Bonferroni). (C) NaCl attraction short-term training: learning index values for animals conditioned with high NaCl with food for 6 hours. n = 3–6, significance measured by 1-way ANOVA (Tukey). (D) Diacetyl short-term training: learning index values for animals conditioned with the odor diacetyl with food. n = 3, significance measured by 1-way ANOVA (Tukey). All data are represented as mean ± SEM. Underlying data can be found in S1 Data. n.s., not significant.

https://doi.org/10.1371/journal.pbio.2002032.g003

Further supporting an NMDAR-dependent mechanism for effects of KYNA on learning, we found that altering KYNA or QA levels had no effect on learning in 2 paradigms in which NMDAR activity is not required: learned attraction when food was paired with either high NaCl concentrations or the odor diacetyl [25,26] (Fig 3C and 3D). Thus, KYNA-mediated modulation of learning is a general phenomenon that occurs in NMDAR-dependent paradigms.

Genetic and pharmacological manipulations that mimic aspects of DR enhance learning

While many molecular components underlying learning are known and many mutations that impair learning have been studied, relatively few genetic manipulations are known to improve learning. One such manipulation is impairment of insulin signaling [11,27]. Consistent with this, we found down-regulation of the C. elegans insulin receptor daf-2 via RNAi was associated with improved learning in ad libitum fed animals with no further improvements upon fasting (Fig 4A). We reasoned that manipulating other nutritionally sensitive pathways might similarly identify molecular manipulations that improve learning. The mTOR1 and mTOR2 complexes sense nutrient availability and regulate processes ranging from fat storage and protein synthesis to development and lifespan [28]. We found that RNAi-mediated inactivations of let-363 (encoding the C. elegans mTOR homolog), daf-15 (encoding raptor), and rict-1 (encoding rictor) each led to elevated levels of learning in ad libitum fed animals (Fig 4A). This finding was reminiscent of mammalian studies reporting that chronic mTOR inhibition has procognitive effects [29,30]. Similarly, we found improved learning upon inactivation of the transcription factor mxl-3, which leads to autophagy and lipolysis in intestinal cells in response to nutrient deprivation [31], or upon treatment with phenformin, a biguanide compound that activates AMPK, a master regulator of energy homeostasis [32] (Fig 4A). None of these enhanced learning capacities were further improved by fasting (Fig 4A). All of these learning enhancements, however, required nmr-1 (Fig 4B).

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Fig 4. Genetic and pharmacological manipulations that mimic dietary restriction (DR) enhance learning by depleting kynurenic acid (KYNA).

(A) RNAi interference (RNAi)-mediated reductions in the insulin receptor (daf-2), the mechanistic target of rapamycin (mTOR) kinase (let-363), Raptor (daf-15), Rictor (rict-1), and a negative regulator of autophagy (mx1-3), as well as animals treated with an activator of AMP-activated protein kinase (AMPK) (phenformin), have enhanced learning capacity even when fed ad libitum. n = 3–6, *p < 0.05, ***p < 0.001 by 2-way ANOVA (Bonferroni). (B) The elevated learning capacities of genetic and pharmacological mimetics of DR are dependent on N-methyl D-aspartate receptor (NMDAR) signaling. n = 3, *p < 0.05, **p < 0.01, ***p < 0.001 by 2-way ANOVA (Bonferroni). (C) Learning index values for additional mutants in various neural nutrient sensing pathways: eat-2 mutants have a pharyngeal pumping defect, tph-1 mutants do not produce serotonin, flp-18 mutants lack a neuropeptide Y-like peptide, tdc-1 mutants do not produce tyramine or octopamine, tbh-1 mutants do not produce octopamine, and dbl-1 mutants lack a transforming growth factor β (TGFβ) ligand. n = 3–6, *p < 0.05, ***p < 0.001 by 1-way ANOVA (Tukey). (D) Average total intensity of RIM GCaMP fluorescence over the entire 250-second imaging window in animals exposed to genetic and pharmacological DR mimetics. n = 6–10, *p < 0.05, **p < 0.01, ***p < 0.001 by 1-way ANOVA (Tukey). (E) Learning index values for mutants with high KYNA exposed to genetic and pharmacological DR mimetics. n = 3, *p < 0.05, **p < 0.01, ***p < 0.001 by 2-way ANOVA (Bonferroni). (F) Learning index values for wild-type and nkat-1 animals given DR mimetics. To ensure that effects of DR mimetics in the context of KYNA depletion could be observed, animals were conditioned for only 15 minutes. n = 3, ***p < 0.001 by 2-way ANOVA (Bonferroni). (G) High-performance liquid chromatography (HPLC) measurements of steady-state KYNA levels for animals exposed to genetic and pharmacological DR mimetics. n = 5–18, *p < 0.05, **p < 0.01, ***p < 0.001 by 1-way ANOVA (Tukey). (H) HPLC measurements of steady-state KYNA levels for wild-type and daf-2(e1370) mutant animals. n = 2, *p < 0.05 by 2-tailed Student t test. Animals in panels (B), (C), (E), and (F) were ad libitum fed and conditioned. All data are represented as mean ± SEM. Underlying data can be found in S1 Data. n.s., not significant.

https://doi.org/10.1371/journal.pbio.2002032.g004

Enhanced learning capacity was not a general feature of manipulating food-related signaling pathways, as mutations in various biogenic amine or peptidergic signaling pathways implicated in other food-related plasticity behaviors had minor or no effects on learning. These included mutations in genes required for synthesis of serotonin (tph-1), that of a neuropeptide Y-like molecule (flp-18), octopamine (tbh-1), both tyramine and octopamine (tdc-1), and synthesis of a transforming growth factor β (TGFβ) superfamily member ligand (dbl-1). Each of these pathways have been implicated in various food-related behaviors: for example, reductions in serotonin are associated with reduced food levels or increased population density [33,34]. Similarly, tyramine, octopamine, and neuropepetide Y-like signaling pathways are thought to be active when C. elegans are food deprived [18,35,36]. Moreover, while DR or changes in insulin, mTOR, AMPK, and autophagy can extend lifespan, not all long-lived mutants had enhanced learning. Interestingly, eat-2 mutants, which are frequently used as a model of DR because of their defects in food intake and prolonged lifespan [3739], failed to learn (Fig 4C). The reason for this failure is not known; however, given that eat-2 mutants have defects in cholinergic signaling [37], it is possible that cholinergic signaling plays roles in the development or function of the learning circuit in addition to its role in promoting pharyngeal neuromuscular contractions required for feeding. Of note, eat-2 mutants were previously shown to have defective long-term memory but normal learning capacity [11]. The reason for the discrepancy between our results and the previous publication is not known, although both studies indicate that mutations in eat-2 do not confer enhancements on short-term learning.

The elevated learning capabilities of DR mimetics are KYNA dependent

We next sought to better understand the relationship of KYNA to learning enhancements caused by DR mimetics. As in fasting or depletion of KYNA, the learning enhancements seen in DR mimetics even in the presence of plentiful food supplies correlated with increases in Ca2+ transient intensity in RIM similar to control animals that had been fasted before conditioning (Fig 4D and S4 Fig). In each case, elevation of KYNA levels using either haao-1 or kmo-1 mutants caused a significant reduction in learning capacity (Fig 4E). We next exposed nkat-1 mutants to various DR mimetic treatments. However, given that nkat-1 mutants already have elevated learning, we decreased the time animals were conditioned with butanone to avoid being confounded by a ceiling in our ability to measure learning. Under these conditions, wild-type animals did not learn, but fasted or KYNA-deficient animals still did, albeit to a lesser degree than when the conditioning was for the standard 1-hour period used elsewhere in this study (Fig 4F). Treatment of nkat-1 mutants with fasting or exposure to any of the DR mimetics did not lead to further improvements in learning (Fig 4F), suggesting that DR mimetics and nkat-1 mutants function in the same pathway to enhance learning.

We next employed direct biochemical measurements of KYNA levels extracted from populations of whole animals exposed to each of the DR mimetics. As in the case of fasted animals, we found that with each of the DR mimetics, KYNA levels were already depleted, even under ad libitum fed conditions (Fig 4G). While there was a trend of decreased KYNA levels in animals exposed to daf-2 RNAi, the reduction was not statistically significant. Since these metabolite measurements were conducted on extracts from populations of animals and we could not be certain of the efficacy of daf-2 RNAi throughout the population, we used daf-2(e1370) mutants. KYNA levels of ad libitum fed daf-2 mutants were substantially reduced compared to those of wild-type animals (Fig 4H).

DR mimetics alter expression levels of KP genes

Although each of insulin, mTOR, AMPK, and autophagy are extensively studied, mechanisms through which these manipulations could result in changes in the KP have not been established. Moreover, while molecular components of insulin, mTOR, and AMPK signaling pathways are broadly expressed in C. elegans, the transcriptional regulator MXL-3 acts in the intestine [31], yet its inactivation leads to reduced KYNA levels and enhanced learning. Thus, there must be mechanisms that regulate KYNA levels even when working at sites distant from the neurons involved in KYNA production.

To better understand mechanisms that regulate flux through the KP, we first considered sites of expression of key enzymes that are required for generation or utilization of kynurenine, the substrate from which KYNA is produced. It has been previously reported that the tdo-2 gene encoding the first enzyme in the KP is expressed in the body wall muscle and skin-like epidermis of C. elegans [24]. Indeed, using a transcriptional fusion of the tdo-2 promoter to green fluorescent protein (GFP), we observed robust expression in the epidermis (Fig 5A and 5C). We found that kmo-1 shows epidermal expression as well (Fig 5B). Neither tdo-2 nor kmo-1 appeared to be expressed in the neurons that express nkat-1 (Fig 5B and 5C). This suggests that kynurenine must be transported across issues in order for RIM to produce KYNA.

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Fig 5. kmo-1 and nkat-1 have distinct tissue expression patterns and exhibit distinct transcriptional patterns of regulation.

(A) Cartoon representation of the anterior portion of adult C. elegans comparable to images in panels (B) and (C). Labeled anatomical structures correspond to those in panels (B) and (C). (B) Five-μm thick z-projection of an adult animal with mCherry under control of the kmo-1 promoter and green fluorescent protein (GFP) under control of the nkat-1 promoter. Left: anterior portion of the animal. Right: magnified view of the nerve ring showing no overlap of GFP and mCherry. Asterisk indicates pharynx; arrowhead indicates epidermis; arrow indicates intestine. (C) 5-μm thick z-projection of an adult animal with mCherry under control of the tdo-2 promoter and GFP under control of the nkat-1 promoter. Left: anterior portion of the animal. Right: magnified view of the nerve ring showing no overlap of GFP and mCherry. Asterisk indicates pharynx; arrowhead indicates epidermis; arrow indicates intestine. (D) Change in transcript levels of kynurenine pathway (KP) genes in animals treated with dietary restriction (DR) or DR mimetics as determined by real-time quantitative PCR (qPCR). Data are represented as fold change compared to ad libitum fed animals on vector (RNA interference [RNAi]). n = 3 biological replicates, *p < 0.05, **p < 0.01, ***p < 0.001 by 1-way ANOVA (Tukey). (E) Learning index values for hlh-30 mutants on let-363 and mxl-3 RNAi. n = 3, significance measured by 2-way ANOVA (Bonfferoni). (F) Learning index values for daf-16 mutants on DR mimetics. n = 3, **p < 0.01, ***p < 0.001 measured by 2-way ANOVA (Bonferroni). (G) Change in kmo-1 transcript levels in daf-16 mutants as determined by real-time qPCR. Data are represented as fold change compared to wild-type. n = 3 biological replicates, *p < 0.05, ***p < 0.001 by 1-way ANOVA (Tukey). All data are represented as mean ± SEM. Underlying data can be found in S1 Data.

https://doi.org/10.1371/journal.pbio.2002032.g005

We next examined tdo-2, kmo-1, and nkat-1 transcripts via quantitative PCR (qPCR) in animals given DR mimetics. Compared to ad libitum fed animals on vector RNAi, fasting and DR mimetics caused no significant changes in either tdo-2 or nkat-1 expression. In contrast, each of the mimetics resulted in a significant increase in kmo-1 expression (Fig 5D). Given coincident tissue expressions of tdo-2 and kmo-1 in a large tissue such as the epidermis, these data indicate that up-regulation of kmo-1 could compete with KYNA production by shunting kynurenine, the common substrate between NKAT-1 and KMO-1, down a different branch of the KP, resulting in reduced KYNA levels (Fig 2A).

To further understand the relationship between kmo-1 expression and DR, we set out to investigate the effects of several transcription factors with key roles in DR on kmo-1 expression. It is well established that insulin signaling causes functional inactivation the FOXO transcription factor DAF-16 and that many of the consequences of reduced insulin signaling seen in daf-2 mutants require daf-16 [3]. Similarly, mTOR and AMPK signals can be transduced via the NRF2 master regulator SKN-1 [3]. Additionally, mTOR activity affects HLH-30, a TFEB orthologue that competes with MXL-3 for binding sites and exerts opposing effects, and fasting increases hlh-30 expression [31,40]. Finally, cross-talk among many of these pathways has been shown. Thus, we sought to determine the effects of daf-16, skn-1, and hlh-30 reduction-of-function mutations on learning. We found that skn-1 mutants failed to chemotax, so they could not be properly assayed. Although other phenotypes resulting from loss of let-363 and mxl-3 are known to involve hlh-30 [31], hlh-30 mutants had no learning phenotype (Fig 5E), suggesting it may not play a role in regulating KYNA production relevant for this behavior. In contrast, daf-16 mutants had a learning defect that blocked the enhancements of fasting (Fig 5F). Moreover, loss of daf-16 not only blocked the enhanced learning of insulin-deficient animals, it abrogated the enhanced learning of various DR mimetics (Fig 5F), raising the possibility that insulin signaling pathway serves as a major link between various nutritionally sensitive pathways and the KP. Consistent with this, we found that, compared to wild-type, daf-16 mutants had significantly reduced kmo-1 transcript levels (Fig 5G). It is currently unknown whether kmo-1 is a direct target of DAF-16.

Effects of KYNA on learning are independent of lifespan effects

We considered the possibility that the effects of KYNA levels on learning may be secondary consequences of overall improvement of animal health and lifespan. Despite dramatically increased and reduced levels of KYNA, respectively, kmo-1 and nkat-1 mutants had wild-type lifespans. Furthermore, while reduction in insulin signaling, inactivation of various components of mTOR, activation of autophagy, or treatment of phenformin had a variety of effects on lifespan, none of their lifespans were altered by kmo-1 or nkat-1 mutations (Table 1 and S5 and S6 Figs). Our results indicate that the beneficial effects of DR on learning in C. elegans can be accounted for by reductions in KYNA and that this is independent of the effects of DR or its mimetics on lifespan.

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Table 1. Median lifes pans of animals on DR mimetics.

Median lifespans of animals given dietary restriction (DR) mimetics are not affected by kmo-1 or nkat-1 mutations. Significance was measured by logrank tests. See also S5 and S6 Figs for full survival curves.

https://doi.org/10.1371/journal.pbio.2002032.t001

Discussion

We have identified several pathways that enhance learning in C. elegans. In addition to previously reported effects of impaired insulin signaling, we found that decreased mTOR signaling, activated intestinal autophagy, and AMPK activation each lead to learning enhancements in well-fed animals that are similar in magnitude to the levels seen when animals are exposed to DR or a short fast. Because changes in insulin, mTOR, autophagy, and AMPK are all features of the physiological changes induced by DR, we termed them DR mimetics and predicted that they might share common mechanisms of modulating learning. This was indeed the case, as all of these DR mimetics enhanced learning via depletion of KYNA in the nervous system and consequent activity of a specific NMDAR-expressing neuron, RIM. Simply depleting KYNA mimics the effects of DR on learning, while KYNA elevation completely abrogates the learning enhancements caused by DR mimetics. Importantly, while the changes in KYNA were necessary and sufficient to account for the improvements in learning, KYNA levels did not alter lifespan in any of the conditions tested. Thus, the effects of DR on learning can be ascribed to a very specific mechanism rather than myriad benefits associated with DR.

Unlike the NMDARs, which were absolutely required for learning in this model, KYNA levels modulated the speed at which learning occurred, rather than being critically required for the occurrence of learning at all. KYNA depletion did not result in naïve attraction to butanone or aversion to NaCl but accelerated the rate at which the associations were formed. This is supported by the observation that nkat-1 RNAi and DR mimetics that depleted KYNA could still elicit learning even with a shortened conditioning period that was insufficient for learning in wild-type animals (Fig 4F). Furthermore, the learning deficits of kmo-1 or haao-1 mutants with high KYNA could be overcome with a longer conditioning period (S3B Fig).

Our data are consistent with a model whereby signals that promote activity of NMDARs in RIM neurons compete with locally produced KYNA, which antagonizes these receptors. This signaling balance determines the timeframe in which learning occurs. Genetic, pharmacological, or nutritional manipulations that enhanced learning did so by depleting the antagonizing effects of KYNA on NMDAR signaling (Fig 6).

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Fig 6. Model for how dietary restriction (DR) and DR mimetics enhance learning.

DR and DR mimetics decrease production of kynurenic acid (KYNA). This acts as a release of inhibition on N-methyl D-aspartate receptor (NMDAR) function. The result is a greater influx of Ca2+ into the RIM interneurons after conditioning, ultimately leading to learning.

https://doi.org/10.1371/journal.pbio.2002032.g006

The precise mechanisms by which KYNA antagonizes NMDARs remains unsettled. Two competing yet not mutually exclusive mechanisms for antagonistic effects on glutamatergic signaling have been proposed. One is based on the ability of KYNA to directly bind to the glycine-binding site of NMDARs [14], albeit with low affinity, making KYNA the only known potential endogenous antagonist of NMDARs. Another proposed mechanism is that KYNA reduces glutamate release via antagonism of α7 nicotinic acetylcholine receptors (α7nAChRs) [41,42]. While the combination of genetic, direct metabolite measurement, and neuronal imaging studies strongly indicated that KYNA exerts an inhibitory effect on NMDARs, our data cannot distinguish between direct and indirect effects. However, the finding that RIM is both the site of production of KYNA and KYNA-responsive NMDARs is consistent with KYNA being a direct, low-affinity, noncompetitive antagonist of NMDARs.

We found that KYNA depletion enhanced both attractive and aversive learning behaviors. Moreover, we found that reconstitution of nmr-1 in RIM was sufficient to confer learning to nmr-1 mutants in the butanone learning paradigm, and it has been reported that nmr-1 activity in RIM is required for aversive NaCl learning [10]. Butanone is sensed by the AWC neurons, while NaCl is sensed by ASE neurons. The fact that NMDAR function in RIM directs both attractive and aversive learning suggests that RIM activity generally enhances the ability of the C. elegans nervous system to form associations in response to environmental stimuli, even when those stimuli are sensed by distinct sensory neurons. Furthermore, we demonstrated the requirement of RIM in learning by artificially silencing it while artificial activation of RIM in the presence of butanone resulted in enhanced learning but did not confer any naïve attraction to this odor. Thus, activity of RIM promotes learning, but environmental cues dictate what the learned behavior is.

By modulating activity of RIM-localized NMDARs, KYNA levels provide a general strategy for linking metabolic state to learning capacity. Despite the highly localized requirement for KYNA in learning, its production could be affected by factors that act in tissues distant from the neuronal sites of KYNA production. Our findings raise the possibility that substrate availability can serve as a mechanism for linking peripherally acting pathways to neuronal KYNA production. In support of this, we found that tdo-2 and kmo-1, encoding for enzymes that are required for generation and utilization of kynurenine, respectively, have coincident expression patterns in the C. elegans epidermis, a relatively large tissue. In contrast, we found no evidence of expression of these genes in the few neurons that express nkat-1. Surprisingly, while each of DR, insulin, mTOR, AMPK, and autophagy has been intensely investigated, their effects on flux through the KP have remained largely unexplored. DR, as well as each of the DR mimetics that enhance learning, caused a significant up-regulation of kmo-1, potentially through the transcription factor FOXO/DAF-16. Since KMO-1 and NKAT-1 both utilize kynurenine as a substrate, the anatomical site of function of kmo-1, as well as its up-regulation, deprive NKAT-1 of access to kynurenine to produce KYNA. Of course, additional layers of regulation, including those that directly impinge on the activity of NKAT-1 and those that function in transport of metabolic intermediates across tissues, are also potential mechanisms by which distally acting factors could regulate KYNA levels. Reminiscent of the C. elegans findings, data in mammalian systems also indicates that manipulation of the KP in peripheral tissues can affect brain levels of the metabolites [43].

There is compelling evidence that, in mammals as in C. elegans, the KP has significant effects on mechanisms of neural plasticity and learning [44]. Mice lacking the primary KYNA-producing enzyme in the brain have enhanced hippocampal-dependent learning; hippocampal slices from these animals have increased extracellular glutamate and exhibit greater long-term potentiation amplitude in an NMDAR-dependent manner [45]. In contrast, adding exogenous KYNA to the brain impairs spatial learning and lowers extracellular glutamate levels in rats [46]. Additionally, dysregulation of the KP in humans has been implicated in Alzheimer disease [47,48], Huntington disease [49,50], Parkinson disease [51], depression [52], and schizophrenia [53]. Since changes in KP metabolite levels can slow progression of neurodegeneration in experimental animal systems, a potential direct link between the KP and diverse neurological disorders has been suggested [24,5456]. It remains to be seen whether (similar to C. elegans) KYNA levels fluctuate with nutrient status in mammals and if changes in the KP contribute to learning improvements associated with DR or genetic and pharmacological interventions that mimic aspects of DR.

We found that a short-term fast was as effective at enhancing learning as chronic DR mimetics such as decreased insulin or mTOR signaling. In mammals, long-term exposure to DR activates additional mechanisms, such as increased brain-derived neurotrophic factor (BDNF) expression and enhanced neurogenesis, that also contribute to learning [57,58]. Because the levels of KYNA are exquisitely sensitive to nutrient status, its role may be in making the nervous system quickly responsive to DR. We speculate that the effects that are sensed by KYNA may then be maintained via other mechanisms involved in DR-mediated plasticity: intermediate-term changes such as translation of synaptic proteins and long-term changes such as dendritic spine remodeling or neurogenesis.

Overall, this work points to KYNA as an evolutionarily conserved inhibitory neuromodulator whose levels directly link the metabolic state of the periphery to neuronal functions involved in learning. As such, they reveal a specific mechanism that underlies the beneficial effects of DR on learning independent of the effects on lifespan.

Materials and methods

Strains

Mutant and transgenic strains used in this study were: nmr-1(ak4), nmr-2(tm3785), glr-4(tm3239), kmo-1(tm4529), haao-1(tm4627), nkat-1(ok566), nkat-1(ok566); kmo-1(tm4529), odr-1(n1936), N2; Ex[Pceh-36:ced-3; Podr-1:GFP; Pmyo-2:mcherry] Is[Pmex-5:GFP:his58:odr1.7:tbb2], eat-2(ad465), tph-1(mg280), flp-18(gk3063), tdc-1(ok914), tbh-1(ok1196), dbl-1(nk3), daf-2(e1370), nmr-1(ak4); Ex[nmr-1p::nmr-1::bcsGFP; unc-122p::GFP], nmr-1(ak4); Ex[cex-1p::nmr-1::bcsGFP; unc-122p::GFP], nmr-1(ak4); Ex[rig-3p::nmr-1::bcsGFP; odr-1p::CHERRY], N2; Ex[cex-1p::pkc-1(gf)::bcsGFP; odr-1p::CHERRY], N2; Ex[cex-1p::unc-103(gf)::bcsCHERRY; unc-122p::GFP], nkat-1(ok566); Ex[nkat-1p::nkat-1::bcsGFP; unc-122p::GFP], nkat-1(ok566); Ex[cex-1p::nkat-1::bcsGFP; unc-122p::GFP], nkat-1(ok566); Ex[exp-1::nkat-1::bcsCHERRY; unc-122p::GFP], N2; Ex[cex-1p::GCaMP3.0; tdc-1p::CHERRY], nmr-1(ak4); Ex[cex-1p::GCaMP3.0; tdc-1p::CHERRY], kmo-1(tm4529); Ex[cex-1p::GCaMP3.0; tdc-1p::mCherry], N2; Ex[nkat-1p::GFP; kmo-1p::CHERRY], N2; Ex[nkat-1p::GFP; tdo-2p::CHERRY], daf-16(mu86), skn-1(EU1), and hlh-30(tm1978). Transgenic lines were prepared via microinjection of DNA plasmids. Unless described otherwise, C. elegans were cultured on agar plates with OP50 E. coli or HT-115 E. coli encoding relevant double-stranded RNAi.

Plasmids

Plasmids were constructed using standard techniques. cex-1p was used as an RIM-specific promoter. exp-1p was used to express genes in RID, and rig-3p was used for AVA expression.

Materials

Chemicals were purchased from Sigma. HT-115 E. coli encoding double-stranded RNAi were from existing libraries [59,60].

Short-term butanone associative learning assay

Short-term associative learning was performed as previously described [11]. Animals were grown, conditioned, and assayed at 20°C. When RNAi was used, animals were grown on vector RNAi until the L4 stage and transferred to the appropriate RNAi bacteria until adulthood; animals were conditioned on the corresponding RNAi bacteria.

Diacetyl learning assay

Diacetyl learning was performed as previously described [25]. Animals were grown, conditioned, and assayed at 20°C.

NaCl learning assay

NaCl learning was performed as previously described [26]. Animals were grown on plates with 50 mM NaCl and conditioned on plates with 150 mM NaCl with or without food for 3 hours or 6 hours. Animals were grown, conditioned, and assayed at 20°C.

Culture of C. elegans for metabolite determination

Synchronized wild-type L1 animals were grown in 15-ml liquid cultures of 20,000 animals in S-Medium and vector RNAi bacteria at an OD of 9 and allowed to shake at 150 RPM at 20°C. At the L3 stage, animals were collected, washed, and placed in new cultures with corresponding RNAi bacteria. (daf-2(e1370) mutants were cultured on OP50 bacteria at 15°C until L3 and then shifted to 20°C to prevent them from entering the dauer stage.) At the L4 stage, animals were collected, placed at 4°C, washed 3 times in S-basal, washed once in a 10 mM pH 6.0 potassium citrate buffer, frozen in liquid nitrogen, and placed at −80°C until metabolite extraction.

Metabolite extraction

Metabolite extraction and determination were performed as previously described [18]. Samples were thawed on ice and 5 g/ml ZrO beads (0.5 mm in diameter) were added. Samples were lysed using a bead beater at 4°C (6 cycles of 20 seconds on followed by 1 minute off). Lysed samples were separated from beads using a 200-μl pipet and then centrifuged. 20 μl 50% w/v trichloroacetic acid in water was added to supernatants to precipitate proteins and incubated at 4°C for 30 minutes. They were then centrifuged at 4°C and the deproteinized supernatants were collected. Extracts were frozen at −80°C until metabolite determination.

Metabolite determination

Extracts (100 μl per sample) were separated on a Zorbax Eclipse-plus C18 reverse-phase column (4.6 x 150 mm, 100 A pore size, 3.5 μm particle size) equipped with a 4.6 x 10 mM C18 guard column using an isocratic elution of a mobile phase containing 250 mM zinc acetate/acetic acid pH 6.2 and 4% (v/v) acetonitrile at a flow rate of 1 ml/minute. KYNA was detected with an inline fluorescence detector set at 350 nM excitation and 415 nM emission wavelengths. The concentration of KYNA in the extracts was determined by comparison of peak areas to that of standard samples of known concentration prepared in 5% trichloroacetic acid, eluted and detected under identical conditions.

Spontaneous Ca2+ transients

Day 1 adult Ex[cex-1p::GCaMP3.0; tdc-1p::CHERRY] animals were conditioned as in the short-term butanone associative learning assay, mounted on agarose pads, and immobilized with cover slips. They were imaged for 250 seconds using a 60x objective on a microscope with green epifluorescence acquiring 4x4 binned images at 2 Hz. A square 6x6 pixel region of interest was drawn around RIM, and integrated fluorescence intensity was measured in each frame. An average baseline intensity was calculated, and any values that were at least 30% more intense than baseline were scored as Ca2+ transients. The average total integrated intensity for each imaging period was then calculated.

Real-time qPCR

RNA extraction, cDNA preparation, and real-time qPCR were performed as previously described [61] from 3 biological replicates of each condition. Data were standardized to actin (act-1), and primer sequences are listed in S1 Table.

Lifespan assay

Lifespan assays were performed at 20°C according to standard protocols. Animals were grown on vector RNAi until the L4 stage and then transferred to the appropriate RNAi. Assays began at day 1 of adulthood with no more than 30 animals per plate. Every second day, animals were poked 3 times with a platinum wire. Those that did not move were scored as dead. Those that did move were scored as alive and moved to a new plate. Animals that could not be found were scored as censored.

Pharyngeal pumping

The number of contractions of the posterior pharyngeal bulb of L4 stage animals grown at 20°C was counted for 10 seconds as previously described [62]. To assay post-fast pharyngeal pumping, L4 animals were fasted on NGM plates for 2 hours and then contractions of the pharyngeal bulb were counted 5 minutes after they were returned to NGM plates with food.

Confocal microscopy

C. elegans were immobilized on 2% agarose pads containing NaN3 and imaged under a cover slip through a 60X (1.0 NA) water immersion objective using a Nikon C1si point-scanning confocal microscope equipped with 488-nm and 561-nm lasers as excitation sources for GFP and mCherry, respectively. Images presented are the average-intensity projections of 5 serial, 1-μm-spaced Z-sections.

Statistical analyses

On all bar graphs, bars represent mean + SEM. Two-tailed Student t tests were used for comparisons between 2 conditions. One- or two-way ANOVAs were used for comparisons between multiples conditions, and appropriate post-tests were used. When all conditions were compared to 1 control, a Tukey correction was used. When conditions were compared among themselves, a Bonferroni correction was used. Logrank tests were used for comparisons of survival curves.

Supporting information

S1 Fig. Short term associative learning assay, related to Fig 1.

Ad libitum fed animals at day 1 of adulthood were put through one of three conditioning manipulations before being assessed in a chemotaxis assay.

https://doi.org/10.1371/journal.pbio.2002032.s001

(TIF)

S2 Fig. Requirements of NMDAR and RIM function, related to Fig 1.

(A) Reconstitution of nmr-1 in AVA rescues its post-fast feeding phenotype. Pharyngeal pumping rate was measured when fasted animals were reintroduced to food. Values are represented as percentage of ad libitum fed pumping rate. tg denotes transgenic animals; non-tg denotes non-transgenic siblings. n = 10, *p<0.05, ***p<0.001 by one-way ANOVA (Tukey). (B) Average intensity of nmr-1 mutants’ spontaneous GCaMP transients in RIM from the 250s imaging window aligned to a -5s to 20s time axis. n = 6–10. (C) Average total intensity of RIM GCaMP flouresence in nmr-1 mutants over the entire 250s imaging window shows no significant change when fasted and conditioned. n = 6–10, by one-way ANOVA (Tukey). (D) Chronic activation or inactivation of RIM has no effect on naïve chemotaxis to butanone. n = 3–6, by one-way ANOVA (Tukey). All data are represented as mean ± SEM. Underlying data can be found in S1 Data.

https://doi.org/10.1371/journal.pbio.2002032.s002

(TIF)

S3 Fig. The beneficial effects of KYNA depletion on learning require NMDARs, related to Fig 2.

(A) Learning index values for animals that have been fasted for one hour and then conditioned for one hour. n = 6–10, ***p<0.001 by one-way ANOVA (Bonferroni). (B) Learning index values for animals that have been fasted for one hour and then conditioned for 4 hours. n = 6, ***p<0.001 by one-way ANOVA (Tukey). (C) Learning index values for kmo-1 mutants given chronic DR (50–90% of ad lib. food levels for their entire lives). n = 3, *p<0.05 bye one-way ANOVA (Tukey). (D) Learning index values for nkat-1 mutants given chronic DR (50–90% of ad lib. food levels for their entire lives). n = 3, significance measured by one-way ANOVA (Tukey). (E) Reconstitution of nkat-1 in the RID interneuron is sufficient to restore nkat-1 mutants’ hyperactivated feeding to wild-type levels. tg denotes transgenic animals; non-tg denotes non-transgenic siblings. n = 10, **p<0.01 by one-way ANOVA (Tukey). (F) Average intensity of spontaneous GCaMP transients in RIM of animals on nkat-1 RNAi from the 250s imaging window aligned to a -5s to 20s time axis. n = 6–10. (G) Average intensity of kmo-1 mutants’ spontaneous GCaMP transients in RIM from the 250s imaging window aligned to a -5s to 20s time axis. n = 6–10. All data are represented as mean ± SEM. Underlying data can be found in S1 Data.

https://doi.org/10.1371/journal.pbio.2002032.s003

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S4 Fig. Fasting enhances NaCl aversion learning, related to Fig 3.

NaCl aversion short term training: learning index values for animals fasted in normal NaCl for 3 hours and subsequently conditioned with high NaCl without food for 3 hours. n = 3, *p<0.05 by one-way ANOVA (Bonferroni). All data are represented as mean ± SEM. Underlying data can be found in S1 Data.

https://doi.org/10.1371/journal.pbio.2002032.s004

(TIF)

S5 Fig. GCaMP traces of animals given DR mimetics, related to Fig 4.

(A-F) Average intensity of spontaneous GCaMP transients in RIM of animals on DR mimetics from the 250s imaging window aligned to a -5s to 20s time axis. n = 6–10. Underlying data can be found in S1 Data.

https://doi.org/10.1371/journal.pbio.2002032.s005

(TIF)

S6 Fig. KP modulation does not affect lifespan, related to Table 1.

(A-G) Survival curves for wild-type, kmo-1, and nkat-1 animals given DR mimetics. Significance measured by logrank test. Median lifespans and n can be found in Table 1.

https://doi.org/10.1371/journal.pbio.2002032.s006

(TIF)

S7 Fig. KP modulation does not affect lifespan, related to Table 1.

(A-G) Survival curves for second replicates of wild-type, kmo-1, and nkat-1 animals given DR mimetics. Significance measured by logrank test. Median lifespans and n can be found in Table 1.

https://doi.org/10.1371/journal.pbio.2002032.s007

(TIF)

S1 Table. Primer sequences used for real-time qPCR, related to Fig 5.

https://doi.org/10.1371/journal.pbio.2002032.s008

(XLSX)

Acknowledgments

The authors thank members of the Ashrafi lab, Noelle L’Etoile, and Aimee Kao for discussions and comments on the manuscript. The GCaMP3.0 plasmid, odr-1 mutants, and AWC dead strains were gifts from the L’Etoile lab. The cex-1p plasmid was a gift from the Jorgensen lab. The daf-2 RNAi clone was a gift from the Kenyon lab. The unc-103(gf) and pkc-1(gf) constructs were gifts from the Bargmann lab.

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