Our lab has previously reported that when adult hermaphrodites are fed the normal Escherichia coli OP50 food source, pdaf-7::GFP expression is restricted to the ASI chemosensory neurons (Hilbert and Kim, 2017; Meisel et al., 2014). In contrast, we observed that when animals were fed OP50 treated with aztreonam, an antibiotic that causes the bacteria to form inedible long strands (Gruninger et al., 2008), pdaf-7::GFP was expressed in both the ASI and ASJ neurons (Figure 1A, C, and D). These data suggested that ingestion of food inhibits daf-7 expression in the ASJ neurons. However, we did not observe daf-7 expression in the ASJ neurons in the complete absence of food (‘Empty’), which indicated that some bacterial component of non-ingestible aztreonam-treated E. coli OP50 was required for the induction of daf-7 in the ASJ neurons in the absence of ingested food (Figure 1A, C, and D). The non-ingestible food signal that results in the upregulation of daf-7 expression in the ASJ neurons on aztreonam-treated food could be diffusible, volatile, or mechanosensory. To identify the nature of the non-ingestible food cue, we exposed animals to food that had been seeded on the lid of the plate (exposing animals to only the volatile food cues) (‘Lid’) or underneath the agar (exposing animals only to diffusible food cues) (‘Bottom’) in the absence of ingestible food and probed daf-7 expression. We observed induction of daf-7 in the ASJ neurons when OP50 is seeded under the agar of the plates, but not when present on the lid of the plate, suggesting that a bacteria-derived food signal that diffuses through the agar is necessary for the induction of daf-7 expression in ASJ in the absence of ingested food (Figure 1A–F). Thus, these data suggest that in hermaphrodites feeding on E. coli OP50, there is an external water-soluble diffusible cue from the bacteria that stimulates daf-7 expression from the ASJ neurons, but this expression is inhibited by a second bacteria-derived, interoceptive cue generated from the ingestion of bacteria (Figure 1B).

We next asked whether the inhibition of daf-7 expression in the ASJ neurons by ingestion of bacterial food was mediated by the early detection of ingested food or the delayed nutritional effects of bacterial food consumption on organismal physiology. The kinetics of pdaf-7::GFP induction in the ASJ neurons when animals were moved from ingestible to non-ingestible food showed a rapid upregulation within 2–3 hr for the GFP fluorescence in the ASJ neurons to become visible (Figure 1G). Given the delay for GFP folding and accumulation to visible levels, these data suggested that the absence of ingested food rapidly led to the induction of daf-7 expression in the ASJ neurons. Recent work has described the interoceptive sensing of ingested food by the acid-sensing ion channels encoded by del-3 and del-7, which are expressed in the minor neurites of the NSM neurons where they detect food in the pharynx and mediate behavioral slowing upon encountering food (Rhoades et al., 2019). We observed that del-3;del-7 animals have elevated expression daf-7 in the ASJ neurons on ingestible food but show wild-type levels of daf-7 expression on non-ingestible food or no food (Figure 1H). These observations are consistent with the hypothesis that the detection of an interoceptive ingested food signal in the pharynx, mediated by DEL-3 and DEL-7, inhibits daf-7 expression in the ASJ neurons.

Next, we sought to understand how changes in daf-7 expression in the ASJ neurons in response to changing food conditions might modulate food-dependent behavior. Feeding C. elegans alternate between two distinct behavioral states known as roaming and dwelling (Ben Arous et al., 2009; Fujiwara et al., 2002). On nutritious food, wild-type animals spend most of their time dwelling, a feeding state marked by a low movement speed and high body bending angle. As food conditions worsen, animals will decrease the fraction of time dwelling and increase the fraction of time roaming, a foraging state marked by high speed and low curvature (Ben Arous et al., 2009). Prior analysis of roaming and dwelling has identified that animals increase the proportion of time roaming on aztreonam-treated food, and genetic analysis has revealed a role for DAF-7 in promoting roaming behavior, with daf-7 animals spending a decreased fraction of time roaming compared to wild-type animals (Ben Arous et al., 2009). Using both worm-tracking software to quantify roaming and dwelling (WormLab, 2020) and an exploration assay to measure the general activity levels of animals (Flavell et al., 2013, see Materials and Methods), we observed that daf-7(e1372) and daf-7(ok3125) animals spent a markedly decreased proportion of time in the roaming state compared to wild-type animals, consistent with these prior findings (Figure 2A). To determine whether we could detect modulation of roaming and dwelling behaviors caused by changes in daf-7 expression in the ASJ neurons, we adopted two complementary approaches. First, we found that in a daf-7(ok3125) background, rescue of daf-7 cDNA under the ASJ-specific trx-1 promoter partially restored the fraction of time animals spent in the roaming state (Figure 2B). Second, we examined exploratory behavior in animals that had daf-7 deleted in the ASJ neurons, using a floxed allele of daf-7 and Cre expressed under the trx-1 promoter. We found that animals with an ASJ-specific daf-7 deletion explored less of the lawn and spent less time roaming than animals with wild-type expression of daf-7 (Figure 2C).

The relationships between ingested food and daf-7 expression in the ASJ neurons, daf-7 expression in the ASJ neurons and roaming, and roaming and amount of food ingested suggest a neuroendocrine gene expression positive-feedback loop that couples the ingestion of bacterial food to the modulation of foraging behavior through daf-7 expression in the ASJ neurons (Figure 2D). When animals are on abundant edible food, the ingestion of this food inhibits daf-7 expression in the ASJ neurons and attenuates the proportion of time in the roaming state. When animals are removed from edible food but are still exposed to soluble food signals, upregulation of daf-7 expression in the ASJ neurons promotes an increased proportion of time in the roaming state. Considering that animals can exist in one of the two states while feeding on bacterial food, a decreased fraction of time roaming could be due to shorter roaming states, longer dwelling states, or combination of these factors. We hypothesized that this transcriptional feedback loop might function in the persistence of internal states underlying roaming and dwelling behaviors, so we measured the duration of roaming and dwelling states in animals lacking DAF-7 signaling.

Representative trace files of wild-type, daf-7(e1372), and daf-7(ok3125) animals show how DAF-7 can influence roaming and dwelling state duration (Figure 2E). Quantification of state duration across multiple animals revealed that daf-7 animals exhibited shortened roaming states relative to wild-type animals as predicted by the positive feedback loop (Figure 2F). We did not observe a difference in dwelling state duration among the genotypes examined, although we suspect the wide variation dwelling state durations exhibited by animals precluded the detection of a statistically significant difference with our analysis.

The positive-feedback loop supported by our data (Figure 2D) suggests a correlation between daf-7 expression in the ASJ neurons and genetic backgrounds favoring roaming behavior and hence a diminished ingestion of bacterial food. Serotonin has been shown to promote long dwelling states, and thus animals with mutations in tph-1, the gene encoding the enzyme that catalyzes the rate-limiting step of serotonin biosynthesis, spend a greater proportion of their time in the roaming state (Figure 3A; Flavell et al., 2013; Ji et al., 2021). Consistent with the correlation between daf-7 expression in the ASJ neurons and roaming, we see that tph-1(n4622) animals constitutively express daf-7 in the ASJ neurons on ingestible food, no food, and non-ingestible food, with this daf-7 expression retaining sensitivity to changes in food environments (Figure 3B). These results suggest that serotonin signaling may influence daf-7 expression in parallel to the gustatory and interoceptive food cues.

PDF signaling has also been previously shown to modulate roaming and dwelling behavior, with animals carrying loss-of-function mutations in the PDF receptor gene pdfr-1 showing a decreased fraction of their time in the roaming state than wild-type animals (Figure 3C; Flavell et al., 2013; Ji et al., 2021). Consistent with the correlation between roaming and daf-7 expression in ASJ, we observed that animals with loss-of-function mutations in pdfr-1 do not upregulate daf-7 transcription in the ASJ neurons on non-ingestible food (Figure 3D). From a screen done in parallel to this work, we recovered a putative gain-of-function allele of pdfr-1, pdfr-1(qd385), carrying a S325F substitution (Boor, 2022). Follow-up analysis in an independently generated S325F allele, pdfr-1(syb3826), confirmed that this substitution was responsible for our observed phenotypes. We observed that pdfr-1(syb3826) animals exhibited increased roaming behavior compared with wild-type animals (Figure 3C) and constitutive expression of daf-7 in the ASJ neurons in the presence of ingestible food, which was further upregulated under conditions of no bacterial food or non-ingestible food (Figure 3D). These results are consistent with a model in which PDFR-1 signaling influences daf-7 expression in the ASJ neurons by modulating the sensation of the external gustatory food cue.

To identify additional genetic factors involved in coupling the ingestion of food to daf-7 expression in the ASJ neurons and its subsequent effect on roaming, we were guided by the isolation of an allele of hen-1, hen-1(qd259), from a screen we previously performed for genes regulating the expression of daf-7 from the ASJ neurons in response to P. aeruginosa (Park et al., 2020). Through genomic rescue experiments, we confirmed that the hen-1 mutation was the causative lesion in this strain, and animals with mutations in scd-2, encoding the receptor of HEN-1, share this phenotype (Figure 4A). SCD-2 has characterized for its role in the food-dependent developmental arrest known as dauer diapause and sensory integration (Reiner et al., 2008; Shinkai et al., 2011; Wolfe et al., 2019), and anaplastic lymphoma kinase (ALK), the human ortholog of SCD-2, has been implicated in metabolic phenotypes in humans, mice, and Drosophila (Orthofer et al., 2020). Taken together, these observations led us to question if SCD-2 might be involved in the regulation of daf-7 expression in the ASJ neurons in response to changes in food ingestion. We found that animals with loss-of-function alleles of scd-2 showed reduced upregulation of daf-7 in the ASJ neurons in response to non-ingestible food compared to wild-type animals, implicating SCD-2 at least partially in this daf-7 expression response (Figure 4B).

To further examine the role of SCD-2 mediating the daf-7 expression response to ingested food, we generated a gain-of-function allele. Gain-of-function point mutations in ALK are associated with neuroblastoma and most often occur in the kinase domain, with 85% of all ALK point mutations seen at either F1174 or R1275 (Franco et al., 2013). F1174L, the most common point mutation, results in ALK autophosphorylation and cytokine-independent growth (Chen et al., 2008; George et al., 2008; Hallberg and Palmer, 2013; Holla et al., 2017; Janoueix-Lerosey et al., 2008). Analysis of a sequence alignment of SCD-2 and ALK revealed that F1174 in ALK was conserved as F1029 in SCD-2, and we were able to create a gain-of-function allele of scd-2 by engineering a F1029L substitution (scd-2(syb2455)) (Figure 4C; Boor, 2022). To infer whether SCD-2 activity was sufficient to induce expression of daf-7 in the ASJ neurons in the absence of ingestible bacterial food, we examined the gain-of-function scd-2(syb2455) mutant and observed that these animals constitutively expressed daf-7 in the ASJ neurons even in the presence of ingestible food (Figure 4B). We further observed that the magnitude of upregulation of daf-7 expression in the ASJ neurons when animals were moved from ingestible food to non-ingestible food was reduced in scd-2(syb2455) to levels only about one-fifth of that seen in wild-type animals (the ratio of wild-type daf-7 expression in the ASJ neurons on non-ingestible food to ingestible food = 8.1; the ratio of scd-2(syb2455) daf-7 expression in the ASJ neurons on non-ingestible food to ingestible food = 1.7) (Figure 4B). In contrast to the reduced upregulation seen in the scd-2(syb2455) gain-of-function animals when exposed to non-ingestible food, scd-2(syb2455) exhibited robust upregulation of daf-7 expression in the ASJ neurons when exposed to P. aeruginosa (Figure 4A). The observation that this PA14-dependent upregulation is intact in scd-2(syb2455) animals while the non-ingestible food-dependent upregulation is attenuated supports a direct role for SCD-2 in response to ingested food rather than a global control of daf-7 expression in the ASJ neurons.

Expression of scd-2 cDNA under the AIA-specific gcy-28.d promoter has been shown to be sufficient to rescue behavioral phenotypes of scd-2 mutants that have been attributed to a role for AIA-expressed SCD-2 in sensory integration (Shinkai et al., 2011; Wolfe et al., 2019). To ask whether SCD-2 could be functioning in the AIA neurons to regulate daf-7 expression in the ASJ neurons, we generated a strain with the coding sequence of SCD-2 floxed and introduced a transgene expressing Cre under the gcy-28.d promoter. Compared to animals containing a floxed scd-2 allele without Cre, animals with AIA-specific Cre expression resulting in AIA-specific deletion of scd-2 showed reduced upregulation of daf-7 expression in the ASJ neurons in response to non-ingestible food, suggesting that SCD-2 activity in the AIA neurons acts cell-non-autonomously to control daf-7 expression in the ASJ neurons (Figure 4D).

Our finding that SCD-2 regulates the daf-7 expression in response to ingested food predicts that SCD-2 would also promote roaming behavior. Consistent with this hypothesis, we observed that animals with loss-of-function mutations in scd-2 spent a lower proportion of time roaming and explored less of the lawn in an exploration assay than wild-type animals (Figure 4E). Animals with a loss-of-function allele of hen-1 also roamed less than wild type (Figure 4E). Furthermore, as predicted by the regulation of daf-7 expression in the ASJ neurons, scd-2 and hen-1 animals exhibit shorter roaming states and unchanged dwelling state durations compared to wild-type animals (Figure 4F). When we examined the roaming and dwelling behavior of scd-2(syb2455) gain-of-function animals, we found that these mutants showed increased roaming behavior and lawn exploration as compared to wild-type animals and exhibited longer roaming states (Figure 4G and H). Consistent with SCD-2 mediating roaming partially through its influence on daf-7 expression in the ASJ neurons, we saw that the increased roaming exhibited by scd-2(syb2455) animals was reduced in animals with a Cre-lox-mediated ASJ-specific daf-7 deletion (Figure 4I). As with the regulation of daf-7 expression in the ASJ neurons, we observed that Cre-lox-mediated deletion of scd-2 specifically in the AIA neurons reduced both roaming and exploration compared to floxed scd-2 animals without Cre, suggesting that SCD-2 functions in the AIA interneurons to promote roaming behavior (Figure 4J).

Considering our positive feedback model, we reasoned that conditions under which we have observed daf-7 expression in the ASJ neurons would correlate with increased roaming behavior. Previous work from our lab has shown that upon reaching reproductive maturity, male C. elegans induce daf-7 expression in their ASJ neurons, which contributes to male mate-searching behavior (Figure 5A; Hilbert and Kim, 2017). Consistent with the behaviors that have been reported for males and hermaphrodites in bacterial food-leaving assays (Lipton et al., 2004), we observed that wild-type males spend a greater proportion of their time in the roaming state than hermaphrodites (Figure 5B). We also observed that the daf-7 expression in the ASJ neurons in males was sensitive to the inhibitory effects of ingested food, although the magnitude of the fold increase in daf-7 expression from the ASJ neurons was about half that observed for hermaphrodites (Figure 5A).

We have also previously reported an upregulation in daf-7 expression in the ASJ neurons when animals are on pathogenic P. aeruginosa PA14 in response to specific secondary metabolites phenazine-1-carboxamide and pyochelin (Figure 5C; Meisel et al., 2014). Analysis of roaming and dwelling on PA14 revealed that animals significantly increase the fraction of their time in the roaming state on PA14 compared to nonpathogenic E. coli OP50 (Figure 5D). We observed that upon exposure to the nonpathogenic PA14 mutant ∆gacA, which results in an intermediate level of daf-7 expression in the ASJ neurons (Figure 5C; Meisel et al., 2014), animals roamed an intermediate amount between animals on OP50 and pathogenic PA14 (Figure 5D).

The data we present here support a model in which bacterial food ingestion regulates roaming and dwelling behavior in part via SCD-2-dependent daf-7 expression in the ASJ neurons. Our identification of the AIA neurons as the site of SCD-2 action is consistent with a role for the AIA neurons in relaying food signals in other contexts. AIA has been characterized as a downstream synaptic target of multiple food sensory neurons to integrate information about the food environment and influence chemoreceptor expression in other neurons (Dobosiewicz et al., 2019; McLachlan et al., 2022).

We have observed that the expression of daf-7 in the ASJ neurons responds to two opposing food cues. An interoceptive cue derived from the sensation of ingested food in the pharynx inhibits the expression of daf-7 in the ASJ neurons, while the presence of a diffusible non-ingested food cue induces the expression of daf-7 in the ASJ neurons (Figure 1B). In the presence of both food cues, as on abundant ingestible food, the interoceptive food signal is epistatic to the external food signal, promoting exploitation of the current food environment with low levels of daf-7 expression in the ASJ neurons. Our identification of two opposing food cues is consistent with findings from Wexler et al., which reported that aztreonam-treated bacteria could restore daf-7 expression in the ASJ neurons of starved males, indicative of an external food cue that is upregulating daf-7 expression in the ASJ neurons (Wexler et al., 2020). Furthermore, the activity of the ASJ neurons have been demonstrated to be modulated by removal of bacterial supernatant (Zaslaver et al., 2015), consistent with ASJ responsiveness to an external food cue.

As discussed above, the relationship between foraging behavior, food ingestion, and SCD-2-dependent daf-7 expression has led us to posit a positive-feedback loop that couples food ingestion with foraging behavior (Figure 2D). As animals in a patchy food environment encounter a region with less edible food, our model predicts that a reduction of ingested food would result in daf-7 expression induction in the ASJ neurons via SCD-2. This increase in daf-7 expression is correlated with an internal state that favors roaming. As animals roam, they ingest less bacteria, further promoting SCD-2-dependent daf-7 expression in the ASJ neurons, stabilizing a roaming-prone state. Once a roaming animal encounters edible food and begins to eat, the interoceptive sensation of food in the pharynx results in a downregulation of daf-7 expression in the ASJ neurons, promoting a dwelling state in which the animal can continue to eat. As additional food is ingested, this further reduces daf-7 expression in the ASJ neurons, stabilizing this internal state that favors dwelling. Moreover, a recent study has highlighted the role of the ASJ neurons in promoting roaming and food-leaving behavior (Scheer and Bargmann, 2023). We additionally find that PDF and serotonin signaling appear to contribute to daf-7 expression in the ASJ neurons in addition to their previously characterized roles in roaming and dwelling (Flavell et al., 2013; Ji et al., 2021).

A number of recent studies in C. elegans point to a key role for neuronal transcriptional responses in the regulation of behavioral plasticity in response to changing environmental stimuli such as food and temperature (Harris et al., 2023; Kyani-Rogers et al., 2022; Ryan et al., 2014; Wexler et al., 2020). For example, differential expression of the diacetyl-sensing chemoreceptor ODR-10 in the AWA neurons in response to changing food conditions, which functions downstream of daf-7 expression in the ASJ neurons of males, has been shown to modulate food-leaving mate-searching behavior (Ryan et al., 2014; Wexler et al., 2020). We anticipate that the characterization of neuron-specific transcriptional changes that are correlated with daf-7 expression in the ASJ neurons may yield additional mechanistic insights into how changing environmental and endogenous ingested bacterial food levels modulate internal states driving foraging behavior.

Here, we show that daf-7 expression in the ASJ neurons is regulated by the receptor tyrosine kinase SCD-2. SCD-2 and its ligand, HEN-1, have been implicated sensory integration, associative learning, and memory (Ishihara et al., 2002; Shinkai et al., 2011; Wolfe et al., 2019), and SCD-2 was initially characterized for its role in regulating dauer formation, a developmentally arrested state induced by stressful growth conditions, including lack of nutritious food (Golden and Riddle, 1982; Golden and Riddle, 1984b; Golden and Riddle, 1984c; Golden and Riddle, 1984a; Inoue and Thomas, 2000; Reiner et al., 2008). SCD-2 is the C. elegans ortholog of ALK. In humans, ALK is expressed primarily in the nervous system and influences cell proliferation, differentiation, and survival in response to external stimuli (Iwahara et al., 1997). Genetic translocations resulting in gene fusions are common in ALK-dependent human cancers, including non-small cell lung cancer, diffuse large B cell lymphoma, squamous cell carcinoma, and renal cell carcinoma (Hallberg and Palmer, 2013; Holla et al., 2017; Morris et al., 1994). Recent studies have suggested a physiological role for ALK in the neuronal control of metabolism. A genome-wide association study looking for genetic variants associated with thinness identified a variant in the first intron of ALK (Orthofer et al., 2020). Additional studies in Drosophila and mice have further implicated ALK in triglyceride accumulation, starvation survival, and metabolic response to high-fat diets (Cheng et al., 2011; Orthofer et al., 2020; Woodling et al., 2020).

Our work describes a role for SCD-2 in regulating foraging behavior and neuroendocrine gene expression in response to changing food conditions. We and others have observed that animals with loss-of-function mutations in scd-2 behave as if they are in the constant presence of ingested ‘good’ food; scd-2 animals dwell more, reduce upregulation of daf-7 expression in the ASJ neurons in the absence of ingested food, and fail to enter dauer under poor food conditions (Reiner et al., 2008). In contrast, animals with the gain-of-function scd-2(syb2455) allele act like animals exposed to ‘bad’ food conditions, as evidenced by increased roaming, constitutive expression of daf-7 in their ASJ neurons, and food-independent constitutive dauer entry (Boor, 2022). If SCD-2 is functioning in responding to changes in food, this may alter conclusions of several previous studies implicating HEN-1 and SCD-2 in sensory integration, as several of the assays employed in these studies have been shown to be affected by the animals’ nutritional status (Ishihara et al., 2002; Shinkai et al., 2011; Wolfe et al., 2019). Further investigation into the role of SCD-2 in responding to food vs. sensory integration in these assays could be informative.

Furthermore, the role for SCD-2 in regulating the physiological response to ingested food in C. elegans is consistent with the growing body of work tying ALK and its orthologs to thinness and metabolic phenotypes in humans, mice, and Drosophila (Cheng et al., 2011; Orthofer et al., 2020; Woodling et al., 2020). Our observations of scd-2 C. elegans are consistent with phenotypes seen in ALK^-/- mice and Alk RNAi Drosophila, including increased energy expenditure and reduced triglyceride accumulation (Orthofer et al., 2020). Since the phenotypes of scd-2 animals are associated with abundant food in C. elegans, we might expect these ALK^-/- mice and Alk RNAi Drosophila to mimic animals that are constantly eating and engage in compensatory mechanisms of increased energy expenditure and triglyceride metabolism. Further characterization of the mechanisms by which SCD-2 and ALK regulate food-dependent behavior, gene expression, and metabolism could reveal new factors governing body weight and have implications in the treatment and prevention of obesity.

The response of daf-7 expression in the ASJ neurons to changes in food conditions and its effect on foraging behavior provides an example of the influence of gene expression on internal states. We have identified a transcriptional switch of one gene in two cells that can influence foraging behavior in a manner as equally simple as but on a longer timescale than neuronal firing (Figure 5E). This daf-7-expressing, pro-roaming internal state might drive other exploratory behaviors that our lab and others have observed under conditions were daf-7 is expressed in the ASJ neurons. Male C. elegans have been observed to upregulate the expression of daf-7 in their ASJ neurons upon reaching reproductive maturity, and this daf-7 expression has been implicated in driving mate-searching behavior (Hilbert and Kim, 2017). Males must find a hermaphrodite mate to reproduce – a requirement not shared by hermaphrodites – and they often must leave food to do so. The constitutive expression of daf-7 in the ASJ neurons of adult males could be due to a reduced sensitivity to ingested food allowing for prioritization of searching for a mate over feeding. This is consistent with our observation that daf-7 expression in the ASJ neurons is upregulated less in response to non-ingestible food in males than in hermaphrodites.

Similarly, our lab has previously reported that two secondary metabolites of pathogenic P. aeruginosa can result in the upregulation of daf-7 expression in the ASJ neurons, which contributes to pathogen avoidance behavior (Meisel et al., 2014). The results presented here suggest that perhaps these secondary metabolites are tapping into this foraging circuit and overriding other inputs that regulate daf-7 expression in the ASJ neurons to promote the animals moving away from the pathogen in a manner like roaming animals seeking nutritious food. In the natural environment of C. elegans, pathogenic and nutritious bacteria coexist, and animals must employ mechanisms to avoid infection while still obtaining adequate nutrition. Low levels of nutritious food, the presence of pathogen, or an absence of mates each represents a suboptimal environment and may induce a common internal state that promotes exploration and enhances the chances of encountering more favorable conditions.

Multiple integrative neuronal mechanisms likely converge to establish ‘internal state’ that modulates organism behavior. Our data reveal that gene expression, specifically the expression of a single gene, daf-7, from just two neurons, the ASJ chemosensory neurons, can not only contribute to internal state driving foraging behavior through its role in a neuroendocrine feedback loop, but also serve as a readily detected correlate of internal state underlying foraging behavior.

C. elegans was maintained on E. coli OP50 as previously described (Brenner, 1974). Daf-c strains were grown at 16°C. See Table 1 for a complete list of strains used in this study.

We performed a protein alignment of C. elegans SCD-2 and human ALK in NCBI BLAST (Figure 4C). Using a list of known oncogenic ALK mutations (Holla et al., 2017), we screened these residues for conservation or similarity between the C. elegans and human protein sequences. Genome editing was done by SunyBiotech using CRISPR technology. Alleles were evaluated in a dauer assay for a gain-of-function Daf-c phenotype, and validated in trans-heterozygote analysis with scd-2(sa249) for a dominant phenotype (Boor, 2022).

Unless otherwise indicated, all assays were performed on NGM plates with no peptone. Aztreonam-treated bacteria was prepared as previously reported (Gruninger et al., 2008), and 40 µL aztreonam-treated food was added to plates containing 10 µg/mL aztreonam. ‘Fed’ plates for daf-7 quantification were seeded with 40 µL OP50 grown overnight in a shaking LB culture at 37°C. ‘Bottom’ plates were seeded with 250 µL OP50, and the agar was inverted with a spatula immediately prior to adding animals. ‘Lid’ plates were prepared by pouring a spot of NGM agar on the inside of the lid of the plate and seeding 100 µL of OP50 on to the spot. PA14 was grown as previously described and seeded onto SKA plates, as were E. coli OP50 controls for these experiments (Meisel et al., 2014).

Plates of gravid animals were bleached and eggs were dropped onto NGM plates seeded with OP50 and grown at 20°C for 67 hr, unless otherwise noted. On the day of imaging, 15–30 day-1 adult animals were transferred by picking to assay plates, where they were incubated for 5 hr at 20°C. Animals to be imaged were mounted on glass slides with agarose pads and 50 mM sodium azide or 5 mM levamisole. All imaging for pictures were conducted on the Zeiss Axioimager Z1. Quantification of GFP brightness was derived from maximum fluorescence values within the ASJ neurons in FIJI.

The exploration assay was performed loosely as previously described with several modifications (Flavell et al., 2013). 35 mm NGM plates with no peptone were seeded with 500 µL OP50 grown overnight in LB so that the lawn covered the entire surface of the plate. On the day of the assay, one day-1 adult animal was placed on the plate and allowed to explore for 2 hr before being removed. The plate was then superimposed on a grid of 3.5 mm squares and the number of squares crossed by the C. elegans tracks was manually counted.

Animals were egg-laid and grown to day-1 adults. 10 cm NGM plates without peptone were seeded with 2 mL stationary phase E. coli OP50 grown overnight in LB. Assays were performed with ~20 animals inside a 6 cm copper ring placed in the center of the seeded plate. After 1 hr for the animals to adjust to their new environment, videos were recorded at 3.75 frames per second for 1.5–3 hr. Videos were analyzed using MBF Biosciences WormLab software (WormLab, 2020).

Measurements of speed and bending angle (midpoint) were averaged over 10 s intervals, and values for each 10 s interval were plotted on a scatter plot of speed (µm/s) vs. bending angle (degrees). Quantification of fraction of time spent roaming or dwelling was done by segregating the points of the scatter plots by a horizontal line whose placement was based on the distribution of points in the control condition for each experiment. Values for this speed cutoff ranged from y=7 to y=12. Points falling above the line were classified as roaming, and those below the line were classified as dwelling. The fraction of time spent roaming was calculated for each animal based on the speed cutoff. Outliers were removed using a ROUT test with Q=1%. The durations of roaming and dwelling states were determined manually by analyzing average speed values for successive 10 s intervals. Only states lasting longer than five intervals (50 s) were considered.

All statistical analysis was performed using the GraphPad Prism software (GraphPad Prism, RRID: SCR_002798). Statistical tests used are indicated in each figure legend.