A Genetic Dissociation of Learning and Recall in Caenorhabditis elegans

Genome-wide variations in a natural isolate of the nematode Caenorhabditis elegans

Background

Increasing genetic and phenotypic differences found among natural isolates of C. elegans have encouraged researchers to explore the natural variation of this nematode species.

Results

Here we report on the identification of genomic differences between the reference strain N2 and the Hawaiian strain CB4856, one of the most genetically distant strains from N2. To identify both small- and large-scale genomic variations (GVs), we have sequenced the CB4856 genome using both Roche 454 (~400 bps single reads) and Illumina GA DNA sequencing methods (101 bps paired-end reads). Compared to previously described variants (available in WormBase), our effort uncovered twice as many single nucleotide variants (SNVs) and increased the number of small InDels almost 20-fold. Moreover, we identified and validated large insertions, most of which range from 150 bps to 1.2 kb in length in the CB4856 strain. Identified GVs had a widespread impact on protein-coding sequences, including 585 single-copy genes that have associated severe phenotypes of reduced viability in RNAi and genetics studies. Sixty of these genes are homologs of human genes associated with diseases. Furthermore, our work confirms previously identified GVs associated with differences in behavioural and biological traits between the N2 and CB4856 strains.

Conclusions

The identified GVs provide a rich resource for future studies that aim to explain the genetic basis for other trait differences between the N2 and CB4856 strains.

Entwined engrams: The evolution of associative and non-associative learning

The nematode Caenorhabditis elegans displays a surprisingly sophisticated behavioral repertoire that includes the utilization of both associative and non-associative forms of learning. Elucidating the molecular basis of learning remains a fundamental, yet daunting, challenge of modern neuroscience. In Pereira and van der Kooy (ref. 2), we described the use of a two input—two output stimuli system to dissociate between associative and non-associative learning and between memory acquisition and retrieval processes. Briefly, one finding indicated that after training with the odorant isoamyl alcohol (IsoA), we could preferentially retrieve either associative or non-associative memory with a choice of either a benzaldehyde (Bnz) or IsoA retrieval stimulus, respectively. Here, we describe how that apparently enigmatic molecular cross wiring of the two forms of memory examined could represent an evolutionary relic of the ancient divergence between non-associative and associative learning. In addition, we extrapolate on the utility and subtleties of using such a system to dissociate and decipher the components of memory in C. elegans.

Sensory interaction between attractant diacetyl and repellent 2-nonanone in the nematode Caenorhabditis elegans

In the nematode Caenorhabditis elegans, the odorant diacetyl is sensed by AWA sensory neurons in the amphid sensory organ and elicits an attractive response, whereas 2-nonanone is sensed by AWB amphid sensory neurons and elicits an avoidance response. In the present study, we report that nematodes exhibit a sensory interaction between the attractant diacetyl and repellent 2-nonanone. In the presence of food, the chemotactic response to 0.01% diacetyl in nematodes preexposed to 0.1% diacetyl was greater than that in nonexposed naive nematodes (P < 0.05). The response to diacetyl was also greater in nematodes preexposed to 3% 2-nonanone in the presence of food than that in naive nematodes (P < 0.01). In the absence of food, the response to diacetyl in nematodes preexposed to diacetyl or 2-nonanone was significantly lower than that in nonexposed control nematodes (P < 0.01). The avoidance response to 10% 2-nonanone in nematodes preexposed to each odorant in the presence or absence of food was lower than that in nonexposed nematodes (P < 0.05). To confirm the validity of our results, the chemotactic responses to diacetyl and 2-nonanone were observed using che-3, odr-4, and odr-10 mutants, which exhibited defective sensitivity to diacetyl or 2-nonanone. From the results of our experiments, we conclude that nematodes exhibit a sensory interaction between diacetyl and 2-nonanone and speculate that this interaction is driven by higher-level neuronal circuits that underlie sensory integration.

Retention time of attenuated response to diacetyl after pre-exposure to diacetyl in Caenorhabditis elegans

The retention time of attenuated chemotactic response to continuous presentation of odorant diacetyl was investigated in the nematode Caenorhabditis elegans. The level of chemotactic response of nematodes pre-exposed to diacetyl for 90 min was significantly smaller than that of nonexposed control nematodes. In this study, wild-type (N2) nematodes were maintained at 15, 20 and 25 degrees C after pre-exposure to diacetyl. At 20 degrees C, there was a decrease in response to diacetyl continuing for up to 6 hr after pre-exposure to the chemical, but not up to 12 hr. Interestingly, the decrease in response to diacetyl did not continue up to 2 hr in nematodes bred at 15 degrees C, although it continued beyond 12 hr in nematodes bred at 25 degrees C. These results indicate that the retention time of attenuated chemotactic response to diacetyl is dependent on the environmental breeding temperature of nematodes. The breeding temperature correlated with aging speed of nematodes, suggesting that a short life span (higher aging speed) prolongs the retention time of attenuated chemotactic response to diacetyl after pre-exposure to diacetyl. In the long-lived daf-2, age-1, clk-1 and isp-1 mutants, the effect of diacetyl did not continue up to 2 hr. The short-lived daf-16, daf-18, mev-1 and gas-1 mutants showed a longer duration of decrease in response to diacetyl, that is, the retention time of attenuated chemotactic response to diacetyl continued beyond 12 hr. There is a possibility that the duration of decrease in response to diacetyl after pre-exposure to diacetyl was inversely related to the length of nematodes' life span.

Chemotaxis of Caenorhabditis elegans during simultaneous presentation of two water-soluble attractants, l-lysine and chloride ions

Lysine and chloride ions are water-soluble attractants for Caenorhabditis elegans. When chemotaxis behavior to either of these attractants was assayed separately, the radial concentration gradients of 3 M lysine and 0.1 M ammonium chloride had similar potencies for attracting worms. However, when the concentration gradients of lysine and ammonium chloride at these concentrations were presented simultaneously, worms preferred lysine to ammonium chloride more than expected from the results obtained in separate experiments, suggesting the presence of an interaction between these two sensory information pathways within the nervous system. Chemotaxis behavior toward the radial concentration gradient of one of these attractants superimposed on a uniform concentration of the other attractant showed that the chemotaxis was augmented or attenuated by the ammonium chloride background depending on the background concentration, and attenuated by the lysine background, further supporting the interaction between the two sensory information pathways.