DOI: 10.5061/dryad.12jm63z8r
title: Data from: Nematode mind: Exploring the role of the RNAi pathway in learning, memory and beyond

description: Caenorhabditis nematodes, particularly the well-known C. elegans, have
 challenged early views of them as hard-wired by demonstrating diverse
 learning and memory capabilities. This cognitive repertoire, developed
 with just several hundred neurons, highlights the evolutionary importance
 of cognitive traits. In this study, we examine the relationship between
 learning, development, reproduction, and lifespan, focusing on its
 regulation by the conserved RNA interference (RNAi) pathway. Specifically,
 we examine NRDE-3, a key Argonaute protein in this pathway, using an
 RNAi-defective nrde-3 mutant to evaluate the effects of this mutation
 under two diets. Here we recite the relevant phenotypic data from the
 assays, as well as the R scripts used for their analyses.
description: ### Files and variables #### File: OP50reproduction.csv **Description:**
 Daily reproduction scoring of individuals fed with E. coli OP50 #####
 Variables * Strain: Genotype wild-type or mutant(N2/NRDE-3) * Plate:
 Increasing number of plates for the two genotypes respectively * Day: Days
 of counting offspring (0-7) * Larvae: Daily hatched offspring numbers ####
 File: HT115reproduction.csv **Description:** Daily reproduction scoring of
 individuals fed with E. coli HT115 (L4440) ##### Variables * Strain:
 Genotype wild-type or mutant(N2/NRDE-3) * Plate: Increasing number of
 plates for the two genotypes respectively * Day: Days of counting
 offspring (0-7) * Larvae: Daily hatched offspring numbers #### File:
 OP50survival.csv **Description:** Lifespan assay for individuals fed with
 E. coli OP50 ##### Variables * Line: Genotype wild-type or
 mutant(N2/NRDE-3) * Plate: Increasing number of plates for the two
 genotypes respectively * Day: Days of scoring death events * Event: =1
 when individual is dead * Matricide: =1 when individual died due to
 matricide * comment: Additional comments. =L when individual is lost, =K
 when individual was killed during transfer #### File: HT115survival.csv
 **Description:** Lifespan assay for individuals fed with E. coli HT115
 (L4440) ##### Variables * Line: Genotype wild-type or mutant(N2/NRDE-3) *
 Plate: Increasing number of plates for the two genotypes respectively *
 Day: Days of scoring death events * Event: =1 when individual is dead *
 Matricide: =1 when individual died due to matricide * comment: Additional
 comments. =L when individual is lost, =K when individual was killed during
 transfer #### File: DevelopmentHT115.csv **Description:** Proportion of
 fully developed individuals fed with E. coli HT115 (L4440) ##### Variables
 * Strain: Genotype wild-type or mutant(N2/NRDE-3) * No: Replication plate
 number for the respective genotype * Mature: Number of individuals with
 fully formed vulvas * Nonm: Number of individuals with non fully formed
 vulvas * Total: Total number of individuals on plate * Time: Timepoint of
 observation (50/51/52) #### File: DevelopmentOP50.csv **Description:**
 Proportion of fully developed individuals fed with E. coli OP50 #####
 Variables * Strain: Genotype wild-type or mutant(N2/NRDE-3) * No:
 Replication plate number for the respective genotype * Mature: Number of
 individuals with fully formed vulvas * Nonm: Number of individuals with
 non fully formed vulvas * Total: Total number of individuals on plate *
 Time: Timepoint of observation (47/48/49) #### File: AversiveLearning.csv
 **Description:** Chemotaxis assay for worms conditioned to avoid butanone
 ##### Variables * Block: Experimental block * Line: Genotype wild-type or
 mutant(N2/NRDE-3) * Treatment: Treatment during conditioning phase C=
 naive individuals, L= trained individuals * Replicate: Replication within
 line and tratment combinations * But: Individuals counted on the butanone
 area * Alc: Individuals counted on the ethanol area * Init: Individuals on
 the starting point that the individuals were placed at the beginning of
 the assay * Total: Total number of individuals on plate #### File:
 AppetitiveLearning.csv **Description:** Chemotaxis assay for worms
 conditioned to be attracted to butanone ##### Variables * Block:
 Experimental block * Line: Genotype wild-type or mutant(N2/NRDE-3) *
 Treatment: Treatment during conditioning phase C= naive individuals, L=
 trained individuals * Replicate: Replication within line and tratment
 combinations * But: Individuals counted on the butanone area * Alc:
 Individuals counted on the ethanol area * Init: Individuals on the
 starting point that the individuals were placed at the beginning of the
 assay * Total: Total number of individuals on plate #### File:
 AversiveLearning.R **Description:** R code for data analysis of aversive
 learning assays #### File: AppetitiveLearning.R **Description:** R code
 for data analysis of appetitive learning assays #### File: Development.R
 **Description:** R code for data analysis of development assays for both
 food sources #### File: HT115reproduction.R **Description:** R code for
 data analysis of reproduction assays for individuals fed with E. coli
 HT115. #### File: OP50reproduction.R **Description:** R code for data
 analysis of reproduction assays for individuals fed with E. coli OP50.
 #### File: lifespanHT115.R **Description:** R code for data analysis of
 lifespan assays for individuals fed with E. coli HT115. #### File:
 lifespanOP50.R **Description:** R code for data analysis of lifespan
 assays for individuals fed with E. coli OP50. #### File: EggSize.R
 **Description:** R code for data analysis of egg size assays.