OSCR

Intracellular regulation of a serotonin-gated ion channel links receptor trafficking to memory.

Code ↔ Paper

The paper beside its authors' code: matches between them have not been computed for this paper yet.

Paper

Loaded from Europe PMC by your browser, not stored by OSCR: doi.org · Europe PMC

The paper is loaded when this pane is shown.

The authors' code

R · 138 lines · 5 KB · GPL-3.0

  1. # Generated by using Rcpp::compileAttributes() -> do not edit by hand
  2. # Generator token: 10BE3573-1514-4C36-9D1C-5A225CD40393
  4. #' Euclidean distance between two points.
  5. #' @param a A point.
  6. #' @param b A point.
  7. #' @return The distance between two points.
  8. #' @noRd
  9. NULL
  11. #' Squared Euclidean distance between two points.
  12. #' @param a A point.
  13. #' @param b A point.
  14. #' @return The distance between two points.
  15. #' @noRd
  16. NULL
  18. #' Move a box into the area specificied by x limits and y limits.
  19. #' @param b A box like \code{c(x1, y1, x2, y2)}
  20. #' @param xlim A Point with limits on the x axis like \code{c(xmin, xmax)}
  21. #' @param ylim A Point with limits on the y axis like \code{c(xmin, xmax)}
  22. #' @param force Magnitude of the force (defaults to \code{1e-6})
  23. #' @noRd
  24. NULL
  26. #' Get the coordinates of the center of a box.
  27. #' @param b A box like \code{c(x1, y1, x2, y2)}
  28. #' @noRd
  29. NULL
  31. #' Test if a box overlaps another box.
  32. #' @param a A box like \code{c(x1, y1, x2, y2)}
  33. #' @param b A box like \code{c(x1, y1, x2, y2)}
  34. #' @noRd
  35. NULL
  37. #' Test if a circle overlaps a box.
  38. #' @param c A circle like \code{c(x, y, r)}
  39. #' @param r A box like \code{c(x1, y1, x2, y2)}
  40. #' @noRd
  41. NULL
  43. #' Compute the repulsion force upon point \code{a} from point \code{b}.
  44. #'
  45. #' The force decays with the squared distance between the points, similar
  46. #' to the force of repulsion between magnets.
  47. #'
  48. #' @param a A point like \code{c(x, y)}
  49. #' @param b A point like \code{c(x, y)}
  50. #' @param force Magnitude of the force (defaults to \code{1e-6})
  51. #' @param direction direction in which to exert force, either "both", "x", or "y"
  52. #' @noRd
  53. NULL
  55. #' Compute the spring force upon point \code{a} from point \code{b}.
  56. #'
  57. #' The force increases with the distance between the points, similar
  58. #' to Hooke's law for springs.
  59. #'
  60. #' @param a A point like \code{c(x, y)}
  61. #' @param b A point like \code{c(x, y)}
  62. #' @param force Magnitude of the force (defaults to \code{1e-6})
  63. #' @param direction direction in which to exert force, either "both", "x", or "y"
  64. #' @noRd
  65. NULL
  67. #' Euclidean distance between two points.
  68. #' @param a A numeric vector.
  69. #' @param b A numeric vector.
  70. #' @return The distance between two points.
  71. #' @noRd
  72. euclid <- function(a, b) {
  73. .Call('_ggrepel_euclid', PACKAGE = 'ggrepel', a, b)
  74. }
  76. #' Get the coordinates of the center of a box.
  77. #' @param b A box like \code{c(x1, y1, x2, y2)}
  78. #' @noRd
  79. centroid <- function(b, hjust, vjust) {
  80. .Call('_ggrepel_centroid', PACKAGE = 'ggrepel', b, hjust, vjust)
  81. }
  83. #' Find the intersections between a line and a rectangle.
  84. #' @param c A circle like \code{c(x, y, r)}
  85. #' @param r A rectangle like \code{c(x1, y1, x2, y2)}
  86. #' @noRd
  87. intersect_circle_rectangle <- function(c, r) {
  88. .Call('_ggrepel_intersect_circle_rectangle', PACKAGE = 'ggrepel', c, r)
  89. }
  91. #' Find the intersection between a line and a circle.
  92. #' @param p1 A point on the line like \code{c(x, y)}
  93. #' @param p2 A point at the circle's center
  94. #' @param r The circle's radius
  95. #' @noRd
  96. intersect_line_circle <- function(p1, p2, r) {
  97. .Call('_ggrepel_intersect_line_circle', PACKAGE = 'ggrepel', p1, p2, r)
  98. }
  100. #' Find the intersections between a line and a rectangle.
  101. #' @param p1 A point like \code{c(x, y)}
  102. #' @param p2 A point like \code{c(x, y)}
  103. #' @param b A rectangle like \code{c(x1, y1, x2, y2)}
  104. #' @noRd
  105. intersect_line_rectangle <- function(p1, p2, b) {
  106. .Call('_ggrepel_intersect_line_rectangle', PACKAGE = 'ggrepel', p1, p2, b)
  107. }
  109. select_line_connection <- function(p1, b) {
  110. .Call('_ggrepel_select_line_connection', PACKAGE = 'ggrepel', p1, b)
  111. }
  113. approximately_equal <- function(x1, x2) {
  114. .Call('_ggrepel_approximately_equal', PACKAGE = 'ggrepel', x1, x2)
  115. }
  117. #' Adjust the layout of a list of potentially overlapping boxes.
  118. #' @param data_points A numeric matrix with rows representing points like
  119. #' \code{rbind(c(x, y), c(x, y), ...)}
  120. #' @param point_size A numeric vector representing the sizes of data points.
  121. #' @param point_padding_x Padding around each data point on the x axis.
  122. #' @param point_padding_y Padding around each data point on the y axis.
  123. #' @param boxes A numeric matrix with rows representing boxes like
  124. #' \code{rbind(c(x1, y1, x2, y2), c(x1, y1, x2, y2), ...)}
  125. #' @param xlim A numeric vector representing the limits on the x axis like
  126. #' \code{c(xmin, xmax)}
  127. #' @param ylim A numeric vector representing the limits on the y axis like
  128. #' \code{c(ymin, ymax)}
  129. #' @param force Magnitude of the force (defaults to \code{1e-6})
  130. #' @param max_time Maximum number of seconds to try to resolve overlaps
  131. #' (defaults to 0.1)
  132. #' @param max_iter Maximum number of iterations to try to resolve overlaps
  133. #' (defaults to 2000)
  134. #' @noRd
  135. repel_boxes2 <- function(data_points, point_size, point_padding_x, point_padding_y, boxes, xlim, ylim, hjust, vjust, force_push = 1e-7, force_pull = 1e-7, max_time = 0.1, max_overlaps = 10, max_iter = 2000L, direction = "both", verbose = 0L) {
  136. .Call('_ggrepel_repel_boxes2', PACKAGE = 'ggrepel', data_points, point_size, point_padding_x, point_padding_y, boxes, xlim, ylim, hjust, vjust, force_push, force_pull, max_time, max_overlaps, max_iter, direction, verbose)
  137. }

RcppExports.R at commit 458aa50, under GPL-3.0 · at the source

Overview

Authors: Leona Cesar1, Davide Zabeo1, Andrea Cellini1, Emelie Aspholm1, Alexander Kolsrud1, Dimitra Panagaki1, Johanna Louise Höög1, Julia Morud1
ORCID iDs: Julia Morud
  1. Department of Chemistry and Molecular Biology, University of Gothenburg, Gothenburg, Sweden
Institutions: University of Gothenburg (Sweden)
Journal: iScience, volume 29, issue 9, article 117309
Dates: received 17 November 2025; accepted 7 August 2026; published online 25 August 2026
Type: Research article · Language: English
License: CC BY
Identifiers: DOI 10.1016/j.isci.2026.117309 · PMID 42698677 · PMCID PMC13542505 · OpenAlex W4415599461
Open access: gold, a free copy (OpenAlex)
Preprint: doi:10.1101/2025.10.27.684756
Status: code verified
Categories: C. elegans (organism), cellular / molecular (subfield)
Methods: Evoked potentials, Connectivity, fMRI & imaging
Keywords: C. elegans, synaptic plasticity, serotonin receptor, avoidance learning
Topic: Genetics, Aging, and Longevity in Model Organisms (Aging, Biochemistry, Genetics and Molecular Biology), according to OpenAlex
Funding: Swedish cancer society (21 1865 Pj01H); Carl Trygger Foundation for Scientific Research (22:1966); Fondation Cancer; Swedish Research Council (2019\u201304004, 2022\u201303951); Åke Wiberg Foundation (M22\u20130215, M21-0229); Tore Nilson Foundation for Medical Research; Swedish Foundation for Strategic Research (FFL21-0166); Magnus Bergvall Foundation
Citations: not cited yet (Europe PMC); 73 references in the paper
Research resources: RRID:AB_10979409, HRP-conjugated goat anti-mouse antibody RRID:AB_228302, Anti-HA mouse antibody RRID:AB_2533092, GFP-Trap magnetic beads RRID:AB_2631358

Abstract

Learning and memory arise from synaptic plasticity, the ability of neurons to modify connectivity through experience-dependent changes in receptor localization and signaling. Here, we identify a short intracellular motif within the serotonin-gated ion channel LGC-50 that links molecular receptor dynamics to behavioral plasticity in Caenorhabditis elegans. Deletion of residues 363–379 in the intracellular M3-4 loop caused receptor clustering in intracellular compartments and abolished learning-induced redistribution without altering receptor function or immediate memory recall. Interestingly, animals expressing the truncated receptor displayed impaired retrieval of aversive memories 1 h after training, revealing a role for receptor trafficking in memory stability. Combining molecular, ultrastructural, and behavioral analyses in vivo, we show how intracellular receptor motifs govern experience-dependent plasticity. These findings demonstrate that precise receptor localization and trafficking shape neural circuit adaptation and reveal a conserved mechanism by which receptor dynamics support the persistence and retrieval of memory across species.

Reproduced under the paper's license (CC BY), from the paper cited above.

Repository

Its files are read in the Code ↔ Paper reader above.

slowkow/ggrepel

License: GPL-3.0
State: the link answers, verified on 27 September 2026
Evidence: files inventoried
Commit: 458aa50c14c2d4df8792fff1478aca1ba3b3615f, 14 April 2026
Languages: R (20), JavaScript (13), C++ (2)
Size: 215 files, 35 scripts
Software Heritage: archived
Found in: the resources table
Holds: README, license file, environment (DESCRIPTION), tests, continuous integration, documentation, 3 notebooks
Not found: CITATION.cff
Tools: ggplot2 (5 files), patchwork (1 file)
Availability: 1 check, the latest on 27 September 2026: the link answers
  • 27 September 2026: the link answers
37 files
At the source: github.com/slowkow/ggrepel

The paper's code and data availability statement is in the Data section.

Tracing map

Proposed by the machine: these links were found in the paper and verified at the source, without human review. The map will receive a Zenodo DOI once one of the paper's authors has validated it with their ORCID.

What the map holds:

  • 1 repository of the authors' code, each at its verified commit, with its license and how the link was found in the paper;
  • 35 scripts, each with its path and the digest of its content;
  • no match between paragraphs and code yet;
  • neither the text of the paper nor the code itself.

Its JSON (tracing-map.json) is deposited on Zenodo with its DOI once the map is validated.

Data

No dataset and no data link were found in the paper.

Data and code availability

All experimental data, including the results of imaging, behavioral and biochemical experiments, will be shared by the lead contact upon request.

This paper does not report original code.

Any additional information required to reanalyze the data reported in this paper is available from the lead contact upon request.

Reproduced under the paper's license (CC BY), from the paper cited above.

Versions

The history of this record: each version stored by the harvester or made by a correction of its authors or of the maintainers of its code, and what changed in its facts. The texts of the paper (its abstract, its availability statements) are not part of it; versions that changed only those are not listed.

Version 2, 28 September 2026

  • Authors: added Julia Morud (0000-0003-1925-5938); removed Julia Morud

Version 1, 27 September 2026: the first record

Recorded: type, language, journal, volume, issue, pages, dates, 8 authors, 4 keywords, 8 funders, 71 references, 4 RRIDs.

Cite

This paper

Cesar, L., Zabeo, D., Cellini, A., Aspholm, E., Kolsrud, A., Panagaki, D., Höög, J. L., & Morud, J. (2026). Intracellular regulation of a serotonin-gated ion channel links receptor trafficking to memory. iScience, 29(9), 117309. https://doi.org/10.1016/j.isci.2026.117309

BibTeX

@article{cesar2026intracellular,
author = {Cesar, Leona and Zabeo, Davide and Cellini, Andrea and Aspholm, Emelie and Kolsrud, Alexander and Panagaki, Dimitra and Höög, Johanna Louise and Morud, Julia},
title = {{Intracellular regulation of a serotonin-gated ion channel links receptor trafficking to memory}},
journal = {iScience},
year = {2026},
month = aug,
volume = {29},
number = {9},
pages = {117309},
publisher = {Elsevier},
issn = {2589-0042},
doi = {10.1016/j.isci.2026.117309},
url = {https://doi.org/10.1016/j.isci.2026.117309},
pmid = {42698677},
pmcid = {PMC13542505}
}

RIS

TY - JOUR
AU - Cesar, Leona
AU - Zabeo, Davide
AU - Cellini, Andrea
AU - Aspholm, Emelie
AU - Kolsrud, Alexander
AU - Panagaki, Dimitra
AU - Höög, Johanna Louise
AU - Morud, Julia
TI - Intracellular regulation of a serotonin-gated ion channel links receptor trafficking to memory
T2 - iScience
J2 - iScience
PY - 2026
DA - 2026/08/25
VL - 29
IS - 9
SP - 117309
SN - 2589-0042
PB - Elsevier
DO - 10.1016/j.isci.2026.117309
UR - https://doi.org/10.1016/j.isci.2026.117309
LA - en
ER -

CSL-JSON

{
"id": "10.1016/j.isci.2026.117309",
"type": "article-journal",
"title": "Intracellular regulation of a serotonin-gated ion channel links receptor trafficking to memory",
"container-title": "iScience",
"author": [
{
"family": "Cesar",
"given": "Leona"
},
{
"family": "Zabeo",
"given": "Davide"
},
{
"family": "Cellini",
"given": "Andrea"
},
{
"family": "Aspholm",
"given": "Emelie"
},
{
"family": "Kolsrud",
"given": "Alexander"
},
{
"family": "Panagaki",
"given": "Dimitra"
},
{
"family": "Höög",
"given": "Johanna Louise"
},
{
"family": "Morud",
"given": "Julia"
}
],
"container-title-short": "iScience",
"volume": "29",
"issue": "9",
"page": "117309",
"DOI": "10.1016/j.isci.2026.117309",
"PMID": "42698677",
"PMCID": "PMC13542505",
"ISSN": "2589-0042",
"publisher": "Elsevier",
"URL": "https://doi.org/10.1016/j.isci.2026.117309",
"language": "en",
"issued": {
"date-parts": [
[
2026,
8,
25
]
]
}
}

The tracing map gets a citation of its own once an author has validated it and it has a DOI.

Similar papers

The papers with a page that share the most with this one: the tools found in their code, their categories, datasets, cited references and authors, the rarest counting most.

[1] doi:10.1038/s41467-026-74202-w [code]
Repetitive neuronal activation regulates cellular maturation state via nuclear reprogramming.
Journal: Nature communications
In common: cellular / molecular, 3 references
[2] doi:10.1038/s41467-026-71112-9 [code]
Modelling synaptic dysfunction in childhood dementia using human iPSC-derived cortical networks.
Journal: Nature communications
In common: patchwork, ggplot2, cellular / molecular, 2 references
[3] doi:10.1242/jcs.264565 [code]
A conserved Arf-GEF modulates axonal integrity through RAB-35 by altering neuron-epidermal attachment.
Journal: Journal of cell science
In common: C. elegans, cellular / molecular, 3 references
[4] doi:10.1038/s41467-026-72845-3 [code]
The membrane-to-cortex distance regulates mDia1 activity to control cortical mechanics.
Journal: Nature communications
In common: ggplot2, cellular / molecular, 3 references
[5] doi:10.1126/sciadv.adv8387 [code]
&lt;i&gt;C. elegans&lt;/i&gt; somatostatin/allatostatin C signaling regulates sleep, metabolism, survival, and memory via a sleep-active neuron.
Journal: Science advances
In common: C. elegans, 2 references
[6] doi:10.1016/j.isci.2026.117228 [code]
Single-nucleus transcriptomics reveals cell type-specific remodeling and epilepsy-associated microglia.
Journal: iScience
In common: patchwork, ggplot2, cellular / molecular, 2 references
[7] doi:10.7554/elife.108675 [code]
SynaptoTagMe, a toolkit for in vivo mapping and modulating neurotransmission at single-cell resolution.
Journal: eLife
In common: C. elegans, cellular / molecular, 3 references
[8] doi:10.1038/s41593-026-02257-5 [code]
Neural sequences underlying directed turning in Caenorhabditis elegans.
Journal: Nature neuroscience
In common: C. elegans, 2 references
[9] doi:10.7554/elife.102309 [code]
Dimorphic neural network architecture prioritizes sexual-related behaviors in male &lt;i&gt;Caenorhabditis elegans&lt;/i&gt;.
Journal: eLife
In common: C. elegans, 2 references
[10] doi:10.1016/j.isci.2026.115488 [code]
An integrated &lt;i&gt;i&lt;/i&gt; &lt;i&gt;n vitro&lt;/i&gt; platform and biophysical modeling approach for studying synaptic transmission in isolated neuronal pairs.
Journal: iScience
In common: cellular / molecular, 3 references

Contribute

The authors of this paper can claim it, correct its record and validate its tracing map, and the maintainers of its code (its owner, or a public member of its organization) correct what it says of their repository; anyone signed in can ask for its removal. Every request goes to OSCR's own machine, which answers it; your account page follows them.

Sign in with ORCID to claim this paper as one of its authors, correct its record or validate its tracing map: when the paper's metadata lists your ORCID iD, you are recognized at once. Maintainers of its code: sign in with GitHub, then claim the repository on your account page.

Request its removal

To ask OSCR to remove this record, the copies of its authors' scripts or its tracing map, use the removal request page: signed in, you say who you are, what to remove and why, then review and confirm the request. Published rules decide every request (how).

Discussion, reproductions, activity

Discussion: questions and error reports about this paper and its code, from signed-in readers and its authors. It opens with sign-in.

Reproductions: reports from readers who ran the authors' code: what they reproduced, with which environment, commit and data. It opens with sign-in.

Activity: what happens around this paper: new versions of its record, its map's validation, discussions and reproductions. It opens with sign-in.