OSCR

Selective lifelong suppression of an odor processing channel in response to critical period experience.

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; OSCR does not store it: doi.org · Europe PMC

The paper is loaded when this pane is shown.

The authors' code

MATLAB · 93 lines · 3.1 KB · no license

  1. %% Code to calculate the florosence increase in the file and calculate the activation pattern of area.
  2. % Here in the script I already assume that the video has been cropped to
  3. % the size the user wants in imageJ.To run the function just in command
  4. % line type [Data,filename]=processFlurescenceTiffNew().
  5. % Output:- the function spits out Data that has the normalized intensity
  6. % and filenames of all the files processed.
  7. function [Data,filename]=processFluorescenceTiffNew()
  8. warning off
  9. % Load the fluorescence tiff file
  10. [file,folder] = uigetfile('*.*','multiselect','on'); % User selects one or multiple files.
  11. filename = fullfile(folder, file);
  12. for j=1:1:size(file,2)
  13. info = imfinfo(filename{j});
  14. num_frames = numel(info);
  16. % Read the first frame to get image size and show it to the user
  17. first_frame = imread(filename{j}, 1);
  19. % Loop through all the frames and all the videos and calculate the
  20. % overall maximum
  21. for video=1:1:size(file,2)
  22. for frame_idx =28:32
  23. % Read the current frame
  24. frame = imread(filename{video}, frame_idx);
  26. % Crop the ROI from the current frame
  27. I2=frame;
  28. I2 = im2double(I2);
  29. I2=I2(:,:,1);
  30. maxi(video,frame_idx)=max(max(I2));
  32. end
  33. end
  34. mximum=max(max(maxi));
  35. % Preallocate memory for the intensity data
  36. num_grid_rows = 10;
  37. num_grid_cols = 10;
  38. normalized_intensity = zeros(num_grid_rows, num_grid_cols);
  40. for frame_idx = 6:20
  41. % Read the current frame
  42. frame = imread(filename{j}, frame_idx);
  43. frame=double(frame);
  45. I2=frame;
  46. I2 = im2double(I2);
  47. I2=I2(:,:,1);
  48. BaseF(frame_idx)=abs(mean(mean(I2(:,:))));
  49. end
  51. BaselineFluroscence=mean(BaseF);
  52. tousemximum=mximum-BaselineFluroscence;
  53. % Calculate the normalized intensity for each frame in the ROI
  54. for frame_idx = 28:32
  55. % Read the current frame
  56. frame = imread(filename{j}, frame_idx);
  57. frame=im2double(frame);
  59. % Crop the ROI from the current frame
  60. roi_frame=frame(:,:,1);
  63. % Calculate the normalized intensity in a 10x10 grid
  64. grid_rows = round(linspace(1, size(roi_frame, 1), num_grid_rows+1));
  65. grid_cols = round(linspace(1, size(roi_frame, 2), num_grid_cols+1));
  67. for row_idx = 1:num_grid_rows
  68. for col_idx = 1:num_grid_cols
  69. grid_region = roi_frame(grid_rows(row_idx):grid_rows(row_idx+1)-1, grid_cols(col_idx):grid_cols(col_idx+1)-1);
  71. % Check if grid_region is empty
  72. if isempty(grid_region)
  73. % Assign NaN to normalized_intensity if grid_region is empty
  74. normalized_intensity(frame_idx, row_idx, col_idx) = NaN;
  75. else
  76. % Calculate the total pixel intensity in the grid region
  77. total_grid_intensity = ((abs(sum(grid_region(:)))- BaselineFluroscence)/ BaselineFluroscence);
  79. % Calculate the normalized intensity in a 10x10 grid
  80. normalized_intensity(frame_idx, row_idx, col_idx) = (total_grid_intensity /tousemximum);
  82. end
  83. end
  84. end
  85. end
  87. Data{j,:}=normalized_intensity;
  88. end
  89. end

processFluorescenceTiffNew.m at commit 8691f88, no license · at the source

Overview

Authors: Hans C Leier1, Julius Jonaitis2, Alexander J Foden1, Abigail J Wilkov1, Paola Van der Linden Costello1, Heather T Broihier1, Andrew M Dacks2
ORCID iDs: Hans C Leier, Julius Jonaitis, Alexander J Foden, Abigail J Wilkov, Paola Van der Linden Costello, Heather T Broihier, Andrew M Dacks
  1. Department of Neurosciences, Case Western Reserve University School of Medicine Cleveland United States
  2. Department of Biology, Case Western Reserve University Cleveland United States
Institutions: Case Western Reserve University (United States)
Journal: eLife, volume 14, article RP108236
Dates: published online 28 September 2026
Type: Research article · Language: English
License: CC BY
Identifiers: DOI 10.7554/elife.108236 · PMID 42803516 · PMCID PMC13619131 · OpenAlex W4414124345
Open access: gold, a free copy (OpenAlex)
Status: code verified (how the code is found and verified)
Categories: optical imaging (calcium, voltage, 2-photon) (modality), drosophila (organism)
Methods: Statistics, Preprocessing, Evoked potentials, fMRI & imaging, Single-unit activity, calcium imaging
Keywords: antennal lobe, critical period, Drosophila, olfaction, D. melanogaster
MeSH: Drosophila melanogaster*, Drosophila Proteins*, Neuronal Plasticity*, Odorants*, Olfactory Receptor Neurons*, Receptors, Odorant*, Smell*, Animals, Neuroglia, Phagocytosis (* major topic)
Journal subjects: Neuroscience
Topic: Neurobiology and Insect Physiology Research (Cellular and Molecular Neuroscience, Neuroscience), according to OpenAlex
Funding: National Institutes of Health (F30AG097357, R01DC016293, T32GM152319, R01NS120689)
Citations: not cited yet (Europe PMC); 57 references in the paper
Research resources: RRID:AB_221477, anti-Bruchpilot (Mouse monoclonal) RRID:AB_2314866, RRID:AB_2610630, RRID:AB_2866490, Or43b-GAL4 RRID:BDSC_23894, UAS-mCD8::GFP RRID:BDSC_32186, UAS-ASAP5 RRID:BDSC_605337, UAS-LexA RNAi RRID:BDSC_67947, UAS-GCaMP8f RRID:BDSC_92587, Or42a-GAL4 RRID:BDSC_9970, DoOR.data RRID:SCR_000432, Imaris RRID:SCR_007370, fafbseg RRID:SCR_008394, FlyWire RRID:SCR_019205

Abstract

Sensory circuits undergo experience-dependent plasticity during early-life critical periods, attuning the nervous system to levels of key environmental stimuli. During a critical period in the Drosophila olfactory system, we found that exposure to ethyl butyrate (EB) induces glial phagocytosis of odorant receptor Or42a-positive olfactory sensory neuron (OSN) axon terminals which terminate in the VM7 glomerulus (Leier et al., 2025). Here, we extend these findings by establishing functional significance and circuit selectivity in this critical period paradigm. First, using a combination of two-photon Ca2+ imaging and the genetically-encoded voltage indicator ASAP5, we find that Or42a OSN odor-evoked responses are permanently suppressed in animals with critical period odor exposure. Thus, critical period odor exposure results in long-term changes to odor sensitivity in Or42a OSNs. Second, to establish the selectivity of glial pruning for Or42a axon terminals, we examined projection neurons (PNs) postsynaptic to Or42a OSNs as well as a second population of highly EB-responsive OSNs, called Or43b OSNs. We find that (1) within VM7, glial pruning is selective for Or42a terminals, and (2) while Or43b OSNs appear modestly pruned, they maintain their sensitivity to EB. To elucidate this difference, we turned to the Drosophila connectome. We identify striking differences in the scale of inhibitory connectivity to Or42a and Or43b OSNs, although disruption of GABA A receptor expression in both OSN types enhanced pruning. This study expands our understanding of this critical period plasticity paradigm by demonstrating lifelong suppression of pruned Or42a OSNs and establishing its specificity within and between sensory circuits.

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

Repository

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

adacks/Salman-et-al

License: none: the authors keep all their rights
State: the link answers, verified on 30 September 2026
Evidence: files inventoried
Commit: 8691f886a530d815a48f9efa1f62e681b2ab1658, 23 August 2025
Languages: MATLAB (1)
Size: 1 file, 1 script
Software Heritage: not archived
Found in: the references
Not found: README, license file, CITATION.cff, environment file, tests, continuous integration, documentation
Availability: 1 check, the latest on 30 September 2026: the link answers
  • 30 September 2026: the link answers
1 file
At the source: github.com/adacks/Salman-et-al

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;
  • 1 script, 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

Datasets cited

Data availability

All reagents will be made available upon request. All data in support of the findings of this study can be accessed at https://doi.org/10.17605/OSF.IO/NFWQB.

The following dataset was generated:

DacksA JonaitisJ LeierH 2026Leier eLife advanceOpen Science Framework10.17605/OSF.IO/NFWQB

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 1, 30 September 2026: the first record

Recorded: type, language, journal, volume, pages, dates, 7 authors, 5 keywords, 10 MeSH terms, 1 funder, 53 references, 14 RRIDs.

Cite

This paper

Leier, H. C., Jonaitis, J., Foden, A. J., Wilkov, A. J., Van der Linden Costello, P., Broihier, H. T., & Dacks, A. M. (2026). Selective lifelong suppression of an odor processing channel in response to critical period experience. eLife, 14, RP108236. https://doi.org/10.7554/elife.108236

BibTeX

@article{leier2026selective,
author = {Leier, Hans C and Jonaitis, Julius and Foden, Alexander J and Wilkov, Abigail J and Van der Linden Costello, Paola and Broihier, Heather T and Dacks, Andrew M},
title = {{Selective lifelong suppression of an odor processing channel in response to critical period experience}},
journal = {eLife},
year = {2026},
month = sep,
volume = {14},
pages = {RP108236},
publisher = {eLife Sciences Publications, Ltd},
issn = {2050-084X},
doi = {10.7554/elife.108236},
url = {https://doi.org/10.7554/elife.108236},
pmid = {42803516},
pmcid = {PMC13619131}
}

RIS

TY - JOUR
AU - Leier, Hans C
AU - Jonaitis, Julius
AU - Foden, Alexander J
AU - Wilkov, Abigail J
AU - Van der Linden Costello, Paola
AU - Broihier, Heather T
AU - Dacks, Andrew M
TI - Selective lifelong suppression of an odor processing channel in response to critical period experience
T2 - eLife
J2 - eLife
PY - 2026
DA - 2026/09/28
VL - 14
SP - RP108236
SN - 2050-084X
PB - eLife Sciences Publications, Ltd
DO - 10.7554/elife.108236
UR - https://doi.org/10.7554/elife.108236
LA - en
ER -

CSL-JSON

{
"id": "10.7554/elife.108236",
"type": "article-journal",
"title": "Selective lifelong suppression of an odor processing channel in response to critical period experience",
"container-title": "eLife",
"author": [
{
"family": "Leier",
"given": "Hans C"
},
{
"family": "Jonaitis",
"given": "Julius"
},
{
"family": "Foden",
"given": "Alexander J"
},
{
"family": "Wilkov",
"given": "Abigail J"
},
{
"family": "Van der Linden Costello",
"given": "Paola"
},
{
"family": "Broihier",
"given": "Heather T"
},
{
"family": "Dacks",
"given": "Andrew M"
}
],
"container-title-short": "eLife",
"volume": "14",
"page": "RP108236",
"DOI": "10.7554/elife.108236",
"PMID": "42803516",
"PMCID": "PMC13619131",
"ISSN": "2050-084X",
"publisher": "eLife Sciences Publications, Ltd",
"URL": "https://doi.org/10.7554/elife.108236",
"language": "en",
"issued": {
"date-parts": [
[
2026,
9,
28
]
]
}
}

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:10.7554/elife.85443 [code]
Chronic exposure to odors at naturally occurring concentrations triggers limited plasticity in early stages of <i>Drosophila</i> olfactory processing.
Journal: eLife
In common: drosophila, 16 references
[2] doi:10.1038/s41467-025-66107-x [code]
Differential modulation of feedforward inhibition reflects topographic organization in the olfactory system.
Journal: Nature communications
In common: drosophila, 13 references, author Andrew M Dacks
[3] doi:10.1016/j.cub.2025.02.034 [code]
Nonlinear high-activity neuronal excitation enhances odor discrimination.
Journal: Current biology : CB
In common: drosophila, 16 references
[4] doi:10.1016/j.isci.2024.111083
Serotonin acts through multiple cellular targets during an olfactory critical period.
Journal: iScience
In common: 12 references, author Andrew M Dacks
[5] doi:10.7554/elife.88824 [code]
The unique synaptic circuitry of specialized olfactory glomeruli in &lt;i&gt;Drosophila melanogaster&lt;/i&gt;.
Journal: eLife
In common: drosophila, 16 references
[6] doi:10.21203/rs.3.rs-6737374/v1
Differential Dopaminergic Modulation of the Antennal Lobe of Drosophila melanogaster
Journal: Research Square (preprint)
In common: drosophila, 12 references
[7] doi:10.1038/s44319-025-00476-8
An integrated anatomical, functional and evolutionary view of the Drosophila olfactory system.
Journal: EMBO reports
In common: drosophila, 11 references
[8] doi:10.1073/pnas.2117484120 [code]
Normative and mechanistic model of an adaptive circuit for efficient encoding and feature extraction.
Journal: Proceedings of the National Academy of Sciences of the United States of America
In common: drosophila, 9 references
[9] doi:10.3389/fnsys.2026.1822122 [code]
Convergence-divergence circuits for multimodal integration of innate and learned opponent valences.
Journal: Frontiers in systems neuroscience
In common: 10 references
[10] doi:10.1371/journal.pcbi.1011176 [code]
Gain modulation and odor concentration invariance in early olfactory networks.
Journal: PLoS computational biology
In common: 9 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.

Add the badge to the code's README

OSCR: the badge of this paper

If you are an author or a maintainer of this paper's code, you can add this badge. It says what OSCR knows of the paper (its code, its validated tracing map) and links the code to this page. Paste one of these snippets under the README's title. Keep the two marks around it, so that the badge can be replaced in place and is never added twice. OSCR changes nothing in your repository.

Markdown
<!-- oscr-badge:start -->
[![OSCR](https://openscicode.org/badge/doi/10.7554/elife.108236.svg)](https://openscicode.org/badge/doi/10.7554/elife.108236)
<!-- oscr-badge:end -->
reStructuredText
.. oscr-badge:start

.. image:: https://openscicode.org/badge/doi/10.7554/elife.108236.svg
   :target: https://openscicode.org/badge/doi/10.7554/elife.108236
   :alt: OSCR

.. oscr-badge:end
HTML
<!-- oscr-badge:start -->
<a href="https://openscicode.org/badge/doi/10.7554/elife.108236"><img src="https://openscicode.org/badge/doi/10.7554/elife.108236.svg" alt="OSCR"></a>
<!-- oscr-badge:end -->

On GitHub, open the README, choose Edit (the pencil), paste the snippet under the title, then "Commit changes".

If you choose to, you can have the badge kept up to date for you, with oscr badge --write from the command line or with the GitHub Action in your repository's workflows. Every other form and option (a card, AsciiDoc, LaTeX, shields.io) is on the badge 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: code errors and mismatches between the code and the paper about this paper and its code, from readers and its authors, beside the paper and its tracing map.

Report a mismatch between the code and the paper · Report a code error (signed in)

Reproductions: reports from readers who ran the authors' code and did not get the paper's result, what they ran, with which environment, commit and data.

Report a reproduction failure (signed in)

Versions of its code: the releases of its code tied to a version of this paper (the preprint, the accepted manuscript, the version of record…), each with the tracing map versioned with it.

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