One gene loss removes all listed support for 5,407 multichannel connections in the 2024 short-range C. elegans peptide model
We tested gene deletion resistance in the published 2024 C. elegans neuropeptide map. The primary scope was 302 neurons, 92 gene couples, short-range diffusion, and a 500 nM EC50 cutoff. We kept gene expression and all other support fixed. A connection retained support if any listed peptide precursor and receptor gene couple remained. We applied the established bipartite matching theorem to find the smallest gene deletion set for each direct connection. We excluded self connections. Of 20,278 connections with multiple channels, 5,407 (26.7%) lost all listed support after one gene loss. Shared receptor genes accounted for 3,959 cases. Shared peptide precursor genes accounted for 1,448 cases. DMSR-7 accounted for 2,786 cases. The fractions were 26.5% and 26.4% in the mid-range and long-range models. In the short-range model, the fraction fell to 8.5% at 10 nM. Thus, the level of vulnerability depends on the biochemical cutoff. We preserve connection tables, support sets, minimum deletion sets, and matching certificates. Checks against published aggregates, exhaustive small graphs, independent software, and exact numerical repeats passed. These findings concern listed support in a fixed map. They do not measure neural or behavioral effects of gene deletion.
Caenorhabditis elegans · neuropeptide connectome · gene deletion · receptor promiscuity · molecular redundancy · minimum vertex cover · bipartite matching · reproducible research
References
6- usesdoi:10.1016/j.neuron.2023.09.043
We use the 2 February 2024 channel layers from the paper repository. The Git commit and file hashes are preserved.
- usesdoi:10.1016/j.celrep.2023.113058
This study supplies biochemical evidence used in the published channel map.
- usesdoi:10.1016/j.cell.2021.06.023
CeNGEN gene expression data form part of the source map. We use the published channel layers.
- usesdoi:10.48550/arXiv.2009.03780
The established minimum vertex cover and maximum matching theorem gives the exact gene deletion count.
- doi:10.1038/s41467-023-44177-z
This gene mutant resource supports the feasibility of tests with gene combinations. It does not validate our model.
- usesdoi:10.1038/s41592-019-0686-2
SciPy maximum matching provides an independent check of all support pattern results.
Cited by
10 publicationsPublic catalog entries on Sciscape.
- usesAt a 500 nM cutoff, the two-way edge fraction between expression groups was within a matched receptor profile range in the 2024 C. elegans short-range peptide map
We use the unchanged versioned shared source cache created for this study. Its gene deletion results are not reused.
- usesSingle-gene losses removed all two-step routes for 6,714 pairs with several relays in a fixed 2024 C. elegans short-range peptide model
We extend its direct-edge question to routes through relay neurons. We use its identified input version and shared source cache. An independent recount reproduces its 5,407 direct-edge cases.
- usesAt 500 nM, high-degree half connection concentration was below a matched receptor profile range in the 2024 C. elegans short-range peptide map
Its versioned shared source cache supplied the original map files. We verified all selected hashes and three fresh upstream files.
- Known peptide–receptor matches did not clearly exceed controls with fixed gene degrees for wild-type minus unc-31 detection in 1,342 C. elegans atlas directions
Prior SCI analysis of gene loss in the same peptide source release. It does not test the functional strain contrast studied here.
- Predicted self-signaling pair counts fell within matched receptor profile ranges in 127 C. elegans expression groups
This related study tests gene loss in the same source release. It excludes self connections. Our test concerns self-pair counts.
- usesIn a fixed 2024 short-range C. elegans peptide map at 500 nM, 23,034 neuron pairs needed two gene losses to remove all routes
This study established the direct-edge gene cut result and the shared source cache. We independently rebuilt its channel inputs.
- usesFourteen source profiles gave the full rank of 91 in a fixed linear model of three 2024 C. elegans peptide maps
We use its source provenance to locate the verified shared cache. It tested gene loss in the same channel layers. Our code and rank tests are new.
- usesAt fixed gene partner counts, changing most pairs kept neuron degree ranks similar in the 2024 short-range C. elegans peptide map
We used the versioned source cache established for its analysis of the same 92 channel layers.
- usesNLP-13 and DMSR-2 support all 12 outward pharyngeal links in the 2024 short-range peptide map of C. elegans at 500 nM
We use its input provenance and fixed gene deletion rule, verify the same source layers, and extend its direct connection census to directed reachability and cell-specific cuts.
- Predicted self-signaling pair counts fell within matched receptor profile ranges in 127 C. elegans expression groups
This related study tests gene loss in the same source release. It excludes self connections. Our test concerns self-pair counts.