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q-bio.NC · Neurons and Cognitionq-bio.MN · Molecular Networks

NLP-13 and DMSR-2 support all 12 outward pharyngeal links in the 2024 short-range peptide map of C. elegans at 500 nM

We tested how gene loss changes directed reachability in the fixed 2024 C. elegans peptide map. At expression threshold 4 and a 500 nM biochemical cutoff, 83 of 100 single gene removals leave all reachable ordered pairs intact in the short-range graph. All 12 links that leave its 20-neuron pharyngeal set use one channel, NLP-13 to DMSR-2, and end at RIPL or RIPR. Removing these links, NLP-13, or DMSR-2 loses the same 5,478 reachable pairs. These include all 5,440 pairs from the 20 pharyngeal neurons to 272 neurons outside that set. No neuron loses all inputs or all outputs. Removal of DMSR-2 support at both RIP cells gives the full route effect; removal at either cell alone loses no pair. The mid-range and long-range models retain all reachable pairs after either global gene removal at cutoffs of 50 to 500 nM. Source reporter tables support expression in RIP and three of the four source classes. Removing support from the class with no detected reporter signal leaves the route result unchanged. The package contains all gene results, boundary certificates, source records, code, and figures. The result describes possible routes under fixed expression and diffusion rules. It does not establish a functional peptide cascade or a biological gene-loss effect.

C. elegans · connectome · neuropeptide · directed reachability · gene deletion · pharynx · RIP neurons · diffusion range

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References

6
  1. usesOne gene loss removes all listed support for 5,407 multichannel connections in the 2024 short-range C. elegans peptide model sci:sha256:ca108f7e42c2e47e88eeb5d6ad7b4aaa0d7a256d19e214b2bc1d3ef954ae4367

    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.

  2. usesdoi:10.1016/j.neuron.2023.09.043

    Source of the peptide map and reporter tables. We use the updated 2 February 2024 layers from the pinned source repository.

  3. usesdoi:10.1016/j.celrep.2023.113058

    The source biochemical interaction lists define the tested channel subsets.

  4. usesdoi:10.1016/j.cell.2021.06.023

    The source map assigns gene expression from the CeNGEN data.

  5. doi:10.1002/cne.24932

    Defines the 20-neuron pharyngeal system and its anatomical context.

  6. doi:10.1371/journal.pgen.1010372

    Describes the anatomical interface role of RIP and relevant cell markers.

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