Giorgio Gilestro
ab3dc10587
- paper/pnas -> paper/manuscript (venue-neutral)
- configs/layer1 -> configs/inheritance, src/knowledge -> src/inheritance
(imported as `inheritance`), make layer1 -> make inheritance; layer2 alias dropped
- inheritance and trained-network bundles named after the manuscript figure
they feed (fig2_grounding_sweep, figS3_rebaselining, ...), or descriptively
where they feed none; configs keep their `experiment:` value so parquet
hashes are unchanged, only output.dir moves
- figure scripts, SI figure sources, notebooks, REPRODUCING.md, README and the
SI Methods/tables updated; make clean no longer deletes tracked manifests;
reproduce.sh hashes the s{seed}/ layouts too
Co-Authored-By: Claude Fable 5.1 <noreply@anthropic.com>
Claude-Session: https://claude.ai/code/session_01Y64o8FKP7rCuXzC48pxpMm
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| manifest.json | ||
| README.md | ||
| resolved_config.yaml | ||
| sexual_vs_asexual_lineage.pdf | ||
| sexual_vs_asexual_lineage.png | ||
E7 — the advantage of sex: recombination adapts faster than clonal reproduction
Claim tested. The dynamic mechanism behind E8: why can a recombining society reach capability a lone lineage cannot? Because recombination reassorts beneficial variants that arise in different sub-lineages, while an asexual (clonal) lineage suffers clonal interference — the variants compete and cannot combine.
Setup. A single population (distribution over 2^L genotypes, L=12) adapts from all-wrong
toward the multi-locus optimum under the composed step: selection (fitness-proportional) + drift
(resample n=150) + mutation (per-locus flips, μ=0.02) + recombination. Two arms — asexual
(recomb_rate=0) vs sexual (recomb_rate=1). 20 replicates.
Symbols
- asexual/clonal = offspring are whole-genotype copies (Layer-1's regime) · sexual = loci reassorted across the population each generation.
- fitness = number of correct loci (optimum =
L) · linkage disequilibrium |D| = how far the loci are from statistical independence (correct alleles scattered across different genotypes).
The two panels
- Advantage of sex. Mean fitness over generations: the sexual lineage (red) climbs faster than the asexual one (grey) through the adaptation phase (gen ~10–35). Honest scope: both plateau near the optimum by gen ~40 in this tractable regime — this is a speed advantage, not a permanent gap (the single-population Muller's ratchet is subtle to force; E8 carries the headline).
- Mechanism. Linkage disequilibrium over generations: the asexual lineage spikes to
|D|≈0.04during adaptation (beneficial alleles held apart, scattered across genotypes), while the sexual lineage stays at|D|≈0— it assembles them. The LD gap is exactly why sexual adapts faster.
Takeaway
Recombination's advantage is real and classical: it combines good ideas that arose independently, which clonal reproduction cannot. This is the population-level reason a single evolving model lineage degrades or stalls where a recombining society climbs — and it grounds the E8 vertical result in the evolution-of-sex theory. Falsifier (not triggered): if the sexual lineage adapted no faster than the asexual one (and kept the same LD), recombination would do no work.