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pith:EYZ3J6QB

pith:2026:EYZ3J6QBEPAATKDVFR3GIBAJIE

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GGBound: A Genome-Grounded Agent for Microbial Life-Boundary Prediction

Hanbo Huang, Jing Wang, Lei Bai, Shiyu Liang, Weishu Zhao, Xiang Xiao, Xuan Gong

A 4B-parameter agent fuses frozen genome embeddings into an LLM and uses a counterfactual reward to match larger models on microbial life-boundary prediction.

arxiv:2605.14442 v1 · 2026-05-14 · cs.CY

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Claims

C1strongest claim

The resulting 4B-parameter agent matches or surpasses substantially larger frontier LLMs, with ablations confirming that genome-token fusion, dynamic tool use, and the counterfactual reward each yield distinct, significant gains.

C2weakest assumption

That the frozen LucaOne genome embeddings provide causally relevant information for physiological trait prediction, as measured by the counterfactual ablation against zero-gene input.

C3one line summary

A genome-conditioned 4B LLM agent predicts microbial life boundaries and matches larger frontier models via token fusion, tool use, and a counterfactual gene-grounding reward.

References

54 extracted · 54 resolved · 7 Pith anchors

[1] Life in extreme environments.Nature, 409(6823): 1092–1101, 2001 2001

[2] The limits for life under multiple extremes.Trends in microbiology, 21(4):204–212, 2013 2013

[3] Living at the extremes: extremophiles and the limits of life in a planetary context.Frontiers in microbiology, 10:447668, 2019 2019

[4] uncultivable 2010

[5] Culturing the human microbiota and culturomics.Nature Reviews Microbiology, 16(9): 540–550, 2018 2018

Receipt and verification

First computed	2026-05-17T23:39:07.005535Z
Builder	pith-number-builder-2026-05-17-v1
Signature	Pith Ed25519 (`pith-v1-2026-05`) · public key
Schema	pith-number/v1.0

Canonical hash

2633b4fa0123c009a8752c76640409411d6eda430848c46a09dcc369112fe41d

Aliases

arxiv: 2605.14442 · arxiv_version: 2605.14442v1 · doi: 10.48550/arxiv.2605.14442 · pith_short_12: EYZ3J6QBEPAA · pith_short_16: EYZ3J6QBEPAATKDV · pith_short_8: EYZ3J6QB

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Verify this Pith Number yourself

curl -sH 'Accept: application/ld+json' https://pith.science/pith/EYZ3J6QBEPAATKDVFR3GIBAJIE \
  | jq -c '.canonical_record' \
  | python3 -c "import sys,json,hashlib; b=json.dumps(json.loads(sys.stdin.read()), sort_keys=True, separators=(',',':'), ensure_ascii=False).encode(); print(hashlib.sha256(b).hexdigest())"
# expect: 2633b4fa0123c009a8752c76640409411d6eda430848c46a09dcc369112fe41d

Canonical record JSON

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    "abstract_canon_sha256": "c292b84c990268a754c46025ded6cb5ed92633e64254fadcd46ccb8f0f771312",
    "cross_cats_sorted": [],
    "license": "http://creativecommons.org/licenses/by-nc-nd/4.0/",
    "primary_cat": "cs.CY",
    "submitted_at": "2026-05-14T06:37:55Z",
    "title_canon_sha256": "4659f126ca881430f8bb343cb3fc2bc10e51f67de9364f4c40c9461e089c79d9"
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    "kind": "arxiv",
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