AI agents call list_organisms to retrieve information from Oh My KEGG MCP without modifying anything — typically the context-gathering step in research, monitoring, and reporting workflows, before the agent takes action elsewhere.
This tool performs a straightforward data retrieval operation from the KEGG database. It lists organisms with their codes and names, which is a read-only query with no side effects, no code execution, and no data modification. The blast radius of misuse is minimal—an AI agent could only retrieve publicly available organism metadata. This clearly falls under the Read category with low severity.
From the tool's definition Tool name 'list_organisms' and description 'Get all KEGG organisms with codes and names' indicate a retrieval operation that queries the KEGG database for organism information without modifying, executing, or deleting any data.
Documented attack patterns abuse exactly the kind of access list_organisms gives an agent:
PolicyLayer is an MCP gateway — it sits between your AI agents and Oh My KEGG MCP, and nothing reaches the server without passing your rules. This is the rule we recommend for list_organisms:
{
"version": "1",
"default": "deny",
"tools": {
"list_organisms": {}
}
}list_organisms is read-only, so it stays allowed — but everything else on the server is denied unless you say otherwise.
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Get all KEGG organisms with codes and names. It is categorised as a Read tool in the Oh My KEGG MCP MCP Server, which means it retrieves data without modifying state.
Register the Oh My KEGG MCP server in PolicyLayer and add a rule for list_organisms: allow, deny, rate-limit, or require approval. Point your MCP client at the PolicyLayer proxy URL and the rule is enforced on every call, before it reaches Oh My KEGG MCP. Nothing to install.
list_organisms is a Read tool with low risk. Read-only tools are generally safe to allow by default.
Yes. Add a rate_limit block to the list_organisms rule in your PolicyLayer policy. For example, setting max: 10 and window: 60 limits the tool to 10 calls per minute. Rate limits are tracked per agent session and reset automatically.
Set action: deny in the PolicyLayer policy for list_organisms. The AI agent will receive a policy violation error and cannot call the tool. You can also include a reason field to explain why the tool is blocked.
list_organisms is provided by the Oh My KEGG MCP server (martinuslee/oh-my-kegg-mcp). PolicyLayer sits as a proxy in front of this server to enforce policies before tool calls reach the server.
Start from Oh My KEGG MCP, add the rest of your stack, and see everything your agents can call. Then put policy on all of it.
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33 Oh My KEGG MCP tools catalogued and risk-classified — across an index of 43,000+ MCP servers.