Add PMI Variovorax thermotolerance collection (closes #18)

[cmungall]

Summary

• Add new community YAML kb/communities/PMI_Variovorax_Thermotolerance_Collection.yaml for a 25-strain Variovorax collection from Populus roots screened for Arabidopsis thermotolerance (PMID:37386471, Lee et al. 2023)
• Six strains (CF313, YR634, GV004, GV035, YR752, OV084) significantly enhance plant heat tolerance at 45C; CF313 selected for detailed follow-up
• Includes ecological interaction (bacterially-mediated thermotolerance), engineering design details, environmental factors, and external resources with secondary ref PMID:34135464

Test plan

• just validate kb/communities/PMI_Variovorax_Thermotolerance_Collection.yaml passes with no issues

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[Copilot]

Pull request overview

This PR adds a new community YAML file for a PMI (Plant-Microbe Interfaces) Variovorax thermotolerance screening collection based on Lee et al. 2023 (PMID:37386471). The file describes a 25-strain Variovorax panel from Populus roots that was screened for bacterial effects on Arabidopsis thermotolerance, with six strains showing significant enhancement of plant heat tolerance at 45°C.

Changes:

• New community YAML file PMI_Variovorax_Thermotolerance_Collection.yaml with taxonomy entries for 6 significant thermotolerance-enhancing strains, an ecological interaction (bacterially-mediated thermotolerance), environmental factors, and two external resource references (primary and secondary publications).
• Includes properly structured schema-conformant entries with evidence items linking claims to PMID:37386471.

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[Copilot]

The description says this is "A 25-strain Variovorax collection" and the name says "PMI Variovorax Thermotolerance Collection", but the taxonomy section only lists the 6 strains that showed significant thermotolerance. This creates an inconsistency — the file describes a 25-strain collection but only enumerates 6 members. Consider either: (1) listing all 25 strains in the taxonomy (even without individual evidence for the non-significant ones), or (2) updating the description and name to clarify this represents only the 6 thermotolerance-positive subset, e.g. "A 6-strain Variovorax subset from a 25-strain Populus root screen…".

Suggested change

	name: PMI Variovorax Thermotolerance Collection
	description: >-
	A 25-strain Variovorax collection from Populus roots, screened for bacterial effects
	on Arabidopsis thaliana thermotolerance using a rapid hydroponic assay. Six strains
	(CF313, YR634, GV004, GV035, YR752, OV084) significantly improve plant heat tolerance
	at 45C. CF313 was selected for detailed follow-up study. The thermal benefit requires
	direct contact with living bacteria; heat-killed bacteria and culture supernatants
	provide no protection.
	name: PMI Variovorax Thermotolerance-Positive Subset
	description: >-
	A 6-strain Variovorax subset from a 25-strain Populus root collection, screened for
	bacterial effects on Arabidopsis thaliana thermotolerance using a rapid hydroponic
	assay. Six strains (CF313, YR634, GV004, GV035, YR752, OV084) significantly improve
	plant heat tolerance at 45C. CF313 was selected for detailed follow-up study. The
	thermal benefit requires direct contact with living bacteria; heat-killed bacteria
	and culture supernatants provide no protection.

[Copilot]

The evidence snippet for the heat shock temperature environmental factor ("method was used to screen 25 strains of the plant growth promoting Variovorax spp. for enhanced plant thermotolerance") is a generic statement about thermotolerance screening. It does not mention the specific temperature (45°C), duration (14 minutes), or recovery conditions (4-day recovery at 22°C) claimed in the description and value fields. Per the project convention ("Evidence on everything" — CLAUDE.md line 48), snippets should directly support the specific claims. Consider finding a snippet from the paper that mentions the actual heat shock parameters.

Suggested change

	method was used to screen 25 strains of the plant growth promoting Variovorax
	spp. for enhanced plant thermotolerance
	explanation: The assay screens for thermotolerance under controlled heat shock conditions.
	Seedlings were subjected to a heat shock at 45 °C for 14 min and then returned
	to 22 °C for 4 d of recovery before thermotolerance was scored.
	explanation: Directly documents the heat shock temperature, duration, and recovery conditions used in the assay.