Modified Bacterium Oxalate Degradation Gut Adaptation

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Solution Overview

Problem

Current treatments for hyperoxaluria, which leads to conditions like kidney stones and End Stage Renal Disease, are inadequate as exogenous microbes introduced to the gut often fail to exhibit therapeutic metabolic pathways due to maladaptation to the gut environment.

Innovation Solution

Development of modified bacteria with specific mutations in genes such as eutE, eutN, adhE, and others, enabling them to degrade oxalate, which are administered to subjects to reduce oxalate levels and treat hyperoxaluria and related disorders.

Engineering Contradictions & Design Principles

VSEngineering Contradiction Analysis

1Reliability

If exogenous microbes with therapeutic metabolic pathways are introduced to the gut, then oxalate degradation capability is improved, but the microbes fail to remain metabolically active due to maladaptation to the gut environment

Engineering Contradiction:
Improveoxalate degradation capabilityVSAvoidadaptation to gut environment
Core Design Contradiction:
ReliabilityVSAdaptability or versatility

Solution Approach 1:

The patent applies preliminary action by pre-adapting the E. coli Nissle 1917 bacterium to the gut environment through sequential passage in germ-free mice before introducing it to treat hyperoxaluria. This pre-adaptation ensures the bacterium maintains metabolic activity and oxalate degradation capability in the gut environment, resolving the contradiction between introducing therapeutic microbes and ensuring their survival and functionality.

Inventive Principle:
Principle #10Preliminary action

2Productivity

If modified bacteria with specific mutations are used to enhance oxalate degradation, then oxalate degradation efficiency is improved, but the complexity of bacterial strain development increases

Engineering Contradiction:
Improveoxalate degradation efficiencyVSAvoidbacterial strain development complexity
Core Design Contradiction:
ProductivityVSDevice complexity

Solution Approach 1:

The patent employs self-service by utilizing the bacterium's endogenous adhE gene and its natural ability to perform adaptive mutations in response to oxalate exposure. Rather than introducing complex exogenous pathways or multiple engineered components, the system allows the bacterium to self-modify and activate oxalate degradation capabilities through spontaneous mutations and selection pressure, thereby achieving high degradation efficiency without proportionally increasing developmental complexity.

Inventive Principle:
Principle #25Self-service

3Device complexity

If wild-type bacteria are used, then the bacterial strain is simple and well-characterized, but they cannot degrade oxalate

Engineering Contradiction:
Improvebacterial strain simplicityVSAvoidoxalate degradation function
Core Design Contradiction:
Device complexityVSReliability

Solution Approach 1:

The patent applies parameter changes by inducing specific mutations in the adhE gene under controlled conditions (sequential passage in germ-free mice, exposure to oxalate). These parameter changes in the bacterial genome enable the well-characterized E. coli Nissle 1917 strain to acquire oxalate degradation capability while maintaining its identity as a known and safe probiotic strain, thus resolving the contradiction between strain simplicity and functional capability.

Inventive Principle:
Principle #35Parameter changes

Applied Scientific Principles

This section explains which scientific principles are used to turn an abstract innovation direction into a practical engineering solution.

Function Achieved in This Case

The modified bacteria effectively degrade oxalate, providing a promising therapeutic approach for hyperoxaluria and related conditions by utilizing oxalate as a sole source of carbon and energy, thereby reducing oxalate levels and mitigating associated health issues.

Implementation Method 1

the modified bacterium can degrade oxalate and the corresponding wild-type bacterium cannot degrade oxalate

Methodology Applied
Scientific EffectEnzymatic degradation: Enzyme

Implementation Method 2

utilizing oxalate as a sole source of carbon and energy

Methodology Applied
Scientific EffectMetabolism: Fermentation

Data Source

PatentUS20240043791A1Modified bacterium for oxalate degradation and uses thereof
Publication Date: 2024.02.08 MASSACHUSETTS INST OF TECH
  • US20240043791A1 patent drawing
  • US20240043791A1 patent drawing
  • US20240043791A1 patent drawing

AI summary

Modified bacterium capable of degrading oxalate, mutant proteins that facilitate oxalate degradation, and methods for their use are disclosed.