基于微生物组的分类模型用于新鲜产品的安全性和质量评估.
Chao Liao1, Luxin Wang1, Gerald Quon2
1Department of Food Science and Technology, University of California Davis, Davis, California, USA.
Microbiology spectrum
|March 6, 2024
概括
使用k-mer哈希分析的机器学习提高了产品安全性和质量分类,优于片序列变体 (ASV). 基于ASV的分类学在食品微生物组研究中更有效地识别关键细菌指标.
科学领域:
- 微生物组的分析
- 生物信息学是一种生物信息学.
- 食品安全和食品质量
背景情况:
- 微生物组研究中的有限统计能力,由于样本规模较小和读取损失,阻碍了产品安全 (PS) 和质量 (PQ) 指标的识别.
- 现有的安普利康序列变异 (ASV) 方法在有效区分产品表型方面面临挑战.
研究的目的:
- 探索基于机器学习的k-mer哈希分析策略,用于识别可预测PS和PQ的DNA签名.
- 为了比较k-mer哈希分析的性能与ASV策略对产品安全和质量进行分类.
主要方法:
- 应用机器学习模型,特别是随机森林 (RF),使用k-mer哈希和ASV数据集.
- 集成的个人和多个数据集用于分类.
- 开发基于RF的模型,使用特征选择的基于ASV的分类学数据集进行比较.
主要成果:
- 使用7mer哈希数据集的随机森林分类器显示,与ASV数据集相比,PS和PQ的分类准确性显著更高.
- 集成的k-mer哈希策略提高了分类性能,但被PS分类的特征选择ASV分类法所超越.
- 射频特征选择确定了480 PS和263 PQ指标.
结论:
- k-mer哈希策略为微生物组数据分析提供了一种强大的方法,用于食品安全和质量.
- 基于ASV的分类学仍然有效地对PS和PQ进行分类,并识别关键类型,尽管计算资源有限.
- 这项研究为使用机器学习对微生物安全和质量应用进行微生物组测序数据集比较提供了基础.
更多相关视频
相关概念视频
Microorganisms in Agriculture and Food industry
Microorganisms play a crucial role in agriculture and the food industry, contributing to soil fertility, crop protection, and food production. Their functions range from nitrogen fixation and biopesticide production to fermentation and food preservation, making them indispensable to sustainable farming and food safety.Role in AgricultureNitrogen-fixing bacteria, such as Rhizobium (symbiotic) and Azotobacter (free-living), convert atmospheric nitrogen into ammonia through biological nitrogen...
Methods to Assess Microbial Communities
Microbial communities, comprising bacteria, archaea, and eukaryotic microorganisms, inhabit diverse ecosystems and play crucial roles in environmental and biological processes. Their diversity is defined by three main parameters: species richness (the number of distinct species), species abundance (the relative quantity of each species), and species evenness (how uniformly individual species are distributed in various locations). These factors together shape the structure and ecological balance...
Microbes in Food Production
Microbial fermentation is central to food biotechnology, enhancing flavor, texture, preservation, and stability. Fermentative microorganisms metabolize carbohydrates into organic acids, alcohols, and other metabolites that inhibit spoilage organisms and improve digestibility while contributing distinctive sensory qualities.In baking, amylases naturally present in flour hydrolyze starch into monosaccharides such as glucose, which Saccharomyces cerevisiae ferments anaerobically. Through...
Microbes in Beverage Production
Alcoholic beverages such as wine, beer, and spirits are the products of microbial fermentation processes that transform simple sugars into ethanol and a wide array of complex flavor compounds. These transformations rely on the metabolic activities of specific yeasts and bacteria, which are selected and controlled to yield the desired beverage characteristics.Wine Fermentation and MaturationWine production begins with the crushing of grapes to release juice and pulp, forming a must that is...
Microbes in the Production of Fermented Foods
Lactic acid bacteria (LAB) and molds are instrumental in fermenting plant-based foods to enhance preservation and ensure year-round availability. These microbial processes convert plant carbohydrates into organic acids and other metabolites that inhibit spoilage organisms and contribute to the sensory qualities of the final product.In sauerkraut production, cabbage goes through a microbial succession that starts with cocci such as Leuconostoc mesenteroides. These microbes begin fermentation by...
Sources of Food Contamination
Contamination of food by microbial agents and natural toxins poses significant risks to public health. These hazards can be introduced at various points across the food supply chain, ranging from environmental sources to processing and storage stages. Understanding these contamination pathways is critical for developing strategies to ensure food safety.Seafood is particularly vulnerable to contamination through both environmental exposure and microbial colonization. Toxins from harmful algal...


