Temporal and spatial dynamics within the fungal microbiome of grape fermentation

IF 4.3 2区 生物学 Q2 MICROBIOLOGY
Cristobal A. Onetto, Chris M. Ward, Steven Van Den Heuvel, Laura Hale, Kathleen Cuijvers, Anthony R. Borneman
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Abstract

Over 6 years, we conducted an extensive survey of spontaneous grape fermentations, examining 3105 fungal microbiomes across 14 distinct grape-growing regions. Our investigation into the biodiversity of these fermentations revealed that a small number of highly abundant genera form the core of the initial grape juice microbiome. Consistent with previous studies, we found that the region of origin had the most significant impact on microbial diversity patterns. We also discovered that certain taxa were consistently associated with specific geographical locations and grape varieties, although these taxa represented only a minor portion of the overall diversity in our dataset. Through unsupervised clustering and dimensionality reduction analysis, we identified three unique community types, each exhibiting variations in the abundance of key genera. When we projected these genera onto global branches, it suggested that microbiomes transition between these three broad community types. We further investigated the microbial community composition throughout the fermentation process. Our observations indicated that the initial microbial community composition could predict the diversity during the early stages of fermentation. Notably, Hanseniaspora uvarum emerged as the primary non-Saccharomyces species within this large collection of samples.

Abstract Image

Abstract Image

葡萄发酵过程中真菌微生物群的时空动态变化
在 6 年时间里,我们对自发葡萄发酵进行了广泛调查,研究了 14 个不同葡萄种植地区的 3105 个真菌微生物组。我们对这些发酵的生物多样性进行的调查显示,少数高度丰富的菌属构成了最初葡萄汁微生物组的核心。与之前的研究一致,我们发现原产地对微生物多样性模式的影响最大。我们还发现,某些类群始终与特定的地理位置和葡萄品种相关联,尽管这些类群在我们的数据集中只占总体多样性的一小部分。通过无监督聚类和降维分析,我们确定了三种独特的群落类型,每种类型都表现出关键菌属丰度的变化。当我们将这些菌属投影到全球分支上时,发现微生物群落在这三种广泛的群落类型之间过渡。我们进一步研究了整个发酵过程中的微生物群落组成。我们的观察结果表明,最初的微生物群落组成可以预测发酵早期阶段的多样性。值得注意的是,Hanseniaspora uvarum 是大量样本中最主要的非酵母菌物种。
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来源期刊
Environmental microbiology
Environmental microbiology 环境科学-微生物学
CiteScore
9.90
自引率
3.90%
发文量
427
审稿时长
2.3 months
期刊介绍: Environmental Microbiology provides a high profile vehicle for publication of the most innovative, original and rigorous research in the field. The scope of the Journal encompasses the diversity of current research on microbial processes in the environment, microbial communities, interactions and evolution and includes, but is not limited to, the following: the structure, activities and communal behaviour of microbial communities microbial community genetics and evolutionary processes microbial symbioses, microbial interactions and interactions with plants, animals and abiotic factors microbes in the tree of life, microbial diversification and evolution population biology and clonal structure microbial metabolic and structural diversity microbial physiology, growth and survival microbes and surfaces, adhesion and biofouling responses to environmental signals and stress factors modelling and theory development pollution microbiology extremophiles and life in extreme and unusual little-explored habitats element cycles and biogeochemical processes, primary and secondary production microbes in a changing world, microbially-influenced global changes evolution and diversity of archaeal and bacterial viruses new technological developments in microbial ecology and evolution, in particular for the study of activities of microbial communities, non-culturable microorganisms and emerging pathogens
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