Center for Marine Biotechnology and Biomedicine, Scripps Institution of Oceanography, University of California San Diego, La Jolla, CA, USA.
Center for Microbiome Innovation, University of California San Diego, La Jolla, CA, USA.
Environ Microbiol. 2021 Nov;23(11):6859-6875. doi: 10.1111/1462-2920.15798. Epub 2021 Oct 11.
The microbial communities associated with marine sediments are critical for ecosystem function yet remain poorly characterized. While culture-independent (CI) techniques capture the broadest perspective on community composition, culture-dependent (CD) methods can select for low abundance taxa that are missed using CI approaches. This study aimed to assess microbial diversity in tropical marine sediments at five shallow-water sites in Belize using both CD and CI techniques. The CD methods captured approximately 3% of the >800 genera detected across all sites using the CI approach. Additionally, 39 genera were only detected in culture, revealing rare taxa that were missed with the CI approach. Significantly different communities were detected across sites, with rare taxa playing an important role in distinguishing among communities. This study provides important baseline data describing shallow-water sediment microbial communities, evidence that standard cultivation techniques may be more effective than previously recognized, and the first steps towards identifying new taxa that are amenable to agar plate cultivation.
与海洋沉积物相关的微生物群落对于生态系统功能至关重要，但仍未得到充分描述。虽然非培养（CI）技术可以捕捉群落组成的最广泛视角，但培养依赖（CD）方法可以选择使用 CI 方法错过的低丰度分类群。本研究旨在使用 CD 和 CI 技术评估伯利兹五个浅水区海洋沉积物中的微生物多样性。CD 方法捕获了使用 CI 方法在所有地点检测到的 >800 个属中的约 3%。此外，仅在培养中检测到 39 个属，揭示了 CI 方法错过的稀有分类群。在各个地点检测到明显不同的群落，稀有分类群在区分群落方面起着重要作用。本研究提供了描述浅水区沉积物微生物群落的重要基线数据，证明标准培养技术可能比以前认识到的更有效，并朝着鉴定可在琼脂平板上培养的新分类群迈出了第一步。
