A clearer picture of microbial biogeography

Kushwah, Manish S.; Thorpe, Stephen

doi:10.1038/s41579-020-0373-4

Cited by 2 publications

(2 citation statements)

References 2 publications

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“…The invention of the microscope by Anton van Leeuwenhoek in the early 1660s enabled the visualization of a hidden living world. The more recent development of mass spectrometry imaging (MSI) has enabled the spatial mapping of microbial molecules. − Different imaging modalities have been used, including matrix-assisted laser desorption ionization (MALDI) and desorption electrospray (DESI). , However, unlike microscopy, which can directly interrogate a sample and facilitate rapid characterization, the current workflow for MSI is time- and labor-intensive.…”

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confidence: 99%

Hyperspectral Visualization-Based Mass Spectrometry Imaging by LMJ-SSP: A Novel Strategy for Rapid Natural Product Profiling in Bacteria

Hermann

Smith

et al. 2023

Anal. Chem.

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Mass spectrometry imaging (MSI) has been widely used to discover natural products (NPs) from underexplored microbiological sources. However, the technique is limited by incompatibility with complicated/uneven surface topography and labor-intensive sample preparation, as well as lengthy compound profiling procedures. Here, liquid micro-junction surface sampling probe (LMJ-SSP)-based MSI is used for rapid profiling of natural products from Gram-negative marine bacteria Pseudoalteromonas on nutrient agar media without any sample preparation. A conductance-based autosampling platform with 1 mm spatial resolution and an innovative multivariant analysis-driven method was used to create one hyperspectral image for the sampling area. NP discovery requires general spatial correlation between m/z and colony location but not highly precise spatial resolution. The hyperspectral image was used to annotate different m/z by straightforward color differences without the need to directly interrogate the spectra. To demonstrate the utility of our approach, the rapid analysis of Pseudoalteromonas rubra DSM6842, Pseudoalteromonas tunicata DSM14096, Pseudoalteromonas piscicida JCM20779, and Pseudoalteromonas elyakovii ATCC700519 cultures was directly performed on Agar. Various natural products, including prodiginine and tambjamine analogues, were quickly identified from the hyperspectral image, and the dynamic extracellular environment was shown with compound heatmaps. Hyperspectral visualization-based MSI is an efficient and sensitive strategy for direct and rapid natural product profiling from different Pseudoalteromonas strains.

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confidence: 99%

Hyperspectral Visualization-Based Mass Spectrometry Imaging by LMJ-SSP: A Novel Strategy for Rapid Natural Product Profiling in Bacteria

Hermann

Smith

et al. 2023

Anal. Chem.

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“…However, although some biogeographic patterns of certain microbial groups in different regions are already known (Foissner 2006, Martiny et al 2006, Azovsky & Mazei 2013, Kushwah & Thorpe 2020, Li et al 2020, microbial ecology is still in its infancy and generalizations cannot be made. This knowledge gap is worrisome since micro-organisms are the richest and more abundant component in any environment (Mora et al 2011), which play a pivotal role in the maintenance of ecosystems (e.g.…”

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confidence: 99%

Metabarcoding Advances for Ecology and Biogeography of Neotropical Protists: What Do We Know, Where Do We Go?

Ritter¹,

Machado²,

Ribeiro³

et al. 2020

Preprint

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The Neotropical region is one of the most diverse regions of the globe in terms of macro-organismic species. Regarding the microbial world, however, little is known about the diversity and biogeography patterns of micro-organisms in the Neotropics. In this context, the study of several microbial taxonomic groups is still missing and/or incomplete, such as the protists. Our goal here was to summarize the available information of Neotropical protists, focusing on molecular data from environmental continental samples, to explore what these data evidence on their ecology and biogeography. For this, we reviewed the findings from all articles that focused on or included the terrestrial protists using metabarcoding approach and identified the gaps and future perspectives in this research field. We found that Neotropical protists diversity patterns seem to be, at least in part, congruent with that of macro-organisms and, different than plants and bacteria, just weakly explained by environmental variables. We argue that studies with standardized protocols including different biomes are necessary to fully characterize the ecology and biogeography on Neotropical protists. Furthermore, dismember evolutionary lineages and functional guilds of protists are important to better understand the relationship between diversity, dispersal abilities and functionality of particular taxa of protists in their habitats.

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A clearer picture of microbial biogeography

Cited by 2 publications

References 2 publications

Hyperspectral Visualization-Based Mass Spectrometry Imaging by LMJ-SSP: A Novel Strategy for Rapid Natural Product Profiling in Bacteria

Hyperspectral Visualization-Based Mass Spectrometry Imaging by LMJ-SSP: A Novel Strategy for Rapid Natural Product Profiling in Bacteria

Metabarcoding Advances for Ecology and Biogeography of Neotropical Protists: What Do We Know, Where Do We Go?

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