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Nanoparticle microarray for high-throughput microbiome metabolomics using matrix-assisted laser desorption ionization mass spectrometry

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Abstract

A high-throughput matrix-assisted laser desorption/ionization mass spectrometry (MALDI)-MS-based metabolomics platform was developed using a pre-fabricated microarray of nanoparticles and organic matrices. Selected organic matrices, inorganic nanoparticle (NP) suspensions, and sputter coated metal NPs, as well as various additives, were tested for metabolomics analysis of the turkey gut microbiome. Four NPs and one organic matrix were selected as the optimal matrix set: α-cyano-4-hydroycinnamic acid, Fe3O4 and Au NPs in positive ion mode with 10 mM sodium acetate, and Cu and Ag NPs in negative ion mode with no additive. Using this set of five matrices, over two thousand unique metabolite features were reproducibly detected across intestinal samples from turkeys fed a diet amended with therapeutic or sub-therapeutic antibiotics (200 g/ton or 50 g/ton bacitracin methylene disalicylate (BMD), respectively), or non-amended feed. Among the thousands of unique features, 56 of them were chemically identified using MALDI-MS/MS, with the help of in-parallel liquid chromatography (LC)-MS/MS analysis. Lastly, as a proof of concept application, this protocol was applied to 52 turkey cecal samples at three different time points from the antibiotic feed trial. Statistical analysis indicated variations in the metabolome of turkeys with different ages or treatments.

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Funding

This work was funded by the United States Department of Agriculture-National Institute of Food and Agriculture (USDA-NIFA).

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Author notes

  1. Rebecca L. Hansen and Maria Emilia Dueñas contributed equally to this work.

Authors and Affiliations

  1. Department of Chemistry, Iowa State University, Ames, IA, 50011, USA

    Rebecca L. Hansen, Maria Emilia Dueñas & Young Jin Lee

  2. United States Department of Agriculture, National Animal Disease Center, Ames, IA, 50010, USA

    Torey Looft

Authors
  1. Rebecca L. Hansen
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  2. Maria Emilia Dueñas
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  4. Young Jin Lee
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Corresponding author

Correspondence to Young Jin Lee.

Ethics declarations

All animal experiments were performed at the National Animal Disease Center (NADC), USDA, Ames, IA, USA, following the ethical guidelines set by the Institutional Animal Care and Use Committee (IACUC) using the approved protocol ARS-2869.

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The authors declare that they have no conflict of interest.

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Hansen, R.L., Dueñas, M.E., Looft, T. et al. Nanoparticle microarray for high-throughput microbiome metabolomics using matrix-assisted laser desorption ionization mass spectrometry. Anal Bioanal Chem 411, 147–156 (2019). https://doi.org/10.1007/s00216-018-1436-5

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  • DOI: https://doi.org/10.1007/s00216-018-1436-5

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