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Exploring the protist microbiome: The diversity of bacterial communities associated with Arcella spp. (Tubulina: Amoebozoa)

Gomaa, Fatma and Utter, Daniel R. and Loo, Wesley and Lahr, Daniel J. G. and Cavanaugh, Colleen M. (2022) Exploring the protist microbiome: The diversity of bacterial communities associated with Arcella spp. (Tubulina: Amoebozoa). European Journal of Protistology, 82 . Art. No. 125861. ISSN 0932-4739. doi:10.1016/j.ejop.2021.125861.

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Research on protist-bacteria interactions is increasingly relevant as these associations are now known to play important roles in ecosystem and human health. Free-living amoebae are abundant in all environments and are frequent hosts for bacterial endosymbionts including pathogenic bacteria. However, to date, only a small fraction of these symbionts have been identified, while the structure and composition of the total symbiotic bacterial communities still remains largely unknown. Here, we use the testate amoeba Arcella spp. as model organisms to investigate the specificity and diversity of Arcella-associated microbial communities. High-throughput amplicon sequencing from the V4 region of the 16S rRNA gene revealed high diversity in the bacterial communities associated with the wild Arcella spp. To investigate the specificity of the associated bacterial community with greater precision, we investigated the bacterial communities of two lab-cultured Arcella species, A. hemispherica and A. intermedia, grown in two different media types. Our results suggest that Arcella-bacteria associations are species-specific, and that the associated bacterial community of lab-cultured Arcella spp. remains distinct from that of the surrounding media. Further, each host Arcella species could be distinguished based on its bacterial composition. Our findings provide insight into the understanding of eukaryotic-bacterial symbiosis.

Item Type:Article
Related URLs:
URLURL TypeDescription data 1 data 2
Gomaa, Fatma0000-0001-5697-7118
Utter, Daniel R.0000-0003-3322-7108
Loo, Wesley0000-0002-8281-8599
Lahr, Daniel J. G.0000-0002-1049-0635
Cavanaugh, Colleen M.0000-0002-1114-9084
Additional Information:© 2021 The Author(s). Published by Elsevier. Under a Creative Commons license - Attribution 4.0 International (CC BY 4.0) Received 15 April 2021, Revised 8 November 2021, Accepted 18 December 2021, Available online 29 December 2021, Version of Record 17 January 2022. This project was funded by National Science Foundation Postdoctoral Research Fellowship in Biology to F. Gomaa, Grant Number: PRFB1611514. Support was provided to D.R.U. from the National Science Foundation Graduate Research Fellowship Program under Grant No. DGE1745303 to D.R.U and by Harvard University’s Department of Organismic and Evolutionary Biology program. Contributions. F.G and C.M.C. conceived of the study. F.G collected and cultured the samples. F.G. performed experiment. D.R.U. and F. G. analyzed the 16S rRNA gene sequences data. F.G. composed manuscript. All authors gave feedback on the manuscript. Data availability. All raw sequence data generated during this study and the metadata are available under BioProject accession number PRJNA747988. The raw MiSeq reads are deposited in the NCBI SRA under accession number SRX11726850-SRX11726863. The authors declare no competing interests.
Funding AgencyGrant Number
NSF Postdoctoral FellowshipDBI-1611514
NSF Graduate Research FellowshipDGE-1745303
Harvard UniversityUNSPECIFIED
Subject Keywords:Arcella- associated microbiome; Intracellular bacterial diversity; Heterotrophic amoebae; Amoeba-resistant bacteria
Record Number:CaltechAUTHORS:20220513-557993000
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Official Citation:Fatma Gomaa, Daniel R. Utter, Wesley Loo, Daniel J.G. Lahr, Colleen M. Cavanaugh, Exploring the protist microbiome: The diversity of bacterial communities associated with Arcella spp. (Tubulina: Amoebozoa), European Journal of Protistology, Volume 82, 2022, 125861, ISSN 0932-4739,
Usage Policy:No commercial reproduction, distribution, display or performance rights in this work are provided.
ID Code:114752
Deposited By: George Porter
Deposited On:13 May 2022 22:14
Last Modified:13 May 2022 22:14

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