The endohyphal microbiome: current progress and challenges for scaling down integrative multi-omic microbiome research.

Autor: Kelliher JM; Los Alamos National Laboratory, Los Alamos, NM, USA. jkelliher@lanl.gov., Robinson AJ; Los Alamos National Laboratory, Los Alamos, NM, USA., Longley R; Los Alamos National Laboratory, Los Alamos, NM, USA., Johnson LYD; Los Alamos National Laboratory, Los Alamos, NM, USA., Hanson BT; Los Alamos National Laboratory, Los Alamos, NM, USA., Morales DP; Los Alamos National Laboratory, Los Alamos, NM, USA., Cailleau G; University of Neuchâtel, Neuchâtel, Switzerland., Junier P; University of Neuchâtel, Neuchâtel, Switzerland., Bonito G; Michigan State University, East Lansing, MI, USA., Chain PSG; Los Alamos National Laboratory, Los Alamos, NM, USA. pchain@lanl.gov.
Jazyk: angličtina
Zdroj: Microbiome [Microbiome] 2023 Aug 26; Vol. 11 (1), pp. 192. Date of Electronic Publication: 2023 Aug 26.
DOI: 10.1186/s40168-023-01634-7
Abstrakt: As microbiome research has progressed, it has become clear that most, if not all, eukaryotic organisms are hosts to microbiomes composed of prokaryotes, other eukaryotes, and viruses. Fungi have only recently been considered holobionts with their own microbiomes, as filamentous fungi have been found to harbor bacteria (including cyanobacteria), mycoviruses, other fungi, and whole algal cells within their hyphae. Constituents of this complex endohyphal microbiome have been interrogated using multi-omic approaches. However, a lack of tools, techniques, and standardization for integrative multi-omics for small-scale microbiomes (e.g., intracellular microbiomes) has limited progress towards investigating and understanding the total diversity of the endohyphal microbiome and its functional impacts on fungal hosts. Understanding microbiome impacts on fungal hosts will advance explorations of how "microbiomes within microbiomes" affect broader microbial community dynamics and ecological functions. Progress to date as well as ongoing challenges of performing integrative multi-omics on the endohyphal microbiome is discussed herein. Addressing the challenges associated with the sample extraction, sample preparation, multi-omic data generation, and multi-omic data analysis and integration will help advance current knowledge of the endohyphal microbiome and provide a road map for shrinking microbiome investigations to smaller scales. Video Abstract.
(© 2023. BioMed Central Ltd., part of Springer Nature.)
Databáze: MEDLINE
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