Using network component analysis to study axenisation strategies for phototrophic eukaryotic microalgae

bioRxiv (Cold Spring Harbor Laboratory)

Abstract

Abstract Background The axenisation of phototrophic eukaryotic microalgae has been studied for over a century, with antibiotics commonly employed to achieve axenic cultures. However, this approach often yields inconsistent outcomes and may contribute to the emergence of antibiotic-resistant microbes. A comprehensive review of microalgal species and the methods used to achieve axeny could provide insights into potentially effective workflows and identify gaps for future exploration. Methods Scholarly databases were systematically searched, supplemented by citation network analysis and AI-assisted tools, to collect studies on achieving axenic phototrophic eukaryotic microalgae cultures. Data about microalgal species, axenisation workflows, outcomes, and related factors (e.g., sampling locations, axenisation confirmation methods) were summarised. Network component analysis was used to identify clusters of commonly reported methods for diatoms, dinoflagellates, and green algae. A scoring framework was developed to assess the quality and reliability of evidence presented in the studies. Results Promising workflows circumventing the use of antibiotics appear to be filtration ↔ washing ↔ micropicking for diatoms, micropicking ↔ subculturing ↔ flow cytometry for dinoflagellates, and anoxy ↔ photosensitisation ↔ streak plating for green algae. Evidence from the literature indicates that a combination of microscopy (e.g., epifluorescence), cell counting (e.g., agar plating), and sequencing (16S and/or 18S) could enhance confidence in confirming axeny. Conclusion More systematic and high quality primary research is required to identify effective workflows for other microalgal divisions and fortify / contradict the ones proposed herein based on network component analysis.

Authors 4

1. Ajay Balu Iyer corresponding

   University College Dublin

   Affiliation as printed

   Conway Institute of Biomolecular Research, University College Dublin, Belfield, Ireland

   University College Dublin, School of Biosystems and Food Engineering, Belfield, Ireland

2. Matthias Monissen Aachen

   RWTH Aachen University

   Affiliation as printed

   RWTH Aachen University, Templergraben 55, 52056 Aachen, Germany

3. Oskar Modin

   Chalmers University of Technology

   Affiliation as printed

   Architecture and Civil Engineering, Chalmers University of Technology, Gothenburg, Sweden

4. Ronald Halim

   University College Dublin

   Affiliation as printed

   Conway Institute of Biomolecular Research, University College Dublin, Belfield, Ireland

   University College Dublin, School of Biosystems and Food Engineering, Belfield, Ireland