What is holding back cyanobacterial research and applications? A survey of the cyanobacterial research community.
Journal
Nature communications
ISSN: 2041-1723
Titre abrégé: Nat Commun
Pays: England
ID NLM: 101528555
Informations de publication
Date de publication:
08 Aug 2024
08 Aug 2024
Historique:
received:
12
07
2023
accepted:
22
07
2024
medline:
9
8
2024
pubmed:
9
8
2024
entrez:
8
8
2024
Statut:
epublish
Résumé
Cyanobacteria are a diverse group of prokaryotic organisms that have been the subject of intense basic research, resulting in a wealth of knowledge about fundamental cellular processes such as photosynthesis. However, the translation of that research towards industry-relevant applications is still limited. To understand the reasons for this contradictory situation, we conducted a quantitative survey among researchers in the cyanobacterial community, a set of individual interviews with established researchers, and a literature analysis. Our results show that the community seems to be committed to embracing cyanobacterial diversity and promoting collaboration. Additionally, participants expressed a strong desire to develop standardized protocols for research and establish larger consortia to accelerate progress. The results of the survey highlight the need for a more integrated approach to cyanobacterial research that encompasses both basic and applied aspects. Based on the survey and interview results as well as our literature analysis, we highlight areas for potential improvement, strategies to enhance cyanobacterial research, and open questions that demand further exploration. Addressing these challenges should accelerate the development of industrial applications based on cyanobacterial research.
Identifiants
pubmed: 39117643
doi: 10.1038/s41467-024-50828-6
pii: 10.1038/s41467-024-50828-6
doi:
Types de publication
Journal Article
Langues
eng
Sous-ensembles de citation
IM
Pagination
6758Informations de copyright
© 2024. The Author(s).
Références
Moore, L. R. et al. Cyanocyc cyanobacterial web portal. Front. Microbiol. 15, 1340413 (2024).
Huang, Q., Jiang, F., Wang, L. & Yang, C. Design of photobioreactors for mass cultivation of photosynthetic organisms. Engineering 3, 318–329 (2017).
doi: 10.1016/J.ENG.2017.03.020
Heining, M., Sutor, A., Stute, S. C., Lindenberger, C. P. & Buchholz, R. Internal illumination of photobioreactors via wireless light emitters: a proof of concept. J. Appl. Phycol. 27, 59–66 (2015).
doi: 10.1007/s10811-014-0290-x
Lucker, B. F., Hall, C. C., Zegarac, R. & Kramer, D. M. The environmental photobioreactor (epbr): an algal culturing platform for simulating dynamic natural environments. Algal Res. 6, 242–249 (2014).
doi: 10.1016/j.algal.2013.12.007
Andersson, B., Shen, C., Cantrell, M., Dandy, D. S. & Peers, G. The fluctuating cell-specific light environment and its effects on cyanobacterial physiology. Plant Physiol. 181, 547–564 (2019).
doi: 10.1104/pp.19.00480
pubmed: 31391208
pmcid: 6776867
Polle, J. E., Kanakagiri, S., Jin, E., Masuda, T. & Melis, A. Truncated chlorophyll antenna size of the photosystems—a practical method to improve microalgal productivity and hydrogen production in mass culture. Int. J. Hydrog. Energy 27, 1257–1264 (2002).
doi: 10.1016/S0360-3199(02)00116-7
Oren, A., Arahal, D. R., Rosselló-Móra, R., Sutcliffe, I. C. & Moore, E. R. B. Emendation of general consideration 5 and rules 18a, 24a and 30 of the international code of nomenclature of prokaryotes to resolve the status of the cyanobacteria in the prokaryotic nomenclature. Int. J. Syst. Evol. Microbiol. 71, https://doi.org/10.1099/ijsem.0.004939 (2021).
Mager, M. et al. Interlaboratory reproducibility in growth and reporter expression in the cyanobacterium Synechocystis sp. PCC 6803. ACS Synth. Biol. 12, 1823–1835 (2023).
Zavˇrel, T., Oˇcen´aˇsov´a, P. & Cerveny´, J. Phenotypic characterization of Synechocystis sp. PCC 6803 substrains reveals differences in sensitivity to abiotic stress. PLoS ONE 12, 1–21 (2017).
Morris, J. N., Eaton-Rye, J. J. & Summerfield, T. C. Phenotypic variation in wild-type substrains of the model cyanobacterium Synechocystis sp. PCC 6803. N.Z. J. Bot. 55, 25–35 (2017).
doi: 10.1080/0028825X.2016.1231124
Biller, S. J., Berube, P. M., Lindell, D. & Chisholm, S. W. Prochlorococcus: the structure and function of collective diversity. Nat. Rev. Microbiol. 13, 13–27 (2015).
doi: 10.1038/nrmicro3378
pubmed: 25435307
Stanier, R. Y., Kunisawa, R., Mandel, M. C. B. G. & Cohen-Bazire, G. Purification and properties of unicellular blue-green algae (order Chroococcales). Bacteriol. Rev. 35, 171–205 (1971).
doi: 10.1128/br.35.2.171-205.1971
pubmed: 4998365
pmcid: 378380
Rippka, R., Deruelles, J., Waterbury, J. B., Herdman, M. & Stanier, R. Y. Generic assignments, strain histories and properties of pure cultures of cyanobacteria. Microbiology 111, 1–61 (1979).
doi: 10.1099/00221287-111-1-1
Castenholz, R. W. Culturing methods for cyanobacteria. In Cyanobacteria (eds Packer, L. & Glazer, A. N.) Vol. 167. 68–93 (Academic Press, 1988) https://www.sciencedirect.com/science/article/abs/pii/0076687988670066 .
Allen, M. M. Simple conditions for growth of unicellular blue-green algae on plates. J. Phycol. 4, 1–4 (1968).
doi: 10.1111/j.1529-8817.1968.tb04667.x
pubmed: 27067764
Herdman, M., Delaney, S. F. & Carr, N. G. A new medium for the isolation and growth of auxotrophic mutants of the blue-green alga Anacystis nidulans. Microbiology 79, 233–237 (1973).
Shcolnick, S., Shaked, Y. & Keren, N. A role for mrgA, a DPS family protein, in the internal transport of fe in the cyanobacterium Synechocystis sp. PCC 6803. Biochim. Biophys. Acta (BBA)—Bioenerg. 1767, 814–819 (2007).
doi: 10.1016/j.bbabio.2006.11.015
van Alphen, P. & Hellingwerf, K. J. Sustained circadian rhythms in continuous light in Synechocystis sp. PCC 6803 growing in a well-controlled photobioreactor. PLoS ONE 10, 1–12 (2015).
van Alphen, P., Abedini Najafabadi, H., Branco dos Santos, F. & Hellingwerf, K. J. Increasing the photoautotrophic growth rate of Synechocystis sp. PCC 6803 by identifying the limitations of its cultivation. Biotechnol. J. 13, 1700764 (2018).
doi: 10.1002/biot.201700764
Myers, J. A., Curtis, B. S. & Curtis, W. R. Improving accuracy of cell and chromophore concentration measurements using optical density. BMC Biophys. 6, 4 (2013).
doi: 10.1186/2046-1682-6-4
pubmed: 24499615
pmcid: 3663833
Stevenson, K., McVey, A. F., Clark, I. B. N., Swain, P. S. & Pilizota, T. General calibration of microbial growth in microplate readers. Sci. Rep. 6, 38828 (2016).
doi: 10.1038/srep38828
pubmed: 27958314
pmcid: 5153849
Price, C. E. et al. Adaption to glucose limitation is modulated by the pleotropic regulator CcpA, independent of selection pressure strength. BMC Evol. Biol. 19, 15 (2019).
doi: 10.1186/s12862-018-1331-x
pubmed: 30630406
pmcid: 6327505
Brandenburg, F. et al. Trans-4-hydroxy-L-proline production by the cyanobacterium Synechocystis sp. PCC 6803. Metab. Eng. Commun. 12, e00155 (2021).
doi: 10.1016/j.mec.2020.e00155
pubmed: 33511031
Price, S., Kuzhiumparambil, U., Pernice, M. & Ralph, P. Techno-economic analysis of cyanobacterial PHB bioplastic production. J. Environ. Chem. Eng. 10, 107502 (2022).
doi: 10.1016/j.jece.2022.107502
Rueda, E. et al. Life cycle assessment and economic analysis of bioplastics production from cyanobacteria. Sustain. Mater. Technol. 35, e00579 (2023).
Włodarczyk, A., Selão, T. T., Norling, B. & Nixon, P. J. Newly discovered Synechococcus sp. PCC 11901 is a robust cyanobacterial strain for high biomass production. Commun. Biol. 3, 215 (2020).
Koch, M. et al. The survivor strain: isolation and characterization of Phormidium yuhuli ab48, a filamentous phototactic cyanobacterium with biotechnological potential. Front. Bioeng. Biotechnol. 10, 932695 (2022).
Schubert, M. G. et al. Cyanobacteria newly isolated from marine volcanic seeps display rapid sinking and robust, high density growth. Preprint at bioRxiv https://doi.org/10.1101/2023.10.30.564770 (2023).
Jester, B. W. et al. Development of Spirulina for the manufacture and oral delivery of protein therapeutics. Nat. Biotechnol. 40, 956–964 (2022).
doi: 10.1038/s41587-022-01249-7
pubmed: 35314813
pmcid: 9200632
Tabakh, H. et al. Protocol for the transformation and engineering of edible algae Arthrospira platensis to generate heterologous protein-expressing strains. STAR Protoc. 4, 102087 (2023).
doi: 10.1016/j.xpro.2023.102087
pubmed: 36853691
pmcid: 9929480
Kluyver, T. et al. Jupyter notebooks—a publishing format for reproducible computational workflows. In Positioning and Power in Academic Publishing: Players, Agents and Agendas (eds Loizides, F. & Schmidt, B.) 87–90 (IOS Press, 2016).
Harris, C. R. et al. Array programming with numpy. Nature 585, 357–362 (2020).
doi: 10.1038/s41586-020-2649-2
pubmed: 32939066
pmcid: 7759461
Hunter, J. D. Matplotlib: a 2d graphics environment. Comput. Sci. Eng. 9, 90–95 (2007).
doi: 10.1109/MCSE.2007.55
McKinney, W. Data structures for statistical computing in Python. In Proc. 9th Python in Science Conference (eds van der Walt, S. & Millman, J.) 56–61 (2010).