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GNPS - Pseudomonas putida as saviour for troubled Synechococcus elongatus in a synthetic co-culture: Interaction studies based on a multi-OMICs approach

ABSTRACT: In their natural environments, microbes rarely exist in isolation. Instead, they thrive in consortia where diverse interactions take place. In this study, a defined synthetic coculture of phototrophic S. elongatus cscB, which feeds the heterotrophic P. putida cscRABY with sucrose, was investigated to identify potential interactions. In initial experiments, a remarkable growth-promoting effect brought about by the presence of the heterotrophic partner, on the cyanobacterium was observed, leading to a growth increase of up to 60 percent. Vice versa, the cyanobacterium had a neutral effect on P. putida cscRABY, highlighting the resilience against stress of Pseudomonads and their potential as co-culture partners. A suitable reference process reinforcing the growth-promoting effect was established in a parallel operating photobioreactor system. This set the basis for the analysis of the co-culture at transcriptional, proteomic, and metabolomic level. This multi-OMICs approach revealed several moderate changes, including alterations in the core metabolism, transportation, and stress signalling in both microbes, indicating multi-level interactions. These findings provide valuable insights into the complex dynamics within the co-culture system, suggesting the exchange of further molecules beyond the unidirectional feeding with sucrose.

INSTRUMENT(S): TripleTOF 6600

ORGANISM(S): Pseudomonas Putida (ncbitaxon:303) Synechococcus Elongatus (ncbitaxon:32046)

SUBMITTER: Katharina Pflueger-Grau

PROVIDER: MSV000092369 | GNPS | Fri Jul 07 04:21:00 BST 2023

REPOSITORIES: GNPS

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Project description:Microbial photoautotroph-heterotroph interactions underlie marine food webs and shape ecosystem diversity and structure in upper ocean environments. However, the high complexity of in situ ecosystems renders it difficult to study these interactions. Two-member co-culture systems of picocyanobacteria and single heterotrophic bacterial strains have been thoroughly investigated. However, in situ interactions comprise far more diverse heterotrophic bacterial associations with single photoautotrophic organisms. Here, bacterial community composition, lifestyle preference, and genomic- and proteomic-level metabolic characteristics were investigated for an open ocean Synechococcus ecotype and its associated heterotrophs over 91 days of co-cultivation. The associated heterotrophic bacterial assembly mostly constituted five classes including Flavobacteria, Bacteroidetes, Phycisphaerae, Gammaproteobacteria, and Alphaproteobacteria. The seven most abundant taxa/genera comprised >90% of the total heterotrophic bacterial community, and five of these displayed distinct lifestyle preferences (free-living or attached) and responses to Synechococcus growth phases. Six high-quality genomes from the co-culture system were reconstructed inclusive of Synechococcus and the five dominant heterotrophic bacterial populations. The only primary producer of the co-culture system, Synechococcus, displayed metabolic processes primarily involved in inorganic nutrient uptake, photosynthesis, and organic matter biosynthesis and release. Two of the flavobacterial populations, Muricauda and Winogradskyella, and an SM1A02 population, displayed preferences for initial degradation of complex compounds and biopolymers, as evinced by high abundances of TBDT, glycoside hydrolase, and peptidases proteins. In contrast, the alphaproteobacterium Oricola sp. population mainly utilized low molecular weight DOM, including Flavobacteria metabolism byproducts, through ABC, TRAP, and TTT transport systems. Polysaccharide-utilization loci present in the flavobacterial genomes encoded similar trans-membrane protein complexes as Sus/cellulosome and may influence their lifestyle preferences and close associations with phytoplankton. The heterotrophic bacterial populations exhibited complementary mechanisms for degrading Synechococcus-derived organic matter and driving nutrient cycling. In addition to nutrient exchange, removal of reactive oxygen species and vitamin trafficking also contributed to the maintenance of the Synechococcus / heterotroph co-culture system and the interactions shaping the system.

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GNPS - Pseudomonas putida as saviour for troubled Synechococcus elongatus in a synthetic co-culture: Interaction studies based on a multi-OMICs approach

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