Bdellovibrio and Like Organisms in Lake Geneva: An Unseen Elephant in the Room?

Ezzedine, Jade; Jacas, Louis; Desdevises, Yves; Jacquet, Stéphan

doi:10.3389/fmicb.2020.00098

Cited by 26 publications

(21 citation statements)

References 67 publications

(76 reference statements)

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“…Besides, most BALOs are known to be cryptic rather than numerous in natural ecosystems (Kandel et al, 2014;Williams et al, 2016). Therefore, the use of universal primers is likely to overlook the diversity and abundance of less abundant bacteria such as the BALOs group (Ezzedine et al, 2020b).…”

Section: Introductionmentioning

confidence: 99%

New 16S rRNA primers to uncover Bdellovibrio and like organisms diversity and abundance

Ezzedine

Chardon

Jacquet

2020

Journal of Microbiological Methods

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Appropriate use and specific primers are important in assessing the diversity and abundance of microbial groups of interest. Bdellovibrio and like organisms (BALOs), that refer to obligate Gram-negative bacterial predators of other Gram-negative bacteria, evolved in terms of taxonomy and classification over the past two decades. Hence, some former primers have become inadequate while others are yet to be designed, for both PCR (especially with the advent of NGS) and qPCR approaches. Thus, to study BALOs' abundance and diversity in a variety of aquatic ecosystems, we designed in silico specific primer sets for each BALO genera and tested them in vitro on a variety of cultures and environmental samples. Also, we performed Sanger and Nano Miseq sequencing to reveal the exact degree of specificity of the most promising primers set. Here we report our success in designing specific primers for some BALOs genera, i.e. Bdellovibrio (PCR), Bacteriovorax (qPCR), Peredibacter (PCR).

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Section: Introductionmentioning

confidence: 99%

New 16S rRNA primers to uncover Bdellovibrio and like organisms diversity and abundance

Ezzedine

Chardon

Jacquet

2020

Journal of Microbiological Methods

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“…Finally, prey diversity itself promotes the survival of a generalist predator, such as Bdellovibrio, and the presence of Bdellovibrio has been shown to positively correlate with alpha-diversity (68,(71)(72)(73). Overall, our results suggest that Bdellovibrio must prey on several prey species and locate transient hotspots to survive.…”

Section: Discussionmentioning

confidence: 52%

“…Secondly, characteristics of the environment can make predation less efficient (giving prey a greater opportunity to recover) (63)(64)(65)(66). Thirdly, seasonal changes can result in a temporal refuge, with prey concentrations varying with temperature (67,68). Other temporal fluctuations could create hotspots and refuges.…”

Section: Discussionmentioning

confidence: 99%

Predation strategies of the bacterium Bdellovibrio bacteriovorus result in overexploitation and bottlenecks

Summers

Kreft

2019

Preprint

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11With increasing antimicrobial resistance, alternatives for treating infections or removing resistant 12 bacteria are urgently needed, such as the bacterial predator Bdellovibrio bacteriovorus or 13 bacteriophage. Therefore, we need to better understand microbial predator-prey dynamics. We 14 developed mass-action mathematical models of predation for chemostats, which capture the low 15 substrate concentration and slow growth typical for intended application areas of the predators such 16 as wastewater treatment, aquaculture or the gut. Our model predicted a minimal prey size required 17 for predator survival, explaining why Bdellovibrio is much smaller than its prey. A too good predator 18 (attack rate too high, mortality too low) overexploited its prey leading to extinction (tragedy of the 19 commons). Surprisingly, a predator taking longer to produce more offspring outcompeted a predator 20 producing fewer offspring more rapidly (rate versus yield trade-off). Predation was only efficient in a 21 narrow region around optimal parameters. Moreover, extreme oscillations under a wide range of 22 conditions led to severe bottlenecks. A bacteriophage outcompeted Bdellovibrio due to its higher 23 burst size and faster life cycle. Together, results suggest that Bdellovibrio would struggle to survive 24 on a single prey, explaining why it must be a generalist predator and suggesting it is better suited to 25 environments with multiple prey than phage. 26 Summers & Kreft Predation strategies of Bdellovibrio 2 157 Since the oscillations generated by our Bdellovibrio model had a much longer period, extremely 158 abrupt rises and falls and a strong asymmetry in wave shapes compared to the typical Lotka-159 Volterra models for animal populations, we compared our model with a protist predator model by 160 Curds and Bazin [27] that generated similarly extreme but shorter period oscillations. The period of 161 the protist model could be increased to that of the Bdellovibrio model just by replacing protist with 162 Bdellovibrio kinetic parameters (SI text on Protist model, Fig. S5).

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“…Although species from this order were rst described in 1982 [51], not much is known about them or their role in natural ecosystems. A recent study from Lake Geneva [52] demonstrated that Micavibrionaceae vary throughout the year, with higher numbers in the spring, likely linked to phytoplankton dynamics since they are possible prey for BALOs. Their abundance here may relate to the time of year as our sampling coincided with a phytoplankton bloom.…”

Section: Discussionmentioning

confidence: 99%

Response and Oil Degradation Activities of a Northeast Atlantic Bacterial Community to Biogenic and Synthetic Surfactants

Nikolova¹,

Ijaz

Magill³

et al. 2021

Preprint

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Background: Biosurfactants, however, are naturally derived products that play a similar role to synthetic dispersants in oil spill response but are easily biodegradable and less toxic. Using a combination of analytical chemistry, 16S rRNA amplicon sequencing and simulation-based approaches, this study investigated the microbial community dynamics, ecological drivers, functional diversity and robustness, and oil biodegradation potential of a northeast Atlantic marine microbial community to crude oil when exposed to rhamnolipid or synthetic dispersant Finasol OSR52. Results: Psychrophilic Colwellia and Oleispira dominated the community in both the rhamnolipid and Finasol OSR52 treatments initially but later community structure across treatments diverged significantly: Rhodobacteraceae and Vibrio dominated the Finasol-amended treatment, whereas Colwellia, Oleispira, and later Cycloclasticus and Alcanivorax, dominated the rhamnolipid-amended treatment. The key aromatic hydrocarbon-degrading bacteria like Cycloclasticus was not observed in the Finasol treatment but it was abundant in the oil-only and rhamnolipid-amended treatments. Overall, Finasol had a significant negative impact on the community diversity, weakened the taxa-functional robustness of the community, and caused a stronger environmental filtering, more so than oil-only and rhamnolipid-amended oil treatments. Rhamnolipid-amended and oil-only treatments had the highest functional diversity, however, the overall oil biodegradation was greater in the Finasol treatment, but aromatic biodegradation was highest in the rhamnolipid treatment. Conclusion: Overall, the natural marine microbial community in the northeast Atlantic responded differently to crude oil dispersed with either synthetic or biogenic surfactants over time, but oil degradation was more enhanced by the synthetic dispersant. Collectively, our results advance the understanding of how rhamnolipid biosurfactants and synthetic dispersant Finasol affect the natural marine microbial community in the FSC, supporting their potential application in oil spills.

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Bdellovibrio and Like Organisms in Lake Geneva: An Unseen Elephant in the Room?

Cited by 26 publications

References 67 publications

New 16S rRNA primers to uncover Bdellovibrio and like organisms diversity and abundance

New 16S rRNA primers to uncover Bdellovibrio and like organisms diversity and abundance

Predation strategies of the bacterium Bdellovibrio bacteriovorus result in overexploitation and bottlenecks

Response and Oil Degradation Activities of a Northeast Atlantic Bacterial Community to Biogenic and Synthetic Surfactants

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