The r/K selection theory and its application in biological wastewater treatment processes

Yin, Qidong; Sun, Yuepeng; Li, Bo; Feng, Zhaolu; Wu, Guangxue

doi:10.1016/j.scitotenv.2022.153836

Cited by 54 publications

(26 citation statements)

References 102 publications

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“…The prevalence of different nitrifying genera is mainly associated with substrate availability, rather than growth rate, and the coexistence of r‐selected and K‐selected genera in biofilters can be explained by the layer structure model. According to this model, r‐strategists may dominate the surface of the biofilm where substrate is more readily available, and K‐strategists may have increased abundance in the deeper layers of the biofilm structure where the diffusion of substrate is relatively limited compared with the surface 114 . The layer structure model could also explain the dominance of r‐strategist Nitrosomonas members over K‐strategist Nitrosospira members observed in the RAS biofilter studies considered in the present review.…”

Section: Ribosomal Rna Operon Copy Number Of Ras Associated Taxamentioning

confidence: 80%

“…According to this model, r-strategists may dominate the surface of the biofilm where substrate is more readily available, and K-strategists may have increased abundance in the deeper layers of the biofilm structure where the diffusion of substrate is relatively limited compared with the surface. 114 The layer structure model could also explain the dominance of r-strategist Nitrosomonas members over K-strategist Nitrosospira members observed in the RAS biofilter studies considered in the present review. Therefore, RAS appear to have the potential of successfully hosting desirable nitrifiers regardless of their growth strategy (Continues) while achieving K-selection in aquaculture systems (along with microbially matured water practices), leading to a stable, diverse microbial community that prevents the proliferation of undesirable opportunists that would have a negative effect on farmed species in traditional flowthrough systems.…”

Section: Farmed Species Specificity Of Ras Prokaryotic Communitymentioning

confidence: 82%

“…These results are in line with the characterization of RAS as mainly K‐selected systems due to limited water intake which leads to fewer perturbations that influence the system's carrying capacity, as well as the high water retention time which allows selection to take place 113 . However, RAS should not be indiscriminately characterized as K‐selected systems since individual RAS design (e.g., disinfection methods) can guide the selection, 113 while it should also be noted that r‐strategists are not indiscriminately negative for RAS (e.g., nitrifiers, heterotrophic denitrifiers and anammox species) 114 …”

Section: Ribosomal Rna Operon Copy Number Of Ras Associated Taxamentioning

confidence: 99%

“…In the case of nitrifiers, there are both r‐strategists (e.g., Nitrosomonas , Nitrosococcus , Nitrobacter and ‘ Candidatus Nitrotoga’) and K‐strategists (e.g., Nitrosospira and Nitrospira ) detected in RAS biofilters, 114,115 despite the fact that members of most of these genera have only one rRNA operon copy. The prevalence of different nitrifying genera is mainly associated with substrate availability, rather than growth rate, and the coexistence of r‐selected and K‐selected genera in biofilters can be explained by the layer structure model.…”

Section: Ribosomal Rna Operon Copy Number Of Ras Associated Taxamentioning

confidence: 99%

“…113 However, RAS should not be indiscriminately characterized as K-selected systems since individual RAS design (e.g., disinfection methods) can guide the selection, 113 while it should also be noted that r-strategists are not indiscriminately negative for RAS (e.g., nitrifiers, heterotrophic denitrifiers and anammox species). 114 In the case of nitrifiers, there are both r-strategists (e.g., Nitrosomonas, Nitrosococcus, Nitrobacter and 'Candidatus Nitrotoga') and K-strategists (e.g., Nitrosospira and Nitrospira) detected in RAS biofilters, 114,115 despite the fact that members of most of these genera have only one rRNA operon copy. The prevalence of different nitrifying genera is mainly associated with substrate availability, rather than growth rate, and the coexistence of r-selected and K-selected genera in biofilters can be explained by the layer structure model.…”

Section: Farmed Species Specificity Of Ras Prokaryotic Communitymentioning

confidence: 99%

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Prokaryotic diversity in marine and freshwater recirculating aquaculture systems

Moschos

Kormas

Karayanni

2022

Reviews in Aquaculture

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Intensive aquaculture food production has been continually increasing over the past decades. Recirculating aquaculture is an innovative technology which relies on water reuse and removal of toxic metabolites by utilizing specific prokaryotic groups such as nitrifiers, settled in special biofilters. Focused on recent next generation sequencing-based studies on the microbiome of recirculating aquaculture systems, this review highlights dominant genera and families, and investigates their possible metabolic function in key niches within recirculating aquaculture systems (rearing water, biofilters and fish mucosal microbiome), while aiming to identify core prokaryotic groups across studies. A total of 136 genera belonging to 77 families and 13 phyla have been characterized as dominant or functionally important in relevant

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Section: Ribosomal Rna Operon Copy Number Of Ras Associated Taxamentioning

confidence: 80%

Section: Farmed Species Specificity Of Ras Prokaryotic Communitymentioning

confidence: 82%

Section: Ribosomal Rna Operon Copy Number Of Ras Associated Taxamentioning

confidence: 99%

Section: Ribosomal Rna Operon Copy Number Of Ras Associated Taxamentioning

confidence: 99%

Section: Farmed Species Specificity Of Ras Prokaryotic Communitymentioning

confidence: 99%

See 3 more Smart Citations

Prokaryotic diversity in marine and freshwater recirculating aquaculture systems

Moschos

Kormas

Karayanni

2022

Reviews in Aquaculture

View full text Add to dashboard Cite

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Warmer and drier ecosystems select for smaller bacterial genomes in global soils

Liu

Zhang

Powell

et al. 2023

iMeta

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Bacterial genome size reflects bacterial evolutionary processes and metabolic lifestyles, with implications for microbial community assembly and ecosystem functions. However, to understand the extent of genome-mediated microbial responses to environmental selections, we require studies that observe genome size distributions along environmental gradients representing different conditions that soil bacteria normally encounter. In this study, we used surface soils collected from 237 sites across the globe and analyzed how environmental conditions (e.g., soil carbon and nutrients, aridity, pH, and temperature) affect soil bacterial occurrences and genome size at the community level using bacterial community profiling. We used a joint species distribution model to quantify the effects of environments on species occurrences and found that aridity was a major regulator of genome size with warmer and drier environments selecting bacteria with smaller genomes.Drought-induced physiological constraints on bacterial growth (e.g., water scarcity for cell metabolisms) may have led to these correlations. This finding suggests that increasing cover by warmer and drier ecosystems may result in bacterial genome simplifications by a reduction of genome size.

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Computational Insights into Enzyme‐Substrate Binding Interplay Exhibit Variable Binding Attributes: A Framework for Implementing Oxidoreductase‐Based Applications

Kumar Singh,

Kumar Katari,

Umamaheswari

et al. 2024

ChemistrySelect

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Laccase (LAC) is a potent multicopper oxidase that relies on O2 for its catalytic activity. LAC has been affirmed as an environmentally friendly biocatalyst that often catalyzes a wide array of phenolic substrates. Bacterial‐derived LACs have been less investigated for non‐phenolic substrates in contrast to fungi‐derived LAC. To comprehend the substrates (3,4‐Dimethoxybenzyl alcohol, and Dimer (Guaiacyl 4‐O‐5 guaiacyl) binding interactions of LAC (Thermus thermophilus HB27) was carried out and contrasted with fungal‐derived Lignin peroxidase (LiP) (Trametes cervina) exploiting computational methods, including physicochemical properties, Sequence Annotated by Structure (SAS), Extra precision docking (Glide), and DESMOND‐directed MD‐ simulation. Protein structures exhibited by LAC, and LiP have diverse dissimilar component architects. The XP docking suggested LiP‐Dimer seems to have a comparatively lowest binding affinity (−8.413 kcal/mol), with an MMGBSA score of −33.249 kcal/mol. Further, docked complexes were validated leveraging 50 ns NPT system‐based MD‐simulation for structural and functional stability. The system achieved equilibrium and stability at the end of the simulation, with only the LiP‐3,4‐Dimethoxybenzyl alcohol complex maintained stability. The results of this study offer a framework for improving the binding ability of substrates by way of the use of in‐silico protein engineering, which might eventually result in more effective catalytic applications.

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The r/K selection theory and its application in biological wastewater treatment processes

Cited by 54 publications

References 102 publications

Prokaryotic diversity in marine and freshwater recirculating aquaculture systems

Prokaryotic diversity in marine and freshwater recirculating aquaculture systems

Warmer and drier ecosystems select for smaller bacterial genomes in global soils

Computational Insights into Enzyme‐Substrate Binding Interplay Exhibit Variable Binding Attributes: A Framework for Implementing Oxidoreductase‐Based Applications

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