Function-Based Rhizosphere Assembly along a Gradient of Desiccation in the Former Aral Sea

Wicaksono, Wisnu Adi; Egamberdieva, Dilfuza; Berg, Christian; Mora, Maximilian; Kusstatscher, Peter; Cernava, Tomislav; Berg, Gabriele

doi:10.1128/msystems.00739-22

Cited by 11 publications

(9 citation statements)

References 97 publications

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“…A variety of cultural and metagenomic studies across the world have changed the notion that archaea inhabit only niches with extreme physiological conditions. Furthermore, they have been discovered in normal soil conditions as well as in the rhizospheres of many crops, where they help improve plant growth (Jung et al, 2020 ) and form an important part of soil microbiomes, phytobiomes, and plant-associated ecosystems (Gubry-Rangin et al, 2010 ; Yadav et al, 2019 ; Taffner et al, 2020 ; Zhang et al, 2020 ; Wicaksono et al, 2022 ). Seasonal population dynamics of halophilic archaea inhabiting the rhizosphere of wild vegetation growing in the saline Indian desert were previously reported (Yadav et al, 2019 ).…”

Section: Discussionmentioning

confidence: 99%

Rhizosphere-dwelling halophilic archaea: a potential candidate for alleviating salinity-associated stress in agriculture

Naitam¹,

Ramakrishnan²,

Grover³

et al. 2023

Front. Microbiol.

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Salinity is a serious environmental factor that impedes crop growth and drastically reduces yield. This study aimed to investigate the potential of halophilic archaea isolated from the Rann of Kutch to alleviate the negative impact of salinity on crop growth and yield. The halophilic archaea, which demonstrated high tolerance to salinity levels up to 4.5 M, were evaluated for their ability to promote plant growth in both salt-tolerant and salt-susceptible wheat cultivars. Our assessment focused on their capacity to solubilize essential nutrients, including phosphorus (14-61 mg L−1), potassium (37-78 mg L−1), and zinc (8-17 mg L−1), as well as their production of the phytohormone IAA (17.30 to 49.3 μg ml−1). To conduct the experiments, five wheat cultivars (two salt-tolerant and three salt-susceptible) were grown in triplicates using soft MS agar tubes (50 ml) and pots containing 10 kg of soil with an electrical conductivity (EC) of 8 dSm−1. Data were collected at specific time points: 21 days after sowing (DAS) for the MS agar experiment, 45 DAS for the pot experiment, and at the time of harvest. In the presence of haloarchaea, the inoculated treatments exhibited significant increases in total protein (46%), sugar (27%), and chlorophyll (31%) levels compared to the un-inoculated control. Furthermore, the inoculation led to an elevated accumulation of osmolyte proline (31.51%) and total carbohydrates (27.85%) while substantially reducing the activity of antioxidant enzymes such as SOD, catalase, and peroxidase by 57–76%, respectively. Notably, the inoculated treatments also showed improved plant vegetative growth parameters compared to the un-inoculated treatments. Interestingly, the positive effects of the halophilic archaea were more pronounced in the susceptible wheat cultivars than in the tolerant cultivars. These findings highlight the growth-promoting abilities of the halophilic archaeon Halolamina pelagica CDK2 and its potential to mitigate the detrimental effects of salinity. Consequently, further evaluation of this halophilic archaeon under field conditions is warranted to explore its potential use in the development of microbial inoculants.

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Section: Discussionmentioning

confidence: 99%

Rhizosphere-dwelling halophilic archaea: a potential candidate for alleviating salinity-associated stress in agriculture

Naitam¹,

Ramakrishnan²,

Grover³

et al. 2023

Front. Microbiol.

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“…Differential variant makeup, whether genetic or non-genetic, but heritable, that produces different susceptibility traits to these stressors in the population forms the basis for selection on relevant timescales, manifested in its simplest form as competitive exclusion ( monomorphism ) or coexistence patterns ( polymorphism ) in spatially extended habitats. The stressors could range from antibiotics (Larsson and Flach, 2022), to agrochemicals (Malagón-Rojas et al, 2020), temperature, moisture, (Jiang et al, 2017), pH, salinity (Wicaksono et al, 2022), to nutrient levels, oxygen, or physiological micro-environments (Chikina and Vignjevic, 2021). The primary dose-responses of stressor-to-growth phenotypic effect can be used to obtain (α i , β i ) traits in the sub-populations of interest, and then rescale accordingly the G ( x, y ) of the reference (WT) strain to obtain growth rates g i for all variants under any combination of stressor concentrations.…”

Section: Discussionmentioning

confidence: 99%

Modeling spatial evolution of multi-drug resistance under drug environmental gradients

Freire,

Hu,

Wood

et al. 2023

Preprint

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Multi-drug combinations to treat bacterial populations are at the forefront of approaches for infection control and prevention of antibiotic resistance. Although the evolution of antibiotic resistance has been theoretically studied with mathematical population dynamics models, extensions to spatial dynamics remain rare in the literature, including in particular spatial evolution of multi-drug resistance. In this study, we propose a reaction-diffusion system that describes the multi-drug evolution of bacteria, based on a rescaling approach (Gjini and Wood, 2021). We show how the resistance to drugs in space, and the consequent adaptation of growth rate is governed by a Price equation with diffusion. The covariance terms in this equation integrate features of drug interactions and collateral resistances or sensitivities to the drugs. We study spatial versions of the model where the distribution of drugs is homogeneous across space, and where the drugs vary environmentally in a piecewise-constant, linear and nonlinear manner. Applying concepts from perturbation theory and reaction-diffusion equations, we propose an analytical characterization ofaverage mutant fitnessin the spatial system based on the principal eigenvalue of our linear problem. This enables an accurate translation from drug spatial gradients and mutant antibiotic susceptibility traits, to the relative advantage of each mutant across the environment. Such a mathematical understanding allows to predict the precise outcomes of selection over space, ultimately from the fundamental balance between growth and movement traits, and their diversity in a population.

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Section: Spatial Growth and Selection Under Multiple Stressorsmentioning

confidence: 99%

Modeling spatial evolution of multi-drug resistance under drug environmental gradients

Freire,

Hu,

Wood

et al. 2024

PLoS Comput Biol

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Multi-drug combinations to treat bacterial populations are at the forefront of approaches for infection control and prevention of antibiotic resistance. Although the evolution of antibiotic resistance has been theoretically studied with mathematical population dynamics models, extensions to spatial dynamics remain rare in the literature, including in particular spatial evolution of multi-drug resistance. In this study, we propose a reaction-diffusion system that describes the multi-drug evolution of bacteria based on a drug-concentration rescaling approach. We show how the resistance to drugs in space, and the consequent adaptation of growth rate, is governed by a Price equation with diffusion, integrating features of drug interactions and collateral resistances or sensitivities to the drugs. We study spatial versions of the model where the distribution of drugs is homogeneous across space, and where the drugs vary environmentally in a piecewise-constant, linear and nonlinear manner. Although in many evolution models, per capita growth rate is a natural surrogate for fitness, in spatially-extended, potentially heterogeneous habitats, fitness is an emergent property that potentially reflects additional complexities, from boundary conditions to the specific spatial variation of growth rates. Applying concepts from perturbation theory and reaction-diffusion equations, we propose an analytical metric for characterization of average mutant fitness in the spatial system based on the principal eigenvalue of our linear problem, λ1. This enables an accurate translation from drug spatial gradients and mutant antibiotic susceptibility traits to the relative advantage of each mutant across the environment. Our approach allows one to predict the precise outcomes of selection among mutants over space, ultimately from comparing their λ1 values, which encode a critical interplay between growth functions, movement traits, habitat size and boundary conditions. Such mathematical understanding opens new avenues for multi-drug therapeutic optimization.

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Function-Based Rhizosphere Assembly along a Gradient of Desiccation in the Former Aral Sea

Cited by 11 publications

References 97 publications

Rhizosphere-dwelling halophilic archaea: a potential candidate for alleviating salinity-associated stress in agriculture

Rhizosphere-dwelling halophilic archaea: a potential candidate for alleviating salinity-associated stress in agriculture

Modeling spatial evolution of multi-drug resistance under drug environmental gradients

Modeling spatial evolution of multi-drug resistance under drug environmental gradients

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