Effects of chiral herbicide dichlorprop on Arabidopsis thaliana metabolic profile and its implications for microbial communities in the phyllosphere

The study of microbial communities from extreme environments is a fascinating topic. With every study, biologists and ecologists reveal interesting facts and questions that dispel the old belief that these are inhospitable environments. In this work, we assess the microbial diversity of three hot springs from Neuquén, Argentina, using high-throughput amplicon sequencing. We predicted a distinct metabolic profile in the acidic and the circumneutral samples, with the first ones being dominated by chemolithotrophs and the second ones by chemoheterotrophs. Then, we collected data of the microbial communities of hot springs around the world in an effort to comprehend the roles of pH and temperature as shaping factors. Interestingly, there was a covariation between both parameters and the phylogenetic distance between communities; however, neither of them could explain much of the microbial profile in an ordination model. Moreover, there was no correlation between alpha diversity and these parameters. Therefore, the microbial communities’ profile seemed to have complex shaping factors beyond pH and temperature. Lastly, we looked for taxa associated with different environmental conditions. Several such taxa were found. For example, Hydrogenobaculum was frequently present in acidic springs, as was the Sulfolobaceae family; on the other hand, Candidatus Hydrothermae phylum was strongly associated with circumneutral conditions. Interestingly, some singularities related to sites featuring certain taxa were also observed.

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Rhizosphere microbes influence host circadian clock function

Phytobiomes Journal ◽

10.1094/pbiomes-01-21-0005-sc ◽

2021 ◽

Author(s):

Charley Hubbard ◽

Robby McMinn ◽

Cynthia Weinig

Keyword(s):

Arabidopsis Thaliana ◽

Circadian Clock ◽

Microbial Communities ◽

Abiotic Factors ◽

Circadian Period ◽

Local Conditions ◽

Mutant Genotype ◽

Short Period ◽

Clock Mutant ◽

Boechera Stricta

The circadian clock is an important determinant of fitness that is entrained by local conditions. Aside from abiotic factors, individual pathogenic soil bacteria affect circadian clock function in plant hosts. Yet, in nature, plants interact with diverse microbial communities, and the effect of complex communities on clock function remains unclear. In Arabidopsis thaliana and its wild relative, Boechera stricta, we used diverse rhizosphere inoculates and host genotypes to test the effect of complex rhizosphere microbial communities on the host circadian clock. Arabidopsis thaliana plants with an intact rhizosphere microbiome expressed a circadian period closer to 24h in duration and significantly shorter (by 48 minutes on average) relative to plants grown with a disrupted microbiome. Wild-type host genotypes of A. thaliana differed in clock sensitivity to microbes, with one genotype (Landsberg erecta) expressing a 119-minute difference in circadian period length across rhizosphere microbial treatments. A similar pattern of clock sensitivity to soil microbes was observed in B. stricta. Finally, rhizosphere microbes collected from the mutant genotype toc1-21 of A. thaliana with a short-period phenotype and used as inoculate significantly shortened the long-period phenotype of the clock mutant genotype ztl-1. The results indicate that complex rhizosphere microbial communities affect host clock function.

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Effects of imazethapyr spraying on plant growth and leaf surface microbial communities in Arabidopsis thaliana

Journal of Environmental Sciences ◽

10.1016/j.jes.2019.04.020 ◽

2019 ◽

Vol 85 ◽

pp. 35-45 ◽

Cited By ~ 9

Author(s):

Wanyue Liu ◽

Mingjing Ke ◽

Zhenyan Zhang ◽

Tao Lu ◽

Youchao Zhu ◽

...

Keyword(s):

Arabidopsis Thaliana ◽

Plant Growth ◽

Microbial Communities ◽

Leaf Surface

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The Leaf Microbiota of Arabidopsis Displays Reproducible Dynamics And Patterns Throughout The Growing Season

10.21203/rs.3.rs-808966/v1 ◽

2021 ◽

Author(s):

Juliana Almario ◽

Maryam Mahmudi ◽

Samuel Kroll ◽

Mathew Agler ◽

Aleksandra Placzek ◽

...

Keyword(s):

Arabidopsis Thaliana ◽

Microbial Communities ◽

Photosynthetic Activity ◽

Temporal Dynamics ◽

Growing Season ◽

Plant Fitness ◽

High Turnover ◽

Microbial Network ◽

Stabilization Phase ◽

Microbe Interactions

Abstract Background: Leaves are primarily responsible for the plant's photosynthetic activity. Thus, changes in the leaf microbiota, which includes deleterious and beneficial microbes, can have far reaching effects on plant fitness and productivity. Identifying the processes and microorganisms that drive these changes over a plant’s lifetime is, therefore, crucial. In this study we analyzed the temporal dynamics in the leaf microbiota of Arabidopsis thaliana, integrating changes in both, composition and microbe-microbe interactions via the study of microbial networks.Results: Field-grown Arabidopsis were used to monitor leaf bacterial, fungal and oomycete communities throughout the plant’s growing season (extending from November to March) over three consecutive years. Our results revealed the existence of conserved temporal patterns, with microbial communities and networks going through a stabilization phase of decreased diversity and variability at the beginning of the plant’s growing season. Despite a high turnover in these communities, we identified 19 'core' taxa persisting on Arabidopsis leaves across time and plant generations. With the hypothesis these microbes could be playing key roles in the structuring of leaf microbial communities, we conducted a time-informed microbial network analysis which showed core taxa are not necessarily highly connected network 'hubs' and 'hubs' alternate with time. Conclusions: Our study shows that leaf microbial communities exhibit reproducible dynamics and patterns, suggesting the possibility of predicting those patterns to drive microbial communities towards desired states.

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Effects of AOX1a Deficiency on Plant Growth, Gene Expression of Respiratory Components and Metabolic Profile Under Low-Nitrogen Stress in Arabidopsis thaliana

Plant and Cell Physiology ◽

10.1093/pcp/pcq033 ◽

2010 ◽

Vol 51 (5) ◽

pp. 810-822 ◽

Cited By ~ 34

Author(s):

Chihiro K. Watanabe ◽

Takushi Hachiya ◽

Kentaro Takahara ◽

Maki Kawai-Yamada ◽

Hirofumi Uchimiya ◽

...

Keyword(s):

Gene Expression ◽

Arabidopsis Thaliana ◽

Plant Growth ◽

Metabolic Profile ◽

Nitrogen Stress ◽

Low Nitrogen Stress ◽

Low Nitrogen

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A fungal powdery mildew pathogen induces extensive local and marginal systemic changes in the Arabidopsis thaliana microbiota

10.1101/2021.02.26.432829 ◽

2021 ◽

Author(s):

Paloma Duran ◽

Anja Reinstaedler ◽

Anna Lisa Rajakrut ◽

Masayoshi Hashimoto ◽

Ruben Garrido-Oter ◽

...

Keyword(s):

Arabidopsis Thaliana ◽

Powdery Mildew ◽

Microbial Communities ◽

Bacterial Communities ◽

Bacterial Load ◽

Fold Increase ◽

Natural Soil ◽

Significant Shift ◽

Bacterial Assemblage ◽

Pathogen Invasion

Powdery mildew is a foliar disease caused by epiphytically growing obligate biotrophic ascomycete fungi. How powdery mildew colonization affects host resident microbial communities locally and systemically remains poorly explored. We performed powdery mildew (Golovinomyces orontii) infection experiments with Arabidopsis thaliana grown in either natural soil or a gnotobiotic system and studied the influence of pathogen invasion into standing natural multi-kingdom or synthetic bacterial communities (SynComs). We found that after infection of soil-grown plants, G. orontii outcompetes numerous resident leaf-associated fungi. We further detected a significant shift in foliar but not root-associated bacterial communities in this setup. Pre-colonization of germ-free A. thaliana leaves with a bacterial leaf-SynCom, followed by G. orontii invasion, induced an overall similar shift in the foliar bacterial microbiota and minor changes in the root-associated bacterial assemblage. However, a standing root SynCom in root samples remained robust against foliar infection with G. orontii. Although pathogen growth was unaffected by the leaf SynCom, fungal infection caused a more than two-fold increase in leaf bacterial load. Our findings indicate that G. orontii infection affects mainly microbial communities in local plant tissue, possibly driven by pathogen-induced changes in source-sink relationships and host immune status.

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Additives affect the distribution of metabolic profile, microbial communities and antibiotic resistance genes in high-moisture sweet corn kernel silage

Bioresource Technology ◽

10.1016/j.biortech.2020.123821 ◽

2020 ◽

Vol 315 ◽

pp. 123821

Author(s):

Zhe Wu ◽

Yingning Luo ◽

Jinze Bao ◽

Ying Luo ◽

Zhu Yu

Keyword(s):

Antibiotic Resistance ◽

Microbial Communities ◽

Resistance Genes ◽

Metabolic Profile ◽

Sweet Corn ◽

Antibiotic Resistance Genes ◽

Corn Kernel ◽

High Moisture

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Assessing Microbial Communities for a Metabolic Profile Similar to Activated Sludge

Water Environment Research ◽

10.2175/106143006x123148 ◽

2007 ◽

Vol 79 (5) ◽

pp. 536-546 ◽

Cited By ~ 7

Author(s):

S. M. Paixão ◽

M. C. Sàágua ◽

R. Tenreiro ◽

A. M. Anselmo

Keyword(s):

Activated Sludge ◽

Microbial Communities ◽

Metabolic Profile

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Transgenic maize in the presence of ampicillin modifies the metabolic profile and microbial population structure of bovine rumen fluidin vitro

British Journal Of Nutrition ◽

10.1017/bjn20061889 ◽

2006 ◽

Vol 96 (5) ◽

pp. 820-829 ◽

Cited By ~ 12

Author(s):

Melanie Koch ◽

Egbert Strobel ◽

Christoph C. Tebbe ◽

John Heritage ◽

Gerhard Breves ◽

...

Keyword(s):

Microbial Community ◽

Microbial Communities ◽

Metabolic Profile ◽

Microbial Population ◽

Rumen Fluid ◽

Transgenic Maize ◽

Single Strand Conformational Polymorphism ◽

Functional Changes ◽

Micro Organisms

Recently, transgenic crops have been considered as possible donors of transgenes that could be taken up by micro-organisms under appropriate conditions. In anin vitrorumen simulation system, effects of ampicillin on microbial communities growing either on rumen contents with transgenic maize carrying a gene that confers resistance to ampicillin or its isogenic counterpart as substrates were examined continuously over 13 d. Rate of production of SCFA was measured to determine functional changes in the rumen model and single-strand conformational polymorphism was used to detect alterations in structure of the microbial community. Rumen contents treated with ampicillin displayed a marked decrease in the rate of production of SCFA and diversity of the microbial community was reduced severely. In the presence of transgenic maize, however, the patterns of change of rumen micro-organisms and their metabolic profiles were different from that of rumen fluid incorporating maize bred conventionally. Recovery of propionate production was observed both in the rumen fluid fed transgenic and conventional maize after a delay of several days but recovery occurred earlier in fermenters fed transgenic maize. Alterations in the microbial population structures resulting from the ampicillin challenge were not reversed during the experimental run although there was evidence of adaptation of the microbial communities over time in the presence of the antibiotic, showing that populations with different microbial structures could resume a pre-challenge metabolic profile following the introduction of ampicillin, irrespective of the source of the plant material in the growth medium.

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