Characterization of Antimicrobial-Producing Beneficial Bacteria Isolated from Huanglongbing Escape Citrus Trees

Riera, Nadia; Handique, Utpal; Zhang, Yunzeng; Dewdney, Megan M.; Wang, Nian

doi:10.3389/fmicb.2017.02415

Cited by 53 publications

(38 citation statements)

References 78 publications

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“…The particular microbial taxa recruited to the rhizosphere from the soil microbial reservoir vary between plant species; however, a given plant genotype apparently selects a particular core microbiome 11 , 36 . The core microbiome of the plants probably contributes to plant growth 6 and health 13 , 35 , 53 . Thus far, the core microbiome of most plants has been defined based on taxonomic markers 3 , 4 , 6 , 11 , 16 .…”

Section: Discussionmentioning

confidence: 99%

The structure and function of the global citrus rhizosphere microbiome

et al. 2018

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Citrus is a globally important, perennial fruit crop whose rhizosphere microbiome is thought to play an important role in promoting citrus growth and health. Here, we report a comprehensive analysis of the structural and functional composition of the citrus rhizosphere microbiome. We use both amplicon and deep shotgun metagenomic sequencing of bulk soil and rhizosphere samples collected across distinct biogeographical regions from six continents. Predominant taxa include Proteobacteria, Actinobacteria, Acidobacteria and Bacteroidetes. The core citrus rhizosphere microbiome comprises Pseudomonas, Agrobacterium, Cupriavidus, Bradyrhizobium, Rhizobium, Mesorhizobium, Burkholderia, Cellvibrio, Sphingomonas, Variovorax and Paraburkholderia, some of which are potential plant beneficial microbes. We also identify over-represented microbial functional traits mediating plant-microbe and microbe-microbe interactions, nutrition acquisition and plant growth promotion in citrus rhizosphere. The results provide valuable information to guide microbial isolation and culturing and, potentially, to harness the power of the microbiome to improve plant production and health.

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Section: Discussionmentioning

confidence: 99%

The structure and function of the global citrus rhizosphere microbiome

et al. 2018

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“…The inhibitory isolates included those of Burkholderia metallica, Burkholderia territorii, Pseudomonas granadensis, Pseudomonas geniculata, Rhodococcus jialingiae, and Bacillus pumilus (58). We did not recover these bacteria in our culture collection, likely due to the different medium types and culture conditions utilized in the Riera et al study (58), as well as potential differences in the microbiomes of different geographic regions and citrus cultivars with those in our study.…”

Section: Discussionmentioning

confidence: 73%

“…Several bacteria isolated from the rhizosphere of citrus in an HLB-impacted region in Florida were inhibitory against two bacteria, Agrobacterium tumefaciens and Sinorhizobium meliloti, which are phylogenetically related to "Ca. Liberibacter asiaticus" (58). The inhibitory isolates included those of Burkholderia metallica, Burkholderia territorii, Pseudomonas granadensis, Pseudomonas geniculata, Rhodococcus jialingiae, and Bacillus pumilus (58).…”

Section: Discussionmentioning

confidence: 99%

An In Vitro Pipeline for Screening and Selection of Citrus-Associated Microbiota with Potential Anti-“ Candidatus Liberibacter asiaticus” Properties

Blacutt

Ginnan

Dang

et al. 2020

Appl Environ Microbiol

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Huanglongbing (HLB) is a destructive citrus disease that is lethal to all commercial citrus plants, making it the most serious citrus disease and one of the most serious plant diseases. Because of the severity of HLB and the paucity of effective control measures, we structured this study to encompass the entirety of the citrus microbiome and the chemistries associated with that microbial community. We describe the spatial niche diversity of bacteria and fungi associated with citrus roots, stems, and leaves using traditional microbial culturing integrated with culture-independent methods. Using the culturable sector of the citrus microbiome, we created a microbial repository using a high-throughput bulk culturing and microbial identification pipeline. We integrated an in vitro agar diffusion inhibition bioassay into our culturing pipeline that queried the repository for antimicrobial activity against Liberibacter crescens, a culturable surrogate for the nonculturable “Candidatus Liberibacter asiaticus” bacterium associated with HLB. We identified microbes with robust inhibitory activity against L. crescens that include the fungi Cladosporium cladosporioides and Epicoccum nigrum and bacterial species of Pantoea, Bacillus, and Curtobacterium. Purified bioactive natural products with anti-“Ca. Liberibacter asiaticus” activity were identified from the fungus C. cladosporioides. Bioassay-guided fractionation of an organic extract of C. cladosporioides yielded the natural products cladosporols A, C, and D as the active agents against L. crescens. This work serves as a foundation for unraveling the complex chemistries associated with the citrus microbiome to begin to understand the functional roles of members of the microbiome, with the long-term goal of developing anti-“Ca. Liberibacter asiaticus” bioinoculants that thrive in the citrus holosystem. IMPORTANCE Globally, citrus is threatened by huanglongbing (HLB), and the lack of effective control measures is a major concern of farmers, markets, and consumers. There is compelling evidence that plant health is a function of the activities of the plant's associated microbiome. Using Liberibacter crescens, a culturable surrogate for the unculturable HLB-associated bacterium “Candidatus Liberibacter asiaticus,” we tested the hypothesis that members of the citrus microbiome produce potential anti-“Ca. Liberibacter asiaticus” natural products with potential anti-“Ca. Liberibacter asiaticus” activity. A subset of isolates obtained from the microbiome inhibited L. crescens growth in an agar diffusion inhibition assay. Further fractionation experiments linked the inhibitory activity of the fungus Cladosporium cladosporioides to the fungus-produced natural products cladosporols A, C, and D, demonstrating dose-dependent antagonism to L. crescens.

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“…The corn rhizosphere supported a significant proportion of antagonists, in principal fluorescent pseudomonads (Pseudomonas prosekii and P. fluorescens group), followed by strains of S. maltophilia and Burkholderia territorii. B. territorii showed an antagonistic potential against the fungal root pathogens as postulated by Riera et al (2017).…”

Section: Pathogen Density In Different Habitats Before and After Planmentioning

confidence: 92%

Microbial biodiversity as related to crop succession and potato intercropping for management of brown rot disease

Messiha

Elhalag

Balabel

et al. 2019

Egypt J Biol Pest Control

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Potato brown rot, caused by Ralstonia solanacearum, ranked globally as the second most important bacterial plant pathogen. In the present study, the influence of different cropping programs in potato brown rot management was investigated in four infected fields in Egypt. Two districts were selected as sandy soils in Giza (Wardan) and Behera (Ganuob El-Tahrir) governorates. The other two were selected as silty clay in Minufyia (Talia) and Beni-Suef (Sids) governorates. The followed crop succession included corn, potato intercropped with cabbage, onion, cowpea, wheat, corn again, and ended by potato. The pathogen was undetectable after corn, onion, and wheat. It decreased in cowpea and cabbage rhizospheres in the clay soils. The pathogen was undetectable at all districts, except at Sids, where the pathogen was significantly decreased but was not eradicated. This was possibly attributed to the high ratio of NO 3 − and Na + at this district. Decreased R. solanacearum density after corn coincided with the high ratio of fluorescent pseudomonads, endospores, and actinomycetes, being most clear in the poor soils (Wardan) and less clear under iron excess at Ganoub El-Tahrir as well as the clay soils. Corn rhizosphere supported an array of antagonistic actinomycetes such as strains similar to Streptomyces intermedius, Streptomyces albidoflavus group, Streptomyces argenteolus group, and Streptomyces erythrogriseus. Intercropping potato with cabbage decreased the density of the pathogen in rhizosphere, which is associated with greater antagonistic fluorescent pseudomonads, Bacillus spp. and Serratia spp. Onion soil and rhizosphere associated with abundance of antagonists and fluorescent pseudomonads, followed by S. maltophilia and Bacillus spp. Wheat soil and rhizosphere supported fluorescent pseudomonads and antagonistic Streptomyces spp., especially in sandy soils. The pathogen was undetectable after planting the ending potato in the three districts, Wardan, Ganoub El-Tahrir, and Talia. This was accompanied by a general oligotrophism and increased ratio of fluorescent pseudomonads, endospores bacteria, and actinomycetes along with a diversity of R. solanacearum antagonists such as S. maltophilia, Citrobacter freundii, Acinetobacter sp., Delftia sp., and Serratia marcescens.

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Characterization of Antimicrobial-Producing Beneficial Bacteria Isolated from Huanglongbing Escape Citrus Trees

Cited by 53 publications

References 78 publications

The structure and function of the global citrus rhizosphere microbiome

The structure and function of the global citrus rhizosphere microbiome

An In Vitro Pipeline for Screening and Selection of Citrus-Associated Microbiota with Potential Anti-“ Candidatus Liberibacter asiaticus” Properties

Microbial biodiversity as related to crop succession and potato intercropping for management of brown rot disease

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