Extracellular DNA enhances the formation and stability of symplasmata in &lt;i&gt;Pantoea agglomerans&lt;/i&gt; YS19

Zheng, Jun; Xia, Yifan; Liu, Qi; He, Xinyu; Yu, Jiajia; Feng, Yongjun

doi:10.2323/jgam.2018.03.002

Cited by 5 publications

(5 citation statements)

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“…While Pantoea eucalypti best formed symplasmata in glucose medium not in LB medium, and at a pH higher than 7.6 (Tecon and Leveau, 2016 ), our strain P. agglomerans DBM 3797 formed them only in LB medium at pH 8.5. Our findings are in accordance with those for strain YS19 (Jiang et al, 2015 ; Yu et al, 2016 ; Zheng et al, 2019 ) and nitrogen-fixing E. agglomerans NO30 (Achouak et al, 1994 ). Symplasmata of strain YS19 were probably regulated by indole (Yu et al, 2016 ) and it was hypothesized that indole originated from tryptophan degradation and was considered by the P. agglomerans indolenon-producing strain as a marker of starvation (Jia et al, 2017 ).…”

Section: Discussionsupporting

confidence: 92%

“…In addition, the ability to communicate between the microbial community and the plant cells is enhanced by signal amplification during biofilm formation (Seneviratne et al, 2010 ). Symplasmata i.e., multicellular round aggregates mimicking colonies in a liquid medium, probably gave the original name to the species “agglomerans” (Tecon and Leveau, 2016 ) and were described in detail e.g., in the rice epiphyte P. agglomerans YS19 (Yu et al, 2016 ; Zheng et al, 2019 ). Although these formations were firstly described by M. W. Beijerinck in 1888 (Tecon and Leveau, 2016 ), it is still not completely clear why they are formed.…”

Section: Discussionmentioning

confidence: 99%

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Whole genome sequencing and characterization of Pantoea agglomerans DBM 3797, endophyte, isolated from fresh hop (Humulus lupulus L.)

Patakova,

Vasylkivska,

Sedlar

et al. 2024

Front. Microbiol.

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BackgroundThis paper brings new information about the genome and phenotypic characteristics of Pantoea agglomerans strain DBM 3797, isolated from fresh Czech hop (Humulus lupulus) in the Saaz hop-growing region. Although P. agglomerans strains are frequently isolated from different materials, there are not usually thoroughly characterized even if they have versatile metabolism and those isolated from plants may have a considerable potential for application in agriculture as a support culture for plant growth.MethodsP. agglomerans DBM 3797 was cultured under aerobic and anaerobic conditions, its metabolites were analyzed by HPLC and it was tested for plant growth promotion abilities, such as phosphate solubilization, siderophore and indol-3-acetic acid productions. In addition, genomic DNA was extracted, sequenced and de novo assembly was performed. Further, genome annotation, pan-genome analysis and selected genome analyses, such as CRISPR arrays detection, antibiotic resistance and secondary metabolite genes identification were carried out.Results and discussionThe typical appearance characteristics of the strain include the formation of symplasmata in submerged liquid culture and the formation of pale yellow colonies on agar. The genetic information of the strain (in total 4.8 Mb) is divided between a chromosome and two plasmids. The strain lacks any CRISPR-Cas system but is equipped with four restriction-modification systems. The phenotypic analysis focused on growth under both aerobic and anaerobic conditions, as well as traits associated with plant growth promotion. At both levels (genomic and phenotypic), the production of siderophores, indoleacetic acid-derived growth promoters, gluconic acid, and enzyme activities related to the degradation of complex organic compounds were found. Extracellular gluconic acid production under aerobic conditions (up to 8 g/l) is probably the result of glucose oxidation by the membrane-bound pyrroloquinoline quinone-dependent enzyme glucose dehydrogenase. The strain has a number of properties potentially beneficial to the hop plant and its closest relatives include the strains also isolated from the aerial parts of plants, yet its safety profile needs to be addressed in follow-up research.

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Section: Discussionsupporting

confidence: 92%

Section: Discussionmentioning

confidence: 99%

Whole genome sequencing and characterization of Pantoea agglomerans DBM 3797, endophyte, isolated from fresh hop (Humulus lupulus L.)

Patakova,

Vasylkivska,

Sedlar

et al. 2024

Front. Microbiol.

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“…Data presented of three or more independent cultures were calculated as previously described (Zheng et al, 2019b). The mean ± SD from three independent experiments is shown in the figures, and the two-tailed unpaired Student's t-test was used for statistical significance assessment.…”

Section: Discussionmentioning

confidence: 99%

Indole inhibited the expression of csrA gene in Escherichia coli

Zheng

Zuo

Zhou

et al. 2023

J. Gen. Appl. Microbiol.

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Indole is a very important signal molecule which plays multiple regulatory roles in many physiological and biochemical processes of bacteria, but up to now, the reasons for its wide range of functions have not been revealed. In this study, we found that indole inhibits the motility, promotes glycogen accumulation and enhances starvation resistance of Escherichia coli. However, the regulatory effects of indole became insignificant while the global csrA gene was mutated. To reveal the regulatory relationship between indole and csrA, we studied the effects of indole on the transcription level of csrA, flhDC, glgCAP and cstA, and also the sensing of the promoters of the genes on indole. It was found that indole inhibited the transcription of csrA, and only the promoter of the csrA gene can sense indole. Namely, indole indirectly regulated the translation level of FlhDC, GlgCAP and CstA. These data indicates that indole regulation is related with the regulation of CsrA, which may throw light on the regulation mechanism research of indole.

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“…The oxidative stress resistance assay method was the same as previously described (Zheng et al, 2019). Bacterial cells were cultivated in LB liquid medium supplemented with, or without, indole (final concentration 0.5 mM) for 24 h. And then H 2 O 2 were added (final concentration 1 mM, 10 mM and 100 mM) and further cultivated for 4 h. The cells were harvested for bacterial counting (colony forming units, CFU) on LB plates.…”

Section: Survival Assays Of Bacteria Under Oxidative Stress and Sulfu...mentioning

confidence: 99%

The cytidine repressor regulates the survival of Pantoea agglomerans YS19 under oxidative stress and sulfur starvation conditions

Jia

Feng

2021

J. Gen. Appl. Microbiol.

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Pantoea agglomerans YS19 is a dominant endophytic bacterium isolated from rice, which is capable of promoting host plant growth by nitrogenfixing and phytohormone secreting. We previously found that the cytidine repressor (CytR) protein conducts the regulation of indole signal in YS19. Here, we compared the whole-cell protein of the wild type YS19 and the ∆ ∆ ∆ ∆ ∆cytR mutant and subsequently identified one differential protein as alkyl hydroperoxide reductase subunit C related to oxidative stress and sulfur starvation tolerance. It was tested that cytR had a positive effect on the survival of YS19 under the oxidative stress and sulfur starvation conditions and this effect was inhibited by indole. To further understand the functional mode of indole in this regulation, we cloned the cytR promoter region (P cytR ) of YS19 and tested the effect of indole on P cytR using gfp as a reporter gene. It was found that P cytR can sense indole and significantly inhibit the expression of the downstream gene. This study provided a deeper understanding of the multiple function of cytR and expanded a new research direction of how indole participates in gene regulation.

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Extracellular DNA enhances the formation and stability of symplasmata in <i>Pantoea agglomerans</i> YS19

Cited by 5 publications

References 34 publications

Whole genome sequencing and characterization of Pantoea agglomerans DBM 3797, endophyte, isolated from fresh hop (Humulus lupulus L.)

Whole genome sequencing and characterization of Pantoea agglomerans DBM 3797, endophyte, isolated from fresh hop (Humulus lupulus L.)

Indole inhibited the expression of <i>csrA</i> gene in <i>Escherichia coli</i>

The cytidine repressor regulates the survival of <i>Pantoea agglomerans</i> YS19 under oxidative stress and sulfur starvation conditions

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