Selection and development of aptamers for pyoverdine

Anisuzzaman, Sharif; Banerjee, Soma; Jiang, Nianyu; Shrotriya, Pranav; Nilsen‐Hamilton, Marit

doi:10.1096/fasebj.2022.36.s1.l7887

Title: Selection and development of aptamers for pyoverdine

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Abstract

The rhizosphere is a small region surrounding plant roots that is enriched in biochemicals from root exudates and populated with fungi, nematode, and bacteria. Interaction of rhizosphere organisms with plants is mainly promoted by exudates from the roots. Root exudates contain biochemicals that come from primary and secondary metabolisms of plants. These biochemicals attract microbes, which influence plant nutrition. The rhizosphere bacteria (microbiome) are vital to plant nutrient uptake and influence biotic and abiotic stress and pathogenesis. Pseudomonas is a genus of gammaproteobacteria known for its ubiquitous presence in natural habitats and its striking ecological, metabolic, and biochemical diversity. Within the genus, members of the Pseudomonas fluorescens group are common inhabitants of soil and plant surfaces, and certain strains function in the biological control of plant disease, protecting plants from infection by soilborne and aerial plant pathogens. The soil bacterium Pseudomonas protegens Pf‐5 (also known as Pseudomonas fluorescens Pf‐5) is a well‐characterized biological strain, which is distinguished by its prolific production of the secondary metabolite, pyoverdine. Knowledge of the distribution of P. fluorescens secretory activity around plant roots is very important for understanding the interaction between P. fluorescens and plants and can be achieved by real time tracking of pyoverdine.more »« less

Authors:

Anisuzzaman, Sharif ^[1]; Banerjee, Soma ^[2]; Jiang, Nianyu ^[2]; Shrotriya, Pranav ^[2]; Nilsen‐Hamilton, Marit ^[1]

Iowa State University, Ames, IA (United States)
Ames Laboratory, and Iowa State University, Ames, IA (United States)

Publication Date:: Fri May 13 00:00:00 EDT 2022

Research Org.:: Ames Laboratory (AMES), Ames, IA (United States)

Sponsoring Org.:: USDOE Office of Science (SC), Biological and Environmental Research (BER)

OSTI Identifier:: 1907156

Alternate Identifier(s):: OSTI ID: 1867722

Report Number(s):: IS-J-10,811
Journal ID: ISSN 0892-6638

Grant/Contract Number:: AC02-07CH11358

Resource Type:: Accepted Manuscript

Journal Name:: FASEB Journal

Additional Journal Information:: Journal Volume: 36; Journal Issue: 1; Journal ID: ISSN 0892-6638

Publisher:: Federation of American Societies for Experimental Biology

Country of Publication:: United States

Language:: English

Subject:: 59 BASIC BIOLOGICAL SCIENCES

Citation Formats


                    Anisuzzaman, Sharif, Banerjee, Soma, Jiang, Nianyu, Shrotriya, Pranav, and Nilsen‐Hamilton, Marit. Selection and development of aptamers for pyoverdine.  United States: N. p., 2022. 
Web.  doi:10.1096/fasebj.2022.36.s1.l7887.

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                    Anisuzzaman, Sharif, Banerjee, Soma, Jiang, Nianyu, Shrotriya, Pranav, & Nilsen‐Hamilton, Marit. Selection and development of aptamers for pyoverdine.  United States.  https://doi.org/10.1096/fasebj.2022.36.s1.l7887

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                    Anisuzzaman, Sharif, Banerjee, Soma, Jiang, Nianyu, Shrotriya, Pranav, and Nilsen‐Hamilton, Marit. Fri .  
"Selection and development of aptamers for pyoverdine".  United States.  https://doi.org/10.1096/fasebj.2022.36.s1.l7887.  https://www.osti.gov/servlets/purl/1907156.

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@article{osti_1907156,

  title        = {Selection and development of aptamers for pyoverdine},

  author       = {Anisuzzaman, Sharif and Banerjee, Soma and Jiang, Nianyu and Shrotriya, Pranav and Nilsen‐Hamilton, Marit},

  abstractNote = {The rhizosphere is a small region surrounding plant roots that is enriched in biochemicals from root exudates and populated with fungi, nematode, and bacteria. Interaction of rhizosphere organisms with plants is mainly promoted by exudates from the roots. Root exudates contain biochemicals that come from primary and secondary metabolisms of plants. These biochemicals attract microbes, which influence plant nutrition. The rhizosphere bacteria (microbiome) are vital to plant nutrient uptake and influence biotic and abiotic stress and pathogenesis. Pseudomonas is a genus of gammaproteobacteria known for its ubiquitous presence in natural habitats and its striking ecological, metabolic, and biochemical diversity. Within the genus, members of the Pseudomonas fluorescens group are common inhabitants of soil and plant surfaces, and certain strains function in the biological control of plant disease, protecting plants from infection by soilborne and aerial plant pathogens. The soil bacterium Pseudomonas protegens Pf‐5 (also known as Pseudomonas fluorescens Pf‐5) is a well‐characterized biological strain, which is distinguished by its prolific production of the secondary metabolite, pyoverdine. Knowledge of the distribution of P. fluorescens secretory activity around plant roots is very important for understanding the interaction between P. fluorescens and plants and can be achieved by real time tracking of pyoverdine. To achieve the capability of real‐time tracking in soil, we have used a structure‐switching SELEX strategy to select high affinity ssDNA and 2’ F‐Y‐RNA aptamers with specificity for pyoverdine over other siderophores. Pyoverdines from various strains possess a conserved chromophore along with strain‐specific peptide chain. Some of the isolated aptamers bind to chromophore of pyoverdine. These will identify pyoverdines from a variety of pseudomonads. Identification of aptamers that selectively bind the peptide portion of pyoverdine Pf‐5 is underway. The identified aptamers that are broadly and narrowly specific for pyoverdines or Pf‐5 will be optimized for integration into an electrochemical biosensor to track, in real time, P fluorescens activity and other pseudomonads in and around the rhizosphere.},

  doi          = {10.1096/fasebj.2022.36.s1.l7887},

  journal      = {FASEB Journal},

  number       = 1,

  volume       = 36,

  place        = {United States},

  year         = {Fri May 13 00:00:00 EDT 2022},

  month        = {Fri May 13 00:00:00 EDT 2022}

}

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