Dataset: Ruegeria pomeroyi RB-TnSeq Transponson Mutant Library Screen Experimental Data February 2021 (C-CoMP Marine Bacterial Transporters project)

Name: Ruegeria pomeroyi RB-TnSeq Transponson Mutant Library Screen Experimental Data February 2021 (C-CoMP Marine Bacterial Transporters project)
Published: 2023-04-05
Keywords: RB-TnSeq, gene fitness, transporters, metabolism, oceans

Final no updates expectedDOI: 10.26008/1912/bco-dmo.893256.1Version 1 (2023-04-05)Dataset Type:experimental

Principal Investigator: Mary Ann Moran (University of Georgia)

Co-Principal Investigator: Christopher R. Reisch (University of Florida)

Scientist: Catalina Mejia (University of Florida)

Scientist: Lidimarie Trujillo Rodriguez (University of Florida)

Student: William F. Schroer (University of Georgia)

Data Manager: Laura Gray (Woods Hole Oceanographic Institution)

BCO-DMO Data Manager: Sawyer Newman (Woods Hole Oceanographic Institution)

Program: Center for Chemical Currencies of a Microbial Planet (C-CoMP)

Project: Function and Importance of Marine Bacterial Transporters of Plankton Exometabolites (C-CoMP Marine Bacterial Transporters)

Abstract

A barcoded transposon mutant library (RB-TnSeq) of Ruegeria pomeroyi DSS-3 was screened on 23 substrates, each as a sole carbon source. In February of 2021 the RB-TnSeq library was grown in the laboratory in minimal medium with a substrate of interest, cultures were sequentially transfered four times to increase selection. Mutants with phenotypes that decreased fitness on the substrate of interest grow at a lower rate than mutants with no loss of fitness. Sequencing the barcodes of mutants after...

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Processing Notes from Researcher:

Sequence data were processed according to Wetmore et al (2015). Following quality control, an average of 35,090 unique barcodes mapped to insertions that fell within the interior 10 to 90% of R. pomeroyi coding sequences. In total, 55 million reads were mapped to insertions in 3,570 genes (out of 4,469 protein-encoding genes in the R. pomeroyi genome) with a median of 404,513 mapped reads per sample. Reads mapping to different insertion sites within the same coding sequence were pooled.

BCO-DMO Processing Notes:

Removed spaces and special characters from column header names (replaced with underscores "_")

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Results

Schroer, W. F., Kepner, H. E., Uchimiya, M., Mejia, C., Rodriguez, L. T., Reisch, C. R., & Moran, M. A. (2023). Function and Importance of Marine Bacterial Transporters of Plankton Exometabolites. https://doi.org/10.1101/2023.01.19.524783

Results

Schroer, W. F., Kepner, H. E., Uchimiya, M., Mejia, C., Rodriguez, L. T., Reisch, C. R., & Moran, M. A. (2023). Functional annotation and importance of marine bacterial transporters of plankton exometabolites. ISME Communications, 3(1). https://doi.org/10.1038/s43705-023-00244-6

Methods

Wetmore, K. M., Price, M. N., Waters, R. J., Lamson, J. S., He, J., Hoover, C. A., Blow, M. J., Bristow, J., Butland, G., Arkin, A. P., & Deutschbauer, A. (2015). Rapid Quantification of Mutant Fitness in Diverse Bacteria by Sequencing Randomly Bar-Coded Transposons. MBio, 6(3). https://doi.org/10.1128/mbio.00306-15

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Dataset: Ruegeria pomeroyi RB-TnSeq Transponson Mutant Library Screen Experimental Data February 2021 (C-CoMP Marine Bacterial Transporters project)

Final no updates expectedDOI: 10.26008/1912/bco-dmo.893256.1Version 1 (2023-04-05)Dataset Type:experimental

Principal Investigator: Mary Ann Moran (University of Georgia)

Co-Principal Investigator: Christopher R. Reisch (University of Florida)

Scientist: Catalina Mejia (University of Florida)

Scientist: Lidimarie Trujillo Rodriguez (University of Florida)

Student: William F. Schroer (University of Georgia)

Data Manager: Laura Gray (Woods Hole Oceanographic Institution)

BCO-DMO Data Manager: Sawyer Newman (Woods Hole Oceanographic Institution)

Program: Center for Chemical Currencies of a Microbial Planet (C-CoMP)

Project: Function and Importance of Marine Bacterial Transporters of Plankton Exometabolites (C-CoMP Marine Bacterial Transporters)

Abstract

Cite Dataset

XXX

Views

XX

Downloads

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Processing Notes from Researcher:

BCO-DMO Processing Notes:

Removed spaces and special characters from column header names (replaced with underscores "_")

Related Datasets

No Related Datasets

Related Publications

Results

Methods

Dataset: Ruegeria pomeroyi RB-TnSeq Transponson Mutant Library Screen Experimental Data February 2021 (C-CoMP Marine Bacterial Transporters project)

Principal Investigator: Mary Ann Moran (University of Georgia)

Co-Principal Investigator: Christopher R. Reisch (University of Florida)

Scientist: Catalina Mejia (University of Florida)

Scientist: Lidimarie Trujillo Rodriguez (University of Florida)

Student: William F. Schroer (University of Georgia)

Data Manager: Laura Gray (Woods Hole Oceanographic Institution)

BCO-DMO Data Manager: Sawyer Newman (Woods Hole Oceanographic Institution)

Program: Center for Chemical Currencies of a Microbial Planet (C-CoMP)

Project: Function and Importance of Marine Bacterial Transporters of Plankton Exometabolites (C-CoMP Marine Bacterial Transporters)

Abstract

XXX

XX

X

Files

Related Datasets

Related Publications

Dataset: Ruegeria pomeroyi RB-TnSeq Transponson Mutant Library Screen Experimental Data February 2021 (C-CoMP Marine Bacterial Transporters project)

Principal Investigator: Mary Ann Moran (University of Georgia)

Co-Principal Investigator: Christopher R. Reisch (University of Florida)

Scientist: Catalina Mejia (University of Florida)

Scientist: Lidimarie Trujillo Rodriguez (University of Florida)

Student: William F. Schroer (University of Georgia)

Data Manager: Laura Gray (Woods Hole Oceanographic Institution)

BCO-DMO Data Manager: Sawyer Newman (Woods Hole Oceanographic Institution)

Program: Center for Chemical Currencies of a Microbial Planet (C-CoMP)

Project: Function and Importance of Marine Bacterial Transporters of Plankton Exometabolites (C-CoMP Marine Bacterial Transporters)

Abstract

XXX

XX

X

Files

Related Datasets

Related Publications

Dataset: Ruegeria pomeroyi RB-TnSeq Transponson Mutant Library Screen Experimental Data February 2021 (C-CoMP Marine Bacterial Transporters project)

Principal Investigator: Mary Ann Moran (University of Georgia)

Co-Principal Investigator: Christopher R. Reisch (University of Florida)

Scientist: Catalina Mejia (University of Florida)

Scientist: Lidimarie Trujillo Rodriguez (University of Florida)

Student: William F. Schroer (University of Georgia)

Data Manager: Laura Gray (Woods Hole Oceanographic Institution)

BCO-DMO Data Manager: Sawyer Newman (Woods Hole Oceanographic Institution)

Program: Center for Chemical Currencies of a Microbial Planet (C-CoMP)

Project: Function and Importance of Marine Bacterial Transporters of Plankton Exometabolites (C-CoMP Marine Bacterial Transporters)

Abstract

Metadata

XXX

XX

X

Files

Related Datasets

Related Publications

Dataset: Ruegeria pomeroyi RB-TnSeq Transponson Mutant Library Screen Experimental Data February 2021 (C-CoMP Marine Bacterial Transporters project)

Principal Investigator: Mary Ann Moran (University of Georgia)

Co-Principal Investigator: Christopher R. Reisch (University of Florida)

Scientist: Catalina Mejia (University of Florida)

Scientist: Lidimarie Trujillo Rodriguez (University of Florida)

Student: William F. Schroer (University of Georgia)

Data Manager: Laura Gray (Woods Hole Oceanographic Institution)

BCO-DMO Data Manager: Sawyer Newman (Woods Hole Oceanographic Institution)

Program: Center for Chemical Currencies of a Microbial Planet (C-CoMP)

Project: Function and Importance of Marine Bacterial Transporters of Plankton Exometabolites (C-CoMP Marine Bacterial Transporters)

Abstract

Metadata

XXX

XX

X

Files

Related Datasets

Related Publications