Complete Genome Sequence of the Novel Roseimicrobium sp. Strain ORNL1, a Verrucomicrobium Isolated from the Populus deltoides Rhizosphere

doi:https://doi.org/10.25982/56021.26/1637512

Title: Complete Genome Sequence of the Novel Roseimicrobium sp. Strain ORNL1, a Verrucomicrobium Isolated from the Populus deltoides Rhizosphere

Abstract

Roseimicrobium sp. strain ORNL1 is a soil bacterium that belongs to the phylum Verrucomicrobia and was isolated from the rhizosphere of a forest Eastern cottonwood tree, Populus deltoides, in Tennessee. Its 7.9-Mb chromosome was completely sequenced using PacBio long reads and is predicted to encode 6,288 proteins and 76 RNAs.

Authors:

^[1];

^[1]

Oak Ridge National Lab. (ORNL), Oak Ridge, TN (United States)

Publication Date:: 2020-07-07

Research Org.:: Oak Ridge National Laboratory (ORNL), Oak Ridge, TN (United States) U.S. Department of Energy Systems Biology Knowledgebase

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

OSTI Identifier:: 1637512

DOE Contract Number:: AC05-00OR22725

Resource Type:: Data

Resource Relation:: Related Information: Complete Genome Sequence of the Novel Roseimicrobium sp. Strain ORNL1, a Verrucomicrobium Isolated from the Populus deltoides Rhizosphere Mircea Podar, Joel Turner, Leah H. Burdick, Dale A. Pelletier Microbiology Resource Announcements Jul 2020, 9 (27) e00617-20; DOI: 10.1128/MRA.00617-20

Country of Publication:: United States

Language:: English

Subject:: 59 BASIC BIOLOGICAL SCIENCES; bioinformatics, genome, genome announcement

Citation Formats


                    Podar, Mircea, and Crockett, Zachary. Complete Genome Sequence of the Novel Roseimicrobium sp. Strain ORNL1, a Verrucomicrobium Isolated from the Populus deltoides Rhizosphere.  United States: N. p., 2020. 
        Web.  doi:10.25982/56021.26/1637512.

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                    Podar, Mircea, & Crockett, Zachary. Complete Genome Sequence of the Novel Roseimicrobium sp. Strain ORNL1, a Verrucomicrobium Isolated from the Populus deltoides Rhizosphere.  United States.  https://doi.org/10.25982/56021.26/1637512

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                    Podar, Mircea, and Crockett, Zachary. Tue .  
        "Complete Genome Sequence of the Novel Roseimicrobium sp. Strain ORNL1, a Verrucomicrobium Isolated from the Populus deltoides Rhizosphere".  United States.  https://doi.org/10.25982/56021.26/1637512.  https://www.osti.gov/servlets/purl/1637512.

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@article{osti_1637512,

  title        = {Complete Genome Sequence of the Novel Roseimicrobium sp. Strain ORNL1, a Verrucomicrobium Isolated from the Populus deltoides Rhizosphere},

  author       = {Podar, Mircea and Crockett, Zachary},

  abstractNote = {Roseimicrobium sp. strain ORNL1 is a soil bacterium that belongs to the phylum Verrucomicrobia and was isolated from the rhizosphere of a forest Eastern cottonwood tree, Populus deltoides, in Tennessee. Its 7.9-Mb chromosome was completely sequenced using PacBio long reads and is predicted to encode 6,288 proteins and 76 RNAs.},

  doi          = {10.25982/56021.26/1637512},

  url          = {https://www.osti.gov/biblio/1637512},
  journal      = {},
number       = ,

  volume       = ,

  place        = {United States},

  year         = {2020},

  month        = {7}

}

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https://doi.org/10.25982/56021.26/1637512

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Works referenced in this record:

The RAST Server: Rapid Annotations using Subsystems Technology
journal, January 2008

Aziz, Ramy K.; Bartels, Daniela; Best, Aaron A.
BMC Genomics, Vol. 9, Issue 1, Article No. 75
https://doi.org/10.1186/1471-2164-9-75

High-throughput generation, optimization and analysis of genome-scale metabolic models
journal, August 2010

Henry, Christopher S.; DeJongh, Matthew; Best, Aaron A.
Nature Biotechnology, Vol. 28, Issue 9
https://doi.org/10.1038/nbt.1672

Efficiently gap-filling reaction networks
journal, June 2014

Latendresse, Mario
BMC Bioinformatics, Vol. 15, Issue 1
https://doi.org/10.1186/1471-2105-15-225

Reconstruction and Validation of a Genome-Scale Metabolic Model for the Filamentous Fungus Neurospora crassa Using FARM
journal, July 2013

Dreyfuss, Jonathan M.; Zucker, Jeremy D.; Hood, Heather M.
PLoS Computational Biology, Vol. 9, Issue 7
https://doi.org/10.1371/journal.pcbi.1003126

RASTtk: A modular and extensible implementation of the RAST algorithm for building custom annotation pipelines and annotating batches of genomes
journal, February 2015

Brettin, Thomas; Davis, James J.; Disz, Terry
Scientific Reports, Vol. 5, Issue 1
https://doi.org/10.1038/srep08365

NCBI prokaryotic genome annotation pipeline
journal, June 2016

Tatusova, Tatiana; DiCuccio, Michael; Badretdin, Azat
Nucleic Acids Research, Vol. 44, Issue 14
https://doi.org/10.1093/nar/gkw569

The SEED and the Rapid Annotation of microbial genomes using Subsystems Technology (RAST)
journal, November 2013

Overbeek, Ross; Olson, Robert; Pusch, Gordon D.
Nucleic Acids Research, Vol. 42, Issue D1
https://doi.org/10.1093/nar/gkt1226

DNA–DNA hybridization values and their relationship to whole-genome sequence similarities
journal, January 2007

Klappenbach, Joel A.; Goris, Johan; Vandamme, Peter
International Journal of Systematic and Evolutionary Microbiology, Vol. 57, Issue 1
https://doi.org/10.1099/ijs.0.64483-0

Efficiently gap-filling reaction networks
journal, June 2014

Latendresse, Mario
BMC Bioinformatics, Vol. 15, Issue 1
https://doi.org/10.1186/1471-2105-15-225

Reconstruction and Validation of a Genome-Scale Metabolic Model for the Filamentous Fungus Neurospora crassa Using FARM
journal, July 2013

Dreyfuss, Jonathan M.; Zucker, Jeremy D.; Hood, Heather M.
PLoS Computational Biology, Vol. 9, Issue 7
https://doi.org/10.1371/journal.pcbi.1003126

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Complete Genome Sequence of the Novel Roseimicrobium sp. Strain ORNL1, a Verrucomicrobium Isolated from the Populus deltoides Rhizosphere

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Similar Records

Title: Complete Genome Sequence of the Novel Roseimicrobium sp. Strain ORNL1, a Verrucomicrobium Isolated from the Populus deltoides Rhizosphere

Abstract

Citation Formats

The RAST Server: Rapid Annotations using Subsystems Technology journal, January 2008

High-throughput generation, optimization and analysis of genome-scale metabolic models journal, August 2010

Efficiently gap-filling reaction networks journal, June 2014

Reconstruction and Validation of a Genome-Scale Metabolic Model for the Filamentous Fungus Neurospora crassa Using FARM journal, July 2013

RASTtk: A modular and extensible implementation of the RAST algorithm for building custom annotation pipelines and annotating batches of genomes journal, February 2015

NCBI prokaryotic genome annotation pipeline journal, June 2016

The SEED and the Rapid Annotation of microbial genomes using Subsystems Technology (RAST) journal, November 2013

DNA–DNA hybridization values and their relationship to whole-genome sequence similarities journal, January 2007

Efficiently gap-filling reaction networks journal, June 2014

Reconstruction and Validation of a Genome-Scale Metabolic Model for the Filamentous Fungus Neurospora crassa Using FARM journal, July 2013

The RAST Server: Rapid Annotations using Subsystems Technology
journal, January 2008

High-throughput generation, optimization and analysis of genome-scale metabolic models
journal, August 2010

Efficiently gap-filling reaction networks
journal, June 2014

Reconstruction and Validation of a Genome-Scale Metabolic Model for the Filamentous Fungus Neurospora crassa Using FARM
journal, July 2013

RASTtk: A modular and extensible implementation of the RAST algorithm for building custom annotation pipelines and annotating batches of genomes
journal, February 2015

NCBI prokaryotic genome annotation pipeline
journal, June 2016

The SEED and the Rapid Annotation of microbial genomes using Subsystems Technology (RAST)
journal, November 2013

DNA–DNA hybridization values and their relationship to whole-genome sequence similarities
journal, January 2007

Efficiently gap-filling reaction networks
journal, June 2014

Reconstruction and Validation of a Genome-Scale Metabolic Model for the Filamentous Fungus Neurospora crassa Using FARM
journal, July 2013