Genome sequence of Ensifer meliloti strain WSM1022; a highly effective microsymbiont of the model legume Medicago truncatula A17
Abstract
Ensifer meliloti WSM1022 is an aerobic, motile, Gram-negative, non-spore-forming rod that can exist as a soil saprophyte or as a legume microsymbiont of Medicago. WSM1022 was isolated in 1987 from a nodule recovered from the roots of the annual Medicago orbicularis growing on the Cyclades Island of Naxos in Greece. WSM1022 is highly effective at fixing nitrogen with M. truncatula and other annual species such as M. tornata and M. littoralis and is also highly effective with the perennial M. sativa (alfalfa or lucerne). In common with other characterized E. meliloti strains, WSM1022 will nodulate but fixes poorly with M. polymorpha and M. sphaerocarpos and does not nodulate M. murex. Here we describe the features of E. meliloti WSM1022, together with genome sequence information and its annotation. The 6,649,661 bp high-quality-draft genome is arranged into 121 scaffolds of 125 contigs containing 6,323 protein-coding genes and 75 RNA-only encoding genes, and is one of 100 rhizobial genomes sequenced as part of the DOE Joint Genome Institute 2010 Genomic Encyclopedia for Bacteria and Archaea-Root Nodule Bacteria (GEBA-RNB) project.
- Authors:
-
- Murdoch Univ., WA (Australia). Centre for Rhizobium Studies
- Deakin Univ., Victoria (Australia). School of Life and Environmental Sciences
- Los Alamos National Lab. (LANL), Los Alamos, NM (United States). Biosciences Division
- USDOE Joint Genome Institute (JGI), Walnut Creek, CA (United States)
- Lawrence Berkeley National Lab. (LBNL), Berkeley, CA (United States). Biological Data Management and Technology Center
- Los Alamos National Lab. (LANL), Los Alamos, NM (United States). Bioscience Division
- Publication Date:
- Research Org.:
- Los Alamos National Laboratory (LANL), Los Alamos, NM (United States); Lawrence Berkeley National Laboratory (LBNL), Berkeley, CA (United States); Lawrence Livermore National Laboratory (LLNL), Livermore, CA (United States)
- Sponsoring Org.:
- USDOE Office of Science (SC), Biological and Environmental Research (BER). Biological Systems Science Division
- OSTI Identifier:
- 1628682
- Grant/Contract Number:
- AC52-06NA25396; AC02-05CH11231; AC52-07NA27344
- Resource Type:
- Accepted Manuscript
- Journal Name:
- Standards in Genomic Sciences
- Additional Journal Information:
- Journal Volume: 9; Journal Issue: 2; Journal ID: ISSN 1944-3277
- Publisher:
- BioMed Central
- Country of Publication:
- United States
- Language:
- English
- Subject:
- 59 BASIC BIOLOGICAL SCIENCES; Genetics & Heredity; Microbiology; root-nodule bacteria; nitrogen fixation; rhizobia; Alphaproteobacteria
Citation Formats
Terpolilli, Jason, Hill, Yvette, Tian, Rui, Howieson, John, Bräu, Lambert, Goodwin, Lynne, Han, James, Liolios, Konstantinos, Huntemann, Marcel, Pati, Amrita, Woyke, Tanja, Mavromatis, Konstantinos, Markowitz, Victor, Ivanova, Natalia, Kyrpides, Nikos, and Reeve, Wayne. Genome sequence of Ensifer meliloti strain WSM1022; a highly effective microsymbiont of the model legume Medicago truncatula A17. United States: N. p., 2013.
Web. doi:10.4056/sigs.4608286.
Terpolilli, Jason, Hill, Yvette, Tian, Rui, Howieson, John, Bräu, Lambert, Goodwin, Lynne, Han, James, Liolios, Konstantinos, Huntemann, Marcel, Pati, Amrita, Woyke, Tanja, Mavromatis, Konstantinos, Markowitz, Victor, Ivanova, Natalia, Kyrpides, Nikos, & Reeve, Wayne. Genome sequence of Ensifer meliloti strain WSM1022; a highly effective microsymbiont of the model legume Medicago truncatula A17. United States. https://doi.org/10.4056/sigs.4608286
Terpolilli, Jason, Hill, Yvette, Tian, Rui, Howieson, John, Bräu, Lambert, Goodwin, Lynne, Han, James, Liolios, Konstantinos, Huntemann, Marcel, Pati, Amrita, Woyke, Tanja, Mavromatis, Konstantinos, Markowitz, Victor, Ivanova, Natalia, Kyrpides, Nikos, and Reeve, Wayne. Sun .
"Genome sequence of Ensifer meliloti strain WSM1022; a highly effective microsymbiont of the model legume Medicago truncatula A17". United States. https://doi.org/10.4056/sigs.4608286. https://www.osti.gov/servlets/purl/1628682.
@article{osti_1628682,
title = {Genome sequence of Ensifer meliloti strain WSM1022; a highly effective microsymbiont of the model legume Medicago truncatula A17},
author = {Terpolilli, Jason and Hill, Yvette and Tian, Rui and Howieson, John and Bräu, Lambert and Goodwin, Lynne and Han, James and Liolios, Konstantinos and Huntemann, Marcel and Pati, Amrita and Woyke, Tanja and Mavromatis, Konstantinos and Markowitz, Victor and Ivanova, Natalia and Kyrpides, Nikos and Reeve, Wayne},
abstractNote = {Ensifer meliloti WSM1022 is an aerobic, motile, Gram-negative, non-spore-forming rod that can exist as a soil saprophyte or as a legume microsymbiont of Medicago. WSM1022 was isolated in 1987 from a nodule recovered from the roots of the annual Medicago orbicularis growing on the Cyclades Island of Naxos in Greece. WSM1022 is highly effective at fixing nitrogen with M. truncatula and other annual species such as M. tornata and M. littoralis and is also highly effective with the perennial M. sativa (alfalfa or lucerne). In common with other characterized E. meliloti strains, WSM1022 will nodulate but fixes poorly with M. polymorpha and M. sphaerocarpos and does not nodulate M. murex. Here we describe the features of E. meliloti WSM1022, together with genome sequence information and its annotation. The 6,649,661 bp high-quality-draft genome is arranged into 121 scaffolds of 125 contigs containing 6,323 protein-coding genes and 75 RNA-only encoding genes, and is one of 100 rhizobial genomes sequenced as part of the DOE Joint Genome Institute 2010 Genomic Encyclopedia for Bacteria and Archaea-Root Nodule Bacteria (GEBA-RNB) project.},
doi = {10.4056/sigs.4608286},
journal = {Standards in Genomic Sciences},
number = 2,
volume = 9,
place = {United States},
year = {Sun Dec 15 00:00:00 EST 2013},
month = {Sun Dec 15 00:00:00 EST 2013}
}
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Towards a natural system of organisms: proposal for the domains Archaea, Bacteria, and Eucarya.
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- Proceedings of the National Academy of Sciences, Vol. 87, Issue 12
IMG ER: a system for microbial genome annotation expert review and curation
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tRNAscan-SE: A Program for Improved Detection of Transfer RNA Genes in Genomic Sequence
journal, March 1997
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SILVA: a comprehensive online resource for quality checked and aligned ribosomal RNA sequence data compatible with ARB
journal, November 2007
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The Genomes On Line Database (GOLD) in 2007: status of genomic and metagenomic projects and their associated metadata
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- Nucleic Acids Research, Vol. 36, Issue Database
Approved Lists of Bacterial Names
journal, January 1980
- Sneath, P. H. A.; McGOWAN, Vicki; Skerman, V. B. D.
- International Journal of Systematic and Evolutionary Microbiology, Vol. 30, Issue 1
Ensifer adhaerens gen. nov., sp. nov.: A Bacterial Predator of Bacteria in Soil
journal, July 1982
- Casida, L. E.
- International Journal of Systematic Bacteriology, Vol. 32, Issue 3
R Factor Transfer in Rhizobium leguminosarum
journal, September 1974
- Beringer, J. E.
- Microbiology, Vol. 84, Issue 1
Constructs for insertional mutagenesis, transcriptional signal localization and gene regulation studies in root nodule and other bacteria
journal, June 1999
- Reeve, W. G.; Tiwari, R. P.; Worsley, P. S.
- Microbiology, Vol. 145, Issue 6
The genus name Ensifer Casida 1982 takes priority over Sinorhizobium Chen et al. 1988, and Sinorhizobium morelense Wang et al. 2002 is a later synonym of Ensifer adhaerens Casida 1982. Is the combination 'Sinorhizobium adhaerens' (Casida 1982) Willems et al. 2003 legitimate? Request for an Opinion
journal, November 2003
- Young, J. M.
- INTERNATIONAL JOURNAL OF SYSTEMATIC AND EVOLUTIONARY MICROBIOLOGY, Vol. 53, Issue 6
The model legume Medicago truncatula A17 is poorly matched for N 2 fixation with the sequenced microsymbiont Sinorhizobium meliloti 1021
journal, July 2008
- Terpolilli, Jason J.; O’Hara, Graham W.; Tiwari, Ravi P.
- New Phytologist, Vol. 179, Issue 1
Comparison of nucleotide diversity and symbiotic properties of Rhizobium meliloti populations from annual Medicago species
journal, February 1996
- Brunel, B.; Rome, S.; Ziani, R.
- FEMS Microbiology Ecology, Vol. 19, Issue 2
The Composite Genome of the Legume Symbiont Sinorhizobium meliloti
journal, July 2001
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- Science, Vol. 293, Issue 5530
Prodigal: prokaryotic gene recognition and translation initiation site identification
journal, March 2010
- Hyatt, Doug; Chen, Gwo-Liang; LoCascio, Philip F.
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Complete genome sequence of the Medicago microsymbiont Ensifer (Sinorhizobium) medicae strain WSM419
journal, January 2010
- Reeve, Wayne; Chain, Patrick; O’Hara, Graham
- Standards in Genomic Sciences, Vol. 2, Issue 1
The DOE-JGI Standard Operating Procedure for the Annotations of Microbial Genomes
journal, July 2009
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Works referencing / citing this record:
Drought-induced senescence of Medicago truncatula nodules involves serpin and ferritin to control proteolytic activity and iron levels
journal, July 2018
- Dhanushkodi, Ramadoss; Matthew, Cory; McManus, Michael T.
- New Phytologist, Vol. 220, Issue 1
Genome sequence of Ensifer medicae Di28; an effective N2-fixing microsymbiont of Medicago murex and M. polymorpha
journal, December 2014
- Garau, Giovanni; Terpolilli, Jason; Hill, Yvette
- Standards in Genomic Sciences, Vol. 9, Issue 1