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Title: High-quality permanent draft genome sequence of the Mimosa asperata - nodulating Cupriavidus sp. strain AMP6

Abstract

© 2015 De Meyer et al. Cupriavidus sp. strain AMP6 is an aerobic, motile, Gram-negative, non-spore-forming rod that was isolated from a root nodule of Mimosa asperata collected in Santa Ana National Wildlife Refuge, Texas, in 2005. Mimosa asperata is the only legume described so far to exclusively associates with Cupriavidus symbionts. Moreover, strain AMP6 represents an early-diverging lineage within the symbiotic Cupriavidus group and has the capacity to develop an effective nitrogen-fixing symbiosis with three other species of Mimosa. Therefore, the genome of Cupriavidus sp. strain AMP6 enables comparative analyses of symbiotic trait evolution in this genus and here we describe the general features, together with sequence and annotation. The 7,579,563 bp high-quality permanent draft genome is arranged in 260 scaffolds of 262 contigs, contains 7,033 protein-coding genes and 97 RNA-only encoding genes, and is part of the GEBA-RNB project proposal.

Authors:
 [1];  [2];  [3];  [1];  [4];  [4];  [5];  [4];  [4];  [4];  [4];  [1];  [1]
  1. Murdoch Univ. (Western Australia)
  2. Binghamton Univ., NY (United States)
  3. BARC-West USDA ARS, Beltsville, MD (United States)
  4. DOE Joint Genome Inst., Walnut Creek, CA (United States)
  5. Lawrence Berkeley National Lab. (LBNL), Berkeley, CA (United States)
Publication Date:
Research Org.:
Lawrence Berkeley National Laboratory (LBNL), Berkeley, CA (United States)
Sponsoring Org.:
USDOE Office of Science (SC), Biological and Environmental Research (BER)
OSTI Identifier:
1256939
Alternate Identifier(s):
OSTI ID: 1378595
Grant/Contract Number:  
AC02-05CH11231; AC52-07NA27344; AC02-06NA25396
Resource Type:
Accepted Manuscript
Journal Name:
Standards in Genomic Sciences
Additional Journal Information:
Journal Volume: 10; Journal Issue: 1; Journal ID: ISSN 1944-3277
Publisher:
BioMed Central
Country of Publication:
United States
Language:
English
Subject:
59 BASIC BIOLOGICAL SCIENCES; Root-nodule bacteria; Nitrogen fixation; Betaproteobacteria; Texas; Mimosa asperata; GEBA-RNB

Citation Formats

De Meyer, Sofie E., Parker, Matthew, Van Berkum, Peter, Tian, Rui, Seshadri, Rekha, Reddy, T. B. K., Markowitz, Victor, Ivanova, Natalia, Pati, Amrita, Woyke, Tanja, Kyrpides, Nikos, Howieson, John, and Reeve, Wayne. High-quality permanent draft genome sequence of the Mimosa asperata - nodulating Cupriavidus sp. strain AMP6. United States: N. p., 2015. Web. doi:10.1186/s40793-015-0074-1.
De Meyer, Sofie E., Parker, Matthew, Van Berkum, Peter, Tian, Rui, Seshadri, Rekha, Reddy, T. B. K., Markowitz, Victor, Ivanova, Natalia, Pati, Amrita, Woyke, Tanja, Kyrpides, Nikos, Howieson, John, & Reeve, Wayne. High-quality permanent draft genome sequence of the Mimosa asperata - nodulating Cupriavidus sp. strain AMP6. United States. https://doi.org/10.1186/s40793-015-0074-1
De Meyer, Sofie E., Parker, Matthew, Van Berkum, Peter, Tian, Rui, Seshadri, Rekha, Reddy, T. B. K., Markowitz, Victor, Ivanova, Natalia, Pati, Amrita, Woyke, Tanja, Kyrpides, Nikos, Howieson, John, and Reeve, Wayne. Fri . "High-quality permanent draft genome sequence of the Mimosa asperata - nodulating Cupriavidus sp. strain AMP6". United States. https://doi.org/10.1186/s40793-015-0074-1. https://www.osti.gov/servlets/purl/1256939.
@article{osti_1256939,
title = {High-quality permanent draft genome sequence of the Mimosa asperata - nodulating Cupriavidus sp. strain AMP6},
author = {De Meyer, Sofie E. and Parker, Matthew and Van Berkum, Peter and Tian, Rui and Seshadri, Rekha and Reddy, T. B. K. and Markowitz, Victor and Ivanova, Natalia and Pati, Amrita and Woyke, Tanja and Kyrpides, Nikos and Howieson, John and Reeve, Wayne},
abstractNote = {© 2015 De Meyer et al. Cupriavidus sp. strain AMP6 is an aerobic, motile, Gram-negative, non-spore-forming rod that was isolated from a root nodule of Mimosa asperata collected in Santa Ana National Wildlife Refuge, Texas, in 2005. Mimosa asperata is the only legume described so far to exclusively associates with Cupriavidus symbionts. Moreover, strain AMP6 represents an early-diverging lineage within the symbiotic Cupriavidus group and has the capacity to develop an effective nitrogen-fixing symbiosis with three other species of Mimosa. Therefore, the genome of Cupriavidus sp. strain AMP6 enables comparative analyses of symbiotic trait evolution in this genus and here we describe the general features, together with sequence and annotation. The 7,579,563 bp high-quality permanent draft genome is arranged in 260 scaffolds of 262 contigs, contains 7,033 protein-coding genes and 97 RNA-only encoding genes, and is part of the GEBA-RNB project proposal.},
doi = {10.1186/s40793-015-0074-1},
journal = {Standards in Genomic Sciences},
number = 1,
volume = 10,
place = {United States},
year = {Fri Oct 16 00:00:00 EDT 2015},
month = {Fri Oct 16 00:00:00 EDT 2015}
}

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Works referencing / citing this record: