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The genome of the versatile nitrogen fixer Azorhizobium caulinodans ORS571

Kyung-Bum Lee, Philippe De Backer UGent, Toshihiro Aono, Chi-Te Liu, Shino Suzuki, Tadahiro Suzuki, Takakazu Kaneko, Manabu Yamada, Satoshi Tabata and Doris M Kupfer, et al. (2008) BMC GENOMICS. 9.
abstract
Background: Biological nitrogen fixation is a prokaryotic process that plays an essential role in the global nitrogen cycle. Azorhizobium caulinodans ORS571 has the dual capacity to fix nitrogen both as free-living organism and in a symbiotic interaction with Sesbania rostrata. The host is a fast-growing, submergence-tolerant tropical legume on which A. caulinodans can efficiently induce nodule formation on the root system and on adventitious rootlets located on the stem. Results: The 5.37-Mb genome consists of a single circular chromosome with an overall average GC of 67% and numerous islands with varying GC contents. Most nodulation functions as well as a putative type-IV secretion system are found in a distinct symbiosis region. The genome contains a plethora of regulatory and transporter genes and many functions possibly involved in contacting a host. It potentially encodes 4717 proteins of which 96.3% have homologs and 3.7% are unique for A. caulinodans. Phylogenetic analyses show that the diazotroph Xanthobacter autotrophicus is the closest relative among the sequenced genomes, but the synteny between both genomes is very poor. Conclusion: The genome analysis reveals that A. caulinodans is a diazotroph that acquired the capacity to nodulate most probably through horizontal gene transfer of a complex symbiosis island. The genome contains numerous genes that reflect a strong adaptive and metabolic potential. These combined features and the availability of the annotated genome make A. caulinodans an attractive organism to explore symbiotic biological nitrogen fixation beyond leguminous plants.
Please use this url to cite or link to this publication:
author
organization
year
type
journalArticle (original)
publication status
published
subject
keyword
PHASEOLUS-VULGARIS, TERMINAL OXIDASES, MAXIMUM-LIKELIHOOD, PHYLOGENETIC RELATIONSHIP, MYCOBACTERIUM-TUBERCULOSIS, NOD FACTORS, WETLAND RICE, BRADYRHIZOBIUM-JAPONICUM, LEGUME SESBANIA-ROSTRATA, COMMON NODULATION GENES
journal title
BMC GENOMICS
BMC Genomics
volume
9
article_number
271
pages
14 pages
Web of Science type
Article
Web of Science id
000257356100001
JCR category
BIOTECHNOLOGY & APPLIED MICROBIOLOGY
JCR impact factor
3.926 (2008)
JCR rank
26/144 (2008)
JCR quartile
1 (2008)
ISSN
1471-2164
DOI
10.1186/1471-2164-9-271
language
English
UGent publication?
yes
classification
A1
copyright statement
I have retained and own the full copyright for this publication
id
436414
handle
http://hdl.handle.net/1854/LU-436414
date created
2008-11-04 19:57:00
date last changed
2013-10-11 14:28:19
@article{436414,
  abstract     = {Background: Biological nitrogen fixation is a prokaryotic process that plays an essential role in the global nitrogen cycle. Azorhizobium caulinodans ORS571 has the dual capacity to fix nitrogen both as free-living organism and in a symbiotic interaction with Sesbania rostrata. The host is a fast-growing, submergence-tolerant tropical legume on which A. caulinodans can efficiently induce nodule formation on the root system and on adventitious rootlets located on the stem. 
Results: The 5.37-Mb genome consists of a single circular chromosome with an overall average GC of 67\% and numerous islands with varying GC contents. Most nodulation functions as well as a putative type-IV secretion system are found in a distinct symbiosis region. The genome contains a plethora of regulatory and transporter genes and many functions possibly involved in contacting a host. It potentially encodes 4717 proteins of which 96.3\% have homologs and 3.7\% are unique for A. caulinodans. Phylogenetic analyses show that the diazotroph Xanthobacter autotrophicus is the closest relative among the sequenced genomes, but the synteny between both genomes is very poor. 
Conclusion: The genome analysis reveals that A. caulinodans is a diazotroph that acquired the capacity to nodulate most probably through horizontal gene transfer of a complex symbiosis island. The genome contains numerous genes that reflect a strong adaptive and metabolic potential. These combined features and the availability of the annotated genome make A. caulinodans an attractive organism to explore symbiotic biological nitrogen fixation beyond leguminous plants.},
  articleno    = {271},
  author       = {Lee, Kyung-Bum and De Backer, Philippe and Aono, Toshihiro and Liu, Chi-Te and Suzuki, Shino and Suzuki, Tadahiro and Kaneko, Takakazu and Yamada, Manabu and Tabata, Satoshi and Kupfer, Doris M and Najar, Fares Z and Wiley, Graham B and Roe, Bruce and Binnewies, Tim T and Ussery, David W and D'Haeze, Wim and Den Herder, Jeroen and Gevers, Dirk and Vereecke, Danny and Holsters, Marcella and Oyaizu, Hiroshi},
  issn         = {1471-2164},
  journal      = {BMC GENOMICS},
  keyword      = {PHASEOLUS-VULGARIS,TERMINAL OXIDASES,MAXIMUM-LIKELIHOOD,PHYLOGENETIC RELATIONSHIP,MYCOBACTERIUM-TUBERCULOSIS,NOD FACTORS,WETLAND RICE,BRADYRHIZOBIUM-JAPONICUM,LEGUME SESBANIA-ROSTRATA,COMMON NODULATION GENES},
  language     = {eng},
  pages        = {14},
  title        = {The genome of the versatile nitrogen fixer Azorhizobium caulinodans ORS571},
  url          = {http://dx.doi.org/10.1186/1471-2164-9-271},
  volume       = {9},
  year         = {2008},
}

Chicago
Lee, Kyung-Bum, Philippe De Backer, Toshihiro Aono, Chi-Te Liu, Shino Suzuki, Tadahiro Suzuki, Takakazu Kaneko, et al. 2008. “The Genome of the Versatile Nitrogen Fixer Azorhizobium Caulinodans ORS571.” Bmc Genomics 9.
APA
Lee, K.-B., De Backer, P., Aono, T., Liu, C.-T., Suzuki, S., Suzuki, T., Kaneko, T., et al. (2008). The genome of the versatile nitrogen fixer Azorhizobium caulinodans ORS571. BMC GENOMICS, 9.
Vancouver
1.
Lee K-B, De Backer P, Aono T, Liu C-T, Suzuki S, Suzuki T, et al. The genome of the versatile nitrogen fixer Azorhizobium caulinodans ORS571. BMC GENOMICS. 2008;9.
MLA
Lee, Kyung-Bum, Philippe De Backer, Toshihiro Aono, et al. “The Genome of the Versatile Nitrogen Fixer Azorhizobium Caulinodans ORS571.” BMC GENOMICS 9 (2008): n. pag. Print.