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Screening for endophytic nitrogen-fixing bacteria in Brazilian sugar cane varieties used in organic farming and description of Stenotrophomonas pavanii sp. nov.

Patricia L Ramos, Stefanie Van Trappen UGent, Fabiano L Thompson, Rafael CS Rocha, Heloiza R Barbosa, Paul De Vos UGent and Carlos A Moreira-Filho (2011) INTERNATIONAL JOURNAL OF SYSTEMATIC AND EVOLUTIONARY MICROBIOLOGY. 61(4). p.926-931
abstract
In a study investigating the biodiversity of endophytic nitrogen-fixing bacteria in Brazilian sugarcane plants, 31 isolates were obtained from roots, stems and leaves. Nitrogen fixation capability was determined by the acetylene reduction assay (ARA) and the presence of the nifH gene sequence was detected by dot-blot hybridization. RFLP-PCR patterns and 16S rRNA gene sequence analysis revealed the presence of 11 different bacterial genera. One strain (ICB 89T), belonging to the genus Stenotrophomonas, was further investigated using a polyphasic taxonomic approach. Strain ICB 89T is a Gram-negative, rod-shaped, non-spore-forming and nitrogen-fixing bacterium and was isolated from stems of a Brazilian sugarcane variety widely used in organic farming. 16S rRNA gene sequence analysis and DNA-DNA hybridizations revealed that strain ICB 89T is genotypically different from the closest related Stenotrophomonas species, namely S. maltophilia, S. rhizophila and S. nitritireducens. Chemotaxonomic data and biochemical characteristics allow the differentiation of strain ICB 89T from its phylogenetically nearest neighbours. Strain ICB 89T therefore represents a new species, for which the name Stenotrophomonas pavanii sp. nov. is proposed, with the type strain ICB 89T (CBMAI 564T = LMG 25348T).
Please use this url to cite or link to this publication:
author
organization
year
type
journalArticle (original)
publication status
published
subject
keyword
nitrogen-fixing endophytic bacteria, 16S rRNA gene sequence analysis, Stenotrophomonas, sugarcane organic farming
journal title
INTERNATIONAL JOURNAL OF SYSTEMATIC AND EVOLUTIONARY MICROBIOLOGY
Int. J. Syst. Evol. Microbiol.
volume
61
issue
4
pages
926 - 931
Web of Science type
Article
Web of Science id
000290135000039
JCR category
MICROBIOLOGY
JCR impact factor
2.268 (2011)
JCR rank
63/111 (2011)
JCR quartile
3 (2011)
ISSN
1466-5026
DOI
10.1099/ijs.0.019372-0
language
English
UGent publication?
yes
classification
A1
copyright statement
I have transferred the copyright for this publication to the publisher
id
1105297
handle
http://hdl.handle.net/1854/LU-1105297
date created
2011-01-20 09:00:48
date last changed
2012-05-03 14:29:13
@article{1105297,
  abstract     = {In a study investigating the biodiversity of endophytic nitrogen-fixing bacteria in Brazilian sugarcane plants, 31 isolates were obtained from roots, stems and leaves. Nitrogen fixation capability was determined by the acetylene reduction assay (ARA) and the presence of the nifH gene sequence was detected by dot-blot hybridization. RFLP-PCR patterns and 16S rRNA gene sequence analysis revealed the presence of 11 different bacterial genera. One strain (ICB 89T), belonging to the genus Stenotrophomonas, was further investigated using a polyphasic taxonomic approach. Strain ICB 89T is a Gram-negative, rod-shaped, non-spore-forming and nitrogen-fixing bacterium and was isolated from stems of a Brazilian sugarcane variety widely used in organic farming. 16S rRNA gene sequence analysis and DNA-DNA hybridizations revealed that strain ICB 89T is genotypically different from the closest related Stenotrophomonas species, namely S. maltophilia, S. rhizophila and S. nitritireducens. Chemotaxonomic data and biochemical characteristics allow the differentiation of strain ICB 89T from its phylogenetically nearest neighbours. Strain ICB 89T therefore represents a new species, for which the name Stenotrophomonas pavanii sp. nov. is proposed, with the type strain ICB 89T (CBMAI 564T = LMG 25348T).},
  author       = {Ramos, Patricia L and Van Trappen, Stefanie and Thompson, Fabiano L and Rocha, Rafael CS and Barbosa, Heloiza R and De Vos, Paul and Moreira-Filho, Carlos A},
  issn         = {1466-5026},
  journal      = {INTERNATIONAL JOURNAL OF SYSTEMATIC AND EVOLUTIONARY MICROBIOLOGY},
  keyword      = {nitrogen-fixing endophytic bacteria,16S rRNA gene sequence analysis,Stenotrophomonas,sugarcane organic farming},
  language     = {eng},
  number       = {4},
  pages        = {926--931},
  title        = {Screening for endophytic nitrogen-fixing bacteria in Brazilian sugar cane varieties used in organic farming and description of Stenotrophomonas pavanii sp. nov.},
  url          = {http://dx.doi.org/10.1099/ijs.0.019372-0},
  volume       = {61},
  year         = {2011},
}

Chicago
Ramos, Patricia L, Stefanie Van Trappen, Fabiano L Thompson, Rafael CS Rocha, Heloiza R Barbosa, Paul De Vos, and Carlos A Moreira-Filho. 2011. “Screening for Endophytic Nitrogen-fixing Bacteria in Brazilian Sugar Cane Varieties Used in Organic Farming and Description of Stenotrophomonas Pavanii Sp. Nov.” International Journal of Systematic and Evolutionary Microbiology 61 (4): 926–931.
APA
Ramos, P. L., Van Trappen, S., Thompson, F. L., Rocha, R. C., Barbosa, H. R., De Vos, P., & Moreira-Filho, C. A. (2011). Screening for endophytic nitrogen-fixing bacteria in Brazilian sugar cane varieties used in organic farming and description of Stenotrophomonas pavanii sp. nov. INTERNATIONAL JOURNAL OF SYSTEMATIC AND EVOLUTIONARY MICROBIOLOGY, 61(4), 926–931.
Vancouver
1.
Ramos PL, Van Trappen S, Thompson FL, Rocha RC, Barbosa HR, De Vos P, et al. Screening for endophytic nitrogen-fixing bacteria in Brazilian sugar cane varieties used in organic farming and description of Stenotrophomonas pavanii sp. nov. INTERNATIONAL JOURNAL OF SYSTEMATIC AND EVOLUTIONARY MICROBIOLOGY. 2011;61(4):926–31.
MLA
Ramos, Patricia L, Stefanie Van Trappen, Fabiano L Thompson, et al. “Screening for Endophytic Nitrogen-fixing Bacteria in Brazilian Sugar Cane Varieties Used in Organic Farming and Description of Stenotrophomonas Pavanii Sp. Nov.” INTERNATIONAL JOURNAL OF SYSTEMATIC AND EVOLUTIONARY MICROBIOLOGY 61.4 (2011): 926–931. Print.