A yellow-pigmented bacterial strain, designated LL02T, was isolated from hexachlorocyclohexane-contaminated soil from Spolana Neratovice, a former Czech producer of lindane. A neighbour-joining tree based on 16S rRNA gene sequences showed that strain LL02T occupied a distinct phylogenetic position in the genus Novosphingobium and showed the highest sequence similarity with Novosphingobium resinovorum NCIMB 8767T (98.59 %). DNA–DNA relatedness between strain LL02T and its closest phylogenetic neighbours was <70 %, which indicated that strain LL02T represented a novel species of the genus Novosphingobium. The DNA G+C content of strain LL02T was 67.72±0 mol%. The major respiratory quinone was ubiquinone Q-10. The polar lipid profile of the isolate corresponded to those reported for other members of the genus Novosphingobium (phosphatidylethanolamine, diphosphatidylglycerol, phosphatidylcholine, phosphatidylglycerol, phosphatidylmonomethylethanolamine and sphingoglycolipids), thus supporting its classification in the genus. Spermidine was the major polyamine. The major fatty acids were summed feature 3 (consisting of C16 : 1ω7c and/or C16 : 1ω6c; 40.13 %), summed feature 8 (consisting of C18 : 1ω7c and/or C18 : 1ω6c; 31.09 %) and C14 : 0 2-OH (23.16 %). The results obtained from DNA–DNA hybridization and biochemical and physiological tests clearly distinguished the isolate from its closest phylogenetic neighbours. Thus, strain LL02T represents a novel species of the genus Novosphingobium, for which the name Novosphingobium barchaimii sp. nov. is proposed. The type strain is LL02T ( = CCM 7980T = DSM 25411T).
Published Online:
Funding
This study was supported by the:
Department of Biotechnology (DBT), the National Bureau of Agriculturally Important Micro-organisms (NBAIM, ICAR)
DU/DST-PURSE
Government of India
Grant Agency of the Czech Republic
(Award P202/10/1435 and 203/08/0114)
Grant Agency of the Czech Academy of Sciences
(Award IAA401630901)
European Regional Development Fund
(Award CZ.1.05/1.1.00/02.0123 and CZ.1.05/2.1.00/01.0001)
AltschulS. F.,
MaddenT. L.,
SchäfferA. A.,
ZhangJ.,
ZhangZ.,
MillerW.,
LipmanD. J.(1997). Gapped blast and psi-blast: a new generation of protein database search programs. . Nucleic Acids Res25, 3389–3402. [View Article][PubMed]
Arden JonesM. P.,
McCarthyA. J.,
CrossT.(1979). Taxonomic and serologic studies on Micropolyspora faeni and Micropolyspora strains from soil bearing the specific epithet rectivirgula
. . J Gen Microbiol115, 343–354. [View Article][PubMed]
ChristensenW. B.(1946). Urea decomposition as a means of differentiating Proteus and para colon cultures from each other and from Salmonella and Shigella types. . J Bacteriol52, 461–466.
ChunJ.,
LeeJ.-H.,
JungY.,
KimM.,
KimS.,
KimB. K.,
LimY.-W.(2007). EzTaxon: a web-based tool for the identification of prokaryotes based on 16S ribosomal RNA gene sequences. . Int J Syst Evol Microbiol57, 2259–2261. [View Article][PubMed]
CollinsM. D.,
JonesD.(1980). Lipids in the classification and identification of coryneform bacteria containing peptidoglycan based on 2, 4-diamino butyric acid (DAB). . J Appl Bacteriol48, 459–470. [View Article]
GonzalezJ. M.,
Saiz-JimenezC.(2002). A fluorimetric method for the estimation of G+C mol% content in microorganisms by thermal denaturation temperature. . Environ Microbiol4, 770–773. [View Article][PubMed]
GordonR. E.,
BarnettD. A.,
HanderhanJ. E.,
PangC. H.-N.(1974).Nocardia coeliaca, Nocardia autotrophica, and Nocardia strain. . Int J Syst Bacteriol24, 54–63. [View Article]
JukesT.,
CantorC. R.(1969).Evolution of Protein Molecules in Mammalian Protein Metabolism, pp. 21–132. Edited by
MunroH. N.
. New York:: Academic Press;. [CrossRef]
KuykendallL. D.,
RoyM. A.,
O’NeillJ. J.,
DevineT. E.(1988). Fatty acids, antibiotic resistance and deoxyribonucleic acid homology groups of Bradyrhizobium japonicum
. . Int J Syst Evol Bacteriol38, 358–361. [View Article]
LimY. W.,
MoonE. Y.,
ChunJ.(2007). Reclassification of Flavobacterium resinovorum Delaporte and Daste 1956 as Novosphingobium resinovorum comb. nov., with Novosphingobium subarcticum (Nohynek et al. 1996) Takeuchi et al. 2001 as a later heterotypic synonym. . Int J Syst Evol Microbiol57, 1906–1908. [View Article][PubMed]
SmibertR. M.,
KriegN. R.(1994). Phenotypic characterization. . In Methods for General and Molecular Bacteriology, pp. 607–654. Edited by
GerhardtP.,
MurrayR. G. E.,
WoodW. A.,
KriegN. R.
. Washington, DC:: American Society for Microbiology;.
TakeuchiM.,
HamanaK.,
HiraishiA.(2001). Proposal of the genus Sphingomonassensu stricto and three new genera, Sphingobium, Novosphingobium and Sphingopyxis, on the basis of phylogenetic and chemotaxonomic analyses. . Int J Syst Evol Microbiol51, 1405–1417.[PubMed]
Van de PeerY.,
De WachterR.(1994).treecon for Windows: a software package for the construction and drawing of evolutionary trees for the Microsoft Windows environment. . Comput Appl Biosci10, 569–570.[PubMed]
WayneL. G.,
BrennerD. J.,
ColwellR. R.,
GrimontP. A. D.,
KandlerO.,
KrichevskyM. I.,
MooreL. H.,
MooreW. E. C.,
MurrayR. G. E.& other authors (1987). International Committee on Systematic Bacteriology. Report of the ad hoc committee on reconciliation of approaches to bacterial systematics. . Int J Syst Bacteriol37, 463–464. [View Article]