Characterization of Gordonia sp. strain CC-NAPH129-6 capable of naphthalene degradation

Abstract

A naphthalene-degrading isolate able to utilize naphthalene as a sole carbon source was identified as Gordonia sp. CC-NAPH129-6. Here a detail characterization of the naphthalene catabolic genes present in this strain was conducted. In nar region four structural genes (narAa, narAb, narB, narC), two regulatory genes (narR1, narR2), a rubredoxin encoding gene (rub1) and a gene (orf7) with unknown function were obtained. When compared with most of the members within naphthalene-degrading Rhodococcus, these naphthalene catabolic genes in strain CC-NAPH129-6 were organized into an operon-like gene cluster and present in the same order. This naphthalene gene cluster located in a 97-kb small plasmid of strain CC-NAPH129-6, as can be seen from the PFGE and Southern blot hybridization data. Besides, a partial transposase sequence containing an IS element structure with 12-nt inverted repeat at both ends was found, which was flanked by direct repeats downstream the narC gene in strain CC-NAPH129-6. This novel transposase gene sequence was unlike to the transposase sequence found between narR2 and rub1 genes in Rhodococcus opacus R7. The comparative analyses of the naphthalene catabolic genes, 16S rRNA and gyrB gene present in strain CC-NAPH129-6 and naphthalene-degrading Rhodococcus species imply that the naphthalene catabolic genes in strain CC-NAPH129-6 might be horizontally transferred from Rhodococcus members. This is the first report demonstrating that naphthalene catabolic genes organized into an operon-like gene cluster in the genus Gordonia, and this might provide evidence of the importance of this actinobacterial lineage in the bioremediation of oil-contaminated soils.

From oil spills to barley growth – oil‐degrading soil bacteria and their promoting effects

“…Naphthalene was also a poor or no substrate for other alkane and oil degrading rodococci such as R. aetherivorans , R . erythropolis , R. fascians , R. opacus , and other unspecified strains of Rhodococcus as well as Gordonia alkanivorans , G. amarae , G. amicalis , G. hydrophobica , G. paraffinivorans and other unspecified gordoniae , whereas other strains of gordoniae and rodococci can utilize naphthalene as the sole carbon source . With these different results of naphthalene degradation of R .…”

“…The species G. terrae SBUG 2053 and R. erythropolis SBUG 2052 were not able to produce detectable naphthalene metabolites. Naphthalene was also a poor or no substrate for other alkane and oil degrading rodococci such as R. aetherivorans, R. erythropolis, R. fascians, R. opacus, and other unspecified strains of Rhodococcus as well as Gordonia alkanivorans, G. amarae, G. amicalis, G. hydrophobica, G. paraffinivorans and other unspecified gordoniae [88,93,125,126], whereas other strains of gordoniae and rodococci can utilize naphthalene as the sole carbon source [77,93,126]. With these different results of naphthalene degradation of R. erythropolis strains and the different results of pristane degradation of our R. erythropolis strains we show that the variation of the transformation capacity between different R. erythropolis strains is enormous suggesting that different biovars should be created.…”

Bacteremia due to Gordonia polyisoprenivorans: case report and review of literature

“…The results showed that the isolate had 99% matches with the type strains of G. polyisoprenivorans (strains W8130 and VH2), Gordonia bronchialis (strain DSM 43247), and Gordonia terrae (strain EY-T12). Sequencing of the gyrB genes was then performed according to a previous report [4]. The results showed that the gyrB gene of the isolate had 99.0% sequence identity with the gene sequence of the G. polyisoprenivorans strain, indicating that the isolate was G. polyisoprenivorans .…”

Studies on heterotrophic bacteria with special reference to Azospirillum from rhizosphere and root of different crops

“…Among heterotrophic bacteria, Azospirillum, the most important bacterium among all the nitrogen-fixer, fixes nitrogen in many monocotyledons including maize, rice, sugarcane, sorghum and forage grasses viz; Digitaria, Kallar grass and Brachiaria (Dobereiner et al, 1976;Baldani and Dobereiner, 1980;Baldani et al, 1996Baldani et al, , 1997Hartmann et al, 1995;Olivares et al, 1996;Krol, 1999;Reis Junior et al, 2003;Lin et al, 2012). A large number of power plants including world second largest and India's largest sponge iron and steel plant, with the production capacity of 23720 MW power per day, are situated at Raigarh with consumption of 20,000 t coal per day that emit huge quantity of pollutant(s) leading to extensive pollution of atmosphere as well as agricultural land.…”