Diversity of alkane hydroxylase genes on the rhizoplane of grasses planted in petroleum-contaminated soils

Tsuboi, Shun; Yamamura, Shigeki; Nakajima-Kambe, Toshiaki; Iwasaki, Kazuhiro

doi:10.1186/s40064-015-1312-0

SpringerPlus

Table 2 Distribution of representative AlkB and CYP153 sequences in each system

From: Diversity of alkane hydroxylase genes on the rhizoplane of grasses planted in petroleum-contaminated soils

	System(s)^{a, b}	Closest BLAST match	Range of % ID	Sources^c	Accession no.
alkB
OTU A1	b, c, d, e	Uncultured bacterium	95–99	Oil reservoir	AGW82865
		Uncultured bacterium	94–99	Soil	AID55555
		Uncultured soil bacterium	99	Pristine and hydrocarbon-contaminated soil	AGQ20909
		Caulobacter sp. K31	94	Chlorophenol-contaminated groundwater	YP001672212
OTU A2	a, c	Pseudoxanthomonas spadix BD-a59	96–100	Gasoline-contaminated soil	WP014160618
OTU A3	b, d, e	Nevskia soli	89–99	Soil	WP029919725
		Uncultured bacterium	89–94	Soil	CCO96572
		Uncultured bacterium	90	Soil	CCO96559
OTU A4	c	Nocardia sp. NRRL WC-3656	81–83		WP030513392
OTU A5	b, c, d, e	Mycobacterium tusciae	94–96	Granular activated carbon	WP014814636
		Mycobacterium rufum	93–94	Soil	KGI67335
		Mycobacterium chubuense NBB4	92	Estuarine sediment	ACZ65961
		Uncultured bacterium	92	Soil	AID23719
		Uncultured bacterium	93	Sandy soil	ACZ64758
OTU A7	a	Solimonas flava	95–96	Polluted farmland soil	WP028007262
OTU A7	a	Solimonas variicoloris	95–96	Hexane degrading biofilter	WP020647923
OTU A8	b	Uncultured bacterium	90–91	Sandy soil	ACZ64725
OTU A9	c, d	Uncultured bacterium	79–97	Sandy soil	ACZ64717
OTU A10	a, c, d	Uncultured bacterium	96–97	Soil	AID55553
OTU A11	e	Uncultured bacterium	79–80	Barley field soil	ABB90683
CYP153
OTU C1	a, b, d	Uncultured bacterium	95–96	Crude oil-contaminated soil	BAE47472
OTU C2	a, b, c, d, e	Parvibaculum lavamentivorans DS-1	89–100	Activated sludge	WP012110693
OTU C2	a, b, c, d, e	Parvibaculum lavamentivorans DS-1	98–99	Activated sludge	YP001413057
OTU C3	a, b, c, d, e	Uncultured Rhizobiales bacterium HF4000_48A13	96–99	Coastal water	ADI19696
OTU C3	a, b, c, d, e	Uncultured bacterium	94–97	Soil	CCO96903
OTU C4	a, b, c, d, e	Uncultured bacterium	83–85	Soil	CCO96723
OTU C5	c, e	Aeromicrobium marinum	88–90	Sea water	WP007077898
OTU C6	b, c, d, e	Uncultured bacterium	97–100	Soil	CCO96726
OTU C6	b, c, d, e	Alpha proteobacterium MA2	98–99	Marine sediment	GAK46282

^aSystem(s) containing the respective OTUs: a, unplanted soil; b, C. dactylon; c, Z. matrella; d, Z. japonica; e, dr-Z. japonica
^bSystem(s) with high ratios (>10 %) of each OTU were underlined
^cSource of the corresponding genes from GenPept contains the genes from sole strain and the environmental clones

Back to article page