TABLE 2.

Phenanthrene utilization and phylogenetic properties of isolates and correlation with DGGE bands

Representative isolatea	Phenanthrene useb	Identical DGGE bandc	Closest RDP/GenBank relatived		% Similarity to closest relativee	% Sequence similarity toe:
			Phylogenetic group	Strain or species		C4.7	S4.11	S4.9	A6.33 GD	S2.1
C4.7	+	1	β-Proteobacteria	B. caryophylli MCII-8	98.7
S4.11	+	1	β-Proteobacteria	Burkholderia sp. strain N2P5	98.5	98.5
S4.9	−	2	β-Proteobacteria	B. glathei	97.6	96.5	96.5
A6.33GD	+	3f	β-Proteobacteria	Burkholderia sp. strain N2P5	100	97.6	98.5	96.3
S2.1	+		β-Proteobacteria	Burkholderia sp. strain DhA54	97.5	96.9	96.8	96.4	97.2
A6.2	−	4g	β-Proteobacteria	B. caryophylli ATCC 25418	97.7	95.8	95.9	96.4	96.6	97.8
SM7.6.min.3b	−	6	β-Proteobacteria	R. solanacearum	100
A6.4	−		γ-Proteobacteria	F. aurantia	97.0
SM7.6.1	+	9	Gram-positive bacteria	Mycobacterium sp. strain HE-5	99.1
A6.3	−		Gram-positive bacteria	B. megaterium	99.4

^aC, isolate from a stabilized control enrichment culture; S, isolate from a sand enrichment culture; A, isolate from an AMB enrichment culture; SM7, isolate from an SM7 enrichment culture. The number after an initial letter is the transfer number. The number after the period is the isolate number. GD, isolate obtained from ground beads by using SSE as described in the accompanying paper (9a); min, isolate obtained from an SSE agar plate sprayed with phenanthrene. The GenBank accession numbers for the isolates are as follows: C4.7, AF247493; S4.11, AF247495; S4.9, AF247496; A6.33GD, AF247492; S2.1, AF247494; A6.2, AF247491; SM7.6.min3b, AF247498; A6.4, AF247489; SM7.6.1, AF247497; and A6.3, AF247490. 

^b+, isolate grew on phenanthrene in SSE and/or converted [¹⁴C]phenanthrene to ¹⁴CO₂; −, isolate did not grow on phenanthrene in SSE or convert [¹⁴C]phenanthrene to ¹⁴CO₂. 

^cThe band numbers correspond to labeled DGGE band numbers in all figures and Table 1. 

^dGenBank accession numbers for the closest database relatives are as follows: Burkholderia sp. strain N2P5, U37342; Burkholderia sp. strain DhA-54, AJ011508; B. glathei, Y17052; B. caryophylli MCII-8, U91570; B. caryophylli ATCC 25418, X67039; R. solanacearum, X67035; F. aurantia, AJ010481; Mycobacterium sp. strain HE-5, AJ012738; and B. megaterium, D16273. 

^eDetermined by using nearly full-length sequences (1413 to 1451 bases). 

^fOther isolates whose sequences corresponded to DGGE band 3 were obtained from sand and SM7 enrichment cultures (e.g., S4.13 [GenBank accession no. AF247487] and SM7.5.min46GD [GenBank accession no. AF247486] [Fig. 2]). 

^gOther isolates whose sequences corresponded to DGGE band 4 were obtained from the control enrichment culture (e.g., C2.1 [GenBank accession no. AF247488] [Fig. 2]).