Analysis of the Bacterial Diversity Associated with the Roots of Maize (Zea mays L.) through Culture-Dependent and Culture-Independent Methods

Table 2

Assignment and abundance of 16S rRNA sequences of bacteria isolated (culture-dependent approach) from the rhizoplane and root inner tissues of maize seedlings cv. Monsanto DK684RR2.

Group	Isolate	Closest NCBI match Closest type strain	% Identity	Number of sequenced isolates	CFU g^−1 fresh root	% CFU of the rhizoplane	% CFU of the root inner tissues	Accession number
Firmicutes; (Gram + low G + C)	Bi1	Bacillus sp. GPTSA100-8 (DQ854983)	98	1	1.0×10^5	0.07		HQ336294
		Bacillus mycoides strain ATCC 6462^T(EF210295)	97
	Bi12	Bacillus sp. GPTSA100-8 (DQ854983)	98	1	2.0×10^5	0.13		HQ336295
		Bacillus mycoides strain ATCC 6462^T(EF210295)	97
	Bi6	Bacterium 9-gw 1-9 (DQ990056)	99	1	1.0×10^5	0.07		HQ336296
		Bacillus thuringiensis strain ATCC10792^T(AF290545)	98
	Bi54	Bacillus thuringiensis strain biosZ2 (EU626405)	99	1	1.6×10^5		2.00	HQ336297
		Bacillus thuringiensis strain ATCC10792^T(AF290545)	99
	Bi51	Bacillus sp. cp-h8 (EU584532)	100	1	4.9×10^6	2.55	11.09	HQ336298
		Bacillus thuringiensis strain ATCC10792^T(AF290545)	100
	Bi29	Bacillus thuringiensis strain B144 (EU240371)	100	7	4.8×10^6	3.14	0.34	HQ336299
		Bacillus thuringiensis strain ATCC10792^T(AF290545)	100
	Bi23	Bacillus cereus strain IBLO1080 (EU168416)	99	1	1.0×10^5	0.07		HQ336300
		Bacillus cereus strain ATCC 14579^T (NC_004722)	97
	Bi59	Bacillus sp. B16(A) Ydz-xg (EU368774)	100	10	2.2×10^7	13.60	3.59	HQ336301
		Bacillus megaterium strain NBRC 15308^T (AB271751)	100
	Bi19	Bacillus simplex strain Q1 (EU236732)	100	6	3.1×10^7	20.41		HQ336302
		Bacillus simplex strain LMG 20238^T(AJ628748)	100
	Bi31	Uncultured soil bacterium clone 1296-1 (AF423217)	99	1	7.0×10^5	0.45		HQ336303
		Bacillus simplex strain LMG 20238^T (AJ628748)	99
	Bi53	Bacillus drentensis strain WN575 (DQ275176)	99	1	1.0×10^4		0.16	HQ336304
		Bacillus drentensis strain IDA1967^T (NR_029002)	99
	Bi55	Bacillus sp. B222 Ydz-dh (EU368768)	100	2	1.2×10^6	0.07	12.84	HQ336305
		Bacillus pumilus strain ATCC 7061^T (AY876289)	100
	Bi41	Bacillus sp. 3LF21TD (EU417659)	100	1	1.0×10^5	0.07		HQ336306
		Bacillus altitudinis strain 41KF2b^T (AJ831842)	100
	Bi27	Bacillus sp. 50–3 (EU365432)	100	1	7.0×10^6	4.58		HQ336307
		Bacillus subtilis subsp subtilis strain NBRC13719^T(AB271744)	99
	Bi28	Bacillus subtilis strain 79–9 (EU624322)	96	1	1.0×10^5	0.07		HQ336308
		Bacillus subtilis subsp subtilis strain NBRC13719^T(AB271744)	96
	Bi43	Bacillus sp. 12-059 (EU635727)	100	1	1.0×10^5	0.07		HQ336309
		Bacillus amyloliquefaciens strain NBRC 15535^T (AB325583)	100
	Bi3	Lysinibacillus sphaericus strain BG-B44 (EU869258)	99	2	1.3×10^6	0.85		HQ336310
		Lysinibacillus sphaericus strain NBRC 15095^T (AB271742)	98
	Bi42	Paenibacillus sp. GT08-03 (AM162320)	99	1	8.0×10^5	0.52		HQ336311
		Paenibacillus alvei strain DSM 29^T (AJ320491)	99
Proteobacteria𝛽-Proteobacteria; (Gram −)	Bi57	Achromobacter xylosoxidans (DQ414679)	99	2	5.8×10^6		67.17	HQ336312
		Achromobacter xylosoxidans strain DSM 10346^T (Y14908)	99
	Bi65	Achromobacter xylosoxidans (DQ414679)	100	1	6.3×10^4		0.61	HQ336313
		Achromobacter xylosoxidans strain DSM 10346^T (Y14908)	99
	Bi34	Enterobacter sp. YRL01 (EU373405)	98	2	3.3×10^7	21.30		HQ336314
		Enterobacter cloacae subsp. cloacae strain ATCC 13047^T(NC_014121)	97
Proteobacteria𝛾-Proteobacteria; (Gram −)	Bi36	Enterobacter sp. YRL01 (EU373405)	97	1	1.0×10^5	0.07		HQ336315
		Enterobacter cloacae subsp. cloacae strain ATCC 13047^T(NC_014121)	97
	Bi37	Enterobacter sp. YRL01 (EU373405)	99	2	2.3×10^7	14.86		HQ336316
		Enterobacter cloacae subsp. cloacae strain ATCC 13047^T(NC_014121)	99
	Bi25	Pseudomonas sp. JC1 (EU704696)	99	1	4.0×10^5	0.26		HQ336317
		Pseudomonas fluorescens strain ATCC 13525^T(AJ308308)	98
	Bi60	Pseudomonas fluorescens strain Mc07 (EF672049)	98	2	1.8×10^5		2.20	HQ336318
		Pseudomonas fluorescens strain ATCC 13525^T(AJ308308)	98
	Bi46	Pseudomonas fluorescens strain Mc07 (EF672049)	96	1	1.0×10^5	0.07		HQ336319
		Pseudomonas fluorescens strain ATCC 13525^T(AJ308308)	95
	Bi44	Pseudomonas putida strain PC16 (AY918067)	99	2	1.1×10^7	7.33		HQ336320
		Pseudomonas putida strain ATCC 12633^T (AF094736)	96
	Bi49	Pseudomonas putida strain PC16 (AY918067)	98	2	1.4×10^7	9.39		HQ336321
		Pseudomonas putida strain ATCC 12633^T (AF094736)	96

^T, Type strain.