Table 3.

Relative abundance of bacterial genera detected in TC-DNAs extracted from bulk soils taken 4 weeks after different treatments at two replant disease sites (only genera with a relative abundance > 0.5 % are shown).

Phylum/Family	Genus	Site K					Site A
		K_RD	K_Basamid	K_B. juncea	K_R. sativus	K_Tagetes	A_RD	A_Basamid	A_B. juncea	A_R. sativus	A_Tagetes
Actinobacteria
Micrococcaceae		2.04 ± 0.53 a	4.02 ± 0.79 ab	6.14 ± 0.43 b	8.95 ± 0.43 c	1.80 ± 0.18 a	0.95 ± 0.09 a	4.82 ± 0.24 b	2.38 ± 0.61 ab	4.49 ± 1.14 bc	1.32 ± 0.06 ac
	Arthrobacter	1.92 ± 0.51 a	3.64 ± 0.64 ab	5.89 ± 0.34 b	8.61 ± 0.41 c	1.70 ± 0.18 a	0.92 ± 0.09 a	2.50 ± 0.80 ab	2.30 ± 0.61 ab	4.33 ± 1.06 b	1.31 ± 0.07 a
Microbacteriaceae		0.16 ± 0.02 a	1.12 ± 0.23 b	0.24 ± 0.03 a	0.30 ± 0.01 a	0.25 ± 0.05 a	0.07 ± 0.02 a	0.79 ± 0.25 b	0.11 ± 0.03 a	0.16 ± 0.01 a	0.09 ± 0.01 a
	Salinibacterium	0.07 ± 0.02 a	0.59 ± 0.14 b	0.11 ± 0.01 a	0.12 ± 0.01 a	0.13 ± 0.02 a	0.04 ± 0.01 a	0.62 ± 0.23 b	0.05 ± 0.02 a	0.06 ± 0.02 a	0.05 ± 0.01 a
	Curtobacterium	0.08 ± 0.01 a	0.54 ± 0.09 b	0.13 ± 0.02 a	0.17 ± 0.01 a	0.11 ± 0.02 a	0.03 ± 0.01 a	0.17 ± 0.03 b	0.06 ± 0.02 ab	0.09 ± 0.01 ab	0.04 ± 0.01 a
Intrasporangiaceae		0.53 ± 0.04 a	0.59 ± 0.10 a	1.23 ± 0.21 b	1.33 ± 0.17 b	0.48 ± 0.04 a	0.51 ± 0.09 a	0.45 ± 0.16 a	0.83 ± 0.18 ab	1.29 ± 0.10 b	0.69 ± 0.12 ab
	Terrabacter	0.27 ± 0.02 a	0.29 ± 0.04 a	0.73 ± 0.14 b	0.86 ± 0.11 b	0.22 ± 0.01 a	0.36 ± 0.08 a	0.26 ± 0.10 a	0.58 ± 0.13 ab	0.92 ± 0.07 b	0.49 ± 0.07 a
Streptomycetaceae		1.01 ± 0.13 a	0.67 ± 0.09 ab	0.46 ± 0.01 b	0.47 ± 0.02 b	0.39 ± 0.02 b	0.57 ± 0.10 ab	0.39 ± 0.02 a	0.56 ± 0.16 ab	0.69 ± 0.01 b	0.52 ± 0.05 ab
	Streptomyces	0.60 ± 0.14 a	0.14 ± 0.02 b	0.14 ± 0.03 b	0.13 ± 0.02 b	0.12 ± 0.00 b	0.05 ± 0.02	0.04 ± 0.00	0.07 ± 0.02	0.08 ± 0.01	0.03 ± 0.00
Bacteroidetes
Chitinophagaceae		6.04 ± 0.20 a	8.22 ± 0.86 ab	9.26 ± 0.49 b	7.87 ± 0.17 b	8.05 ± 1.07 ab	2.09 ± 0.14 a	5.38 ± 0.23 b	7.68 ± 2.33 abc	9.20 ± 0.20 c	2.92 ± 0.29 a
	Terrimonas	2.79 ± 0.11	3.62 ± 0.19	3.65 ± 0.27	3.56 ± 0.22	3.74 ± 0.43	0.47 ± 0.11 a	1.50 ± 0.20 b	1.85 ± 0.71 abc	2.49 ± 0.13 c	0.95 ± 0.09 ab
	Ferruginibacter	1.03 ± 0.05 a	1.31 ± 0.27 ab	1.91 ± 0.04 b	1.38 ± 0.09 a	1.23 ± 0.09 a	0.25 ± 0.03 a	1.14 ± 0.36 ab	1.05 ± 0.34 ab	1.33 ± 0.11 b	0.43 ± 0.09 a
	Flavitalea	0.24 ± 0.03	0.28 ± 0.04	0.33 ± 0.02	0.27 ± 0.05	0.41 ± 0.13	0.34 ± 0.02 a	0.55 ± 0.14 ab	1.21 ± 0.41 ab	1.20 ± 0.30 b	0.54 ± 0.04 b
Unclass_Bacteroidales	Unclass_Bacteroidales	0.85 ± 0.26 a	0.27 ± 0.01 b	1.40 ± 0.47 a	0.99 ± 0.08 a	0.89 ± 0.14 a	0.88 ± 0.00 a	0.14 ± 0.03 b	0.48 ± 0.10 ab	0.53 ± 0.12 a	0.73 ± 0.07 a
Flavobacteriaceae	Unclass_Flavobacteriaceae	0.34 ± 0.05 a	1.35 ± 0.16 b	0.61 ± 0.18 ab	0.46 ± 0.01 a	0.54 ± 0.07 a	0.29 ± 0.04	0.34 ± 0.05	0.31 ± 0.09	0.42 ± 0.10	0.22 ± 0.01
Planctomycetes
Planctomycetaceae	Unclass_Planctomycetaceae	3.70 ± 1.35	3.51 ± 0.19	3.67 ± 0.81	3.53 ± 0.28	4.28 ± 1.11	7.60 ± 0.57 a	1.50 ± 0.08 b	3.65 ± 0.84 c	4.06 ± 0.22 c	4.34 ± 0.75 c
Alphaproteobacteria
Rhizobiaceae		0.47 ± 0.08 ab	0.17 ± 0.03 a	0.63 ± 0.02 b	0.77 ± 0.12 b	0.36 ± 0.07 ab	0.12 ± 0.03 a	0.07 ± 0.04 a	0.33 ± 0.17 ab	0.49 ± 0.09 b	0.16 ± 0.01 a
	Rhizobium	0.38 ± 0.12 ab	0.08 ± 0.01 a	0.52 ± 0.02 b	0.61 ± 0.09 b	0.30 ± 0.06 b	0.08 ± 0.02 a	0.05 ± 0.02 a	0.26 ± 0.13 ab	0.36 ± 0.07 b	0.14 ± 0.01 ab
Sphingomonadaceae		2.52 ± 0.24 ab	3.40 ± 0.27 b	2.73 ± 0.14 ab	2.43 ± 0.12 ab	1.92 ± 0.18 a	1.14 ± 0.09	1.39 ± 0.20	1.43 ± 0.33	1.79 ± 0.20	1.60 ± 0.31
	Sphingomonas	0.05 ± 0.02 a	0.51 ± 0.12 b	0.03 ± 0.01 a	0.03 ± 0.00 a	0.03 ± 0.01 a	0.03 ± 0.01	0.22 ± 0.13	0.01 ± 0.00	0.03 ± 0.01	0.00 ± 0.00
Betaproteobacteria
Oxalobacteraceae	Massilia	0.24 ± 0.06 a	0.88 ± 0.04 b	0.23 ± 0.02 a	0.25 ± 0.02 a	0.15 ± 0.03 a	0.07 ± 0.01	0.16 ± 0.07	0.16 ± 0.04	0.22 ± 0.05	0.27 ± 0.07
Hydrogenophilaceae	Thiobacillus	0.21 ± 0.01 a	0.54 ± 0.12 b	0.21 ± 0.03 ab	0.24 ± 0.02 ab	0.22 ± 0.02 ab	0.11 ± 0.02 a	0.86 ± 0.12 b	0.25 ± 0.09 ac	0.21 ± 0.04 ac	0.25 ± 0.01 c
Gammaproteobacteria
Xanthomonadaceae		0.91 ± 0.08 a	2.29 ± 0.05 b	1.62 ± 0.14 c	1.60 ± 0.17 abc	1.09 ± 0.13 ac	1.01 ± 0.23	4.18 ± 1.63	1.11 ± 0.23	1.82 ± 0.27	0.97 ± 0.05
	Rhodanobacter	0.05 ± 0.01 a	1.65 ± 0.12 b	0.22 ± 0.12 a	0.12 ± 0.03 a	0.05 ± 0.02 a	0.15 ± 0.06 a	3.49 ± 1.57 b	0.10 ± 0.03 a	0.22 ± 0.10 a	0.07 ± 0.02 a
Pseudomonadaceae		1.93 ± 0.25 ac	0.74 ± 0.06 b	1.84 ± 0.08 c	2.06 ± 0.23 c	0.99 ± 0.13 ab	0.98 ± 0.04	3.18 ± 2.68	0.90 ± 0.25	1.27 ± 0.16	0.88 ± 0.06
	Pseudomonas	1.15 ± 0.24 a	0.15 ± 0.03 b	0.78 ± 0.07 a	0.90 ± 0.22 ac	0.26 ± 0.08 bc	0.06 ± 0.03 a	2.69 ± 2.68 ab	0.21 ± 0.09 ab	0.35 ± 0.18 ab	0.28 ± 0.04 b

Data is presented as mean ± SEM. Different letters indicate significant differences in relative abundances affected by soil treatments within site. Tukey test, p < 0.05 and n = 3 (R3.2.2). Increased and decreased bacterial relative abundances in treated replant disease (RD) soils compared to untreated within site are highlighted in green and red, respectively. Colored cells indicate those changes that were found at both sites.