Table 3

Relative abundances of bacterial taxa that differed based on patch sampling area (inside, outside, or recovered) in rhizosphere soil from field samples

FamilyaGenusbYearFrequency (×10−3)c
Inside the patchOutside the patchRecovered patch
ChitinophagaceaeChitinophaga* (OTU38)200859.07 a39.53 b
20104.88 a1.17 b
ComamonadaceaeVariovorax*200826.59 a17.67 b
SphingobacteriaceaePedobacter (OTU380)*200831.67 a17.43 b
20103.02 a1.88 b
Pedobacter (OTU52)*20103.21 a1.26 b
CytophagaceaeDyadobacter20087.81 a1.62 b
FlavobacteriaceaeFlavobacterium200826.6 a2.81 b
MicrobacteriaceaeMicrobacterium20082.88 a0.92 b
MoraxellaceaeAcinetobacter200827.92 a1.98 b
PhyllobacteriaceaePhyllobacterium20085.16 a0.29 b
FlavobacteriaceaeChryseobacterium (OTU437)20103.64 a0.23 b
OxalobacteraceaeDuganella (OTU4)201012.32 a4.49 b
Massilia (OTU1244)20101.83 a0 b
PseudomonadaceaePseudomonas (OTU9)201012.07 a2.88 b
SphingobacteriaceaeMucilaginibacter20101.71 a0.2 b
AcidobacteriaAcidobacteria subgroup Gp320084.43 b10.67 a7.44 a
20100.57 b2.51 a
AcidobacteriaAcidobacteria subgroup Gp7*20081.8 c2.45 b6.85 a
20100 b1.67 a
BurkholderiaceaeBurkholderia*20084.12 b24.98 a17.95 a
20107.56 b13.81 a
XanthomonadaceaeDyella20080.37 b0.48 b1.54 a
20103.02 b6.7 a
AcidobacteriaAcidobacteria subgroup Gp120089.38 b21.1 a
ActinomycetaceaeActinobacteria20084.78 b12.96 a
AcidobacteriaAcidobacteria subgroup Gp4 (OTU170)20101.29 b2.69 a
Acidobacteria subgroup Gp4 (OTU788)20100 b0.83 a
FlavobacteriaceaeFlavobacterium (OTU258)20106.05 b18 a
Flavobacterium (OTU367)20105.1 b15.48 a
GemmatimonadaceaeGemmatimonas (OTU107)20100.36 b1.69 a
Gemmatimonas (OTU1105)20101.02 b4.06 a
  • a Except for the order Sphingobacteriales.

  • b An asterisk indicates that the sequences from the 2008 and 2010 samples shared 100% identity. Sequences were clustered into OTUs at the 3% dissimilarity level. For genera shown in boldface, the abundance was confirmed by qPCR.

  • c Values followed by different letters in the same row were significantly different, according to Tukey's test (P ≤ 0.05). The values are average frequencies, from three replicates, of the sequence per 1,000 reads.