. 2017 Sep 1;5:104. doi: 10.1186/s40168-017-0310-6

Table 3.

The most abundant taxa within investigated oilseed rape seed microbiomes

Taxa^a	Avatar^b	Sherpa^b	Traviata^b	Putative function^c	Co-occurrence^d
Cyanobacteria ML635J-21_	0.101 ± 0.026^a	0.114 ± 0.073^a	0.078 ± 0.041^a	Beneficial	No
Ralstonia*	0.131 ± 0.014 ^b	0.038 ± 0.020^a	0.046 ± 0.024^a	Pathogen	Yes
Acetobacteraceae_	0.030 ± 0.007^a	0.057 ± 0.025^a	0.058 ± 0.021^a	Beneficial	Yes
Bacillus	0.033 ± 0.015^a	0.048 ± 0.012^a	0.041 ± 0.008^a	Beneficial	Yes
Sphingomonas	0.029 ± 0.004^a	0.035 ± 0.004^ab	0.044 ± 0.010^b	Beneficial	Yes
Salmonella/ E. coli*	0.033 ± 0.008^a	0.025 ± 0.005^a	0.027 ± 0.008^a	Pathogen	No
Methylobacterium	0.023 ± 0.004^a	0.026 ± 0.007^a	0.033 ± 0.010^a	Methanotroph	No
Burkholderia	0.044 ± 0.006 ^b	0.015 ± 0.005^a	0.016 ± 0.007^a	Beneficial	Yes
Methylocystaceae_	0.019 ± 0.009^a	0.021 ± 0.005^a	0.026 ± 0.007^a	Methanotroph	No
Rhizobiaceae	0.014 ± 0.001^a	0.031 ± 0.022^a	0.020 ± 0.006^a	Beneficial	No
Acidobacteria_iii-1-15_	0.013 ± 0.002 ^a	0.026 ± 0.003^b	0.025 ± 0.001^b	Unknown	No
Comamonadaceae_	0.032 ± 0.004 ^b	0.011 ± 0.003^a	0.015 ± 0.005^a	Unknown	Yes
Xanthomonadaceae_	0.022 ± 0.002^a	0.015 ± 0.002^a	0.015 ± 0.004^a	Beneficial and pathogen	Yes
Bradyrhizobiaceae_	0.024 ± 0.004 ^b	0.008 ± 0.003^a	0.010 ± 0.003^a	Beneficial	Yes
Pseudomonas	0.010 ± 0.000 ^a	0.014 ± 0.001^b	0.016 ± 0.002^b	Beneficial	No
Rubellimicrobium	0.009 ± 0.001^a	0.015 ± 0.005^a	0.015 ± 0.005^a	Unknown	No
Burkholderiaceae_	0.023 ± 0.003 ^b	0.006 ± 0.003^a	0.012 ± 0.007^a	Beneficial	Yes
Mesorhizobium	0.021 ± 0.002 ^b	0.006 ± 0.001^a	0.008 ± 0.001^a	Beneficial	Yes
Erwinia	0.009 ± 0.000^a	0.01 ± 0.003^ab	0.014 ± 0.002^b	Pathogen	No

^aThe OTU designation was performed at genus level where possible. The taxa for which no genus levels were assigned were named as the lowest known taxonomy followed by “_”. For the taxa labeled with asterisks, a manual BLAST was performed on the representative sequence of the most abundant OTUs. The assignment was based on the highest scores with at least 99% identity. In cases where several taxa with the same score appeared, both identifications were stated

^bThe relative abundance of the 20 most abundant (median among the cultivars and repetitions) taxa. The taxa that were significantly different (p < 0.05, according to a Tukey-HSD t test) in one of the cultivars when compared to the two others are highlighted in italics. Values designated with the same letters were not significantly different (p < 0.05) according to a Tukey-HSD t test

^cThe putative functions of some known strains of the taxa

^dThe involvement of the taxa in the statistically significant (p < 4 × 10⁻⁴; q < 4 × 10⁻⁴) co-occurrence patterns as shown by network analysis is labeled as “yes”, otherwise “no”. Please refer to the Fig. 5