Core microbiota at root niches of host genotypes
To identify the core microbiota within a niche of host genotype, we
first established a Rank-Abundance curve of the detected ASVs for each
sample. First, the highest relative abundance value of all the ASVs was
recorded as RAmax, and the ASV with relative abundance >
RAmax*0.9 was considered to be one dominant ASV (dASV). The dASVs
appearing in all the five soils and four replicates were used as the
core ASVs of the niche (Fig. S6). In the rhizosphere, there were 2 core
ASVs shared by all the three host genotypes in the basal zone (Fig. 4a),
both of which belonged to unclassified Micrococcaceae, with higher
relative abundance than most of the other niches (Fig. 4b). In the
endosphere, three core ASVs, annotated as unclassified Burkholderiaceae,Rhizobacter , and Methylotenera (Fig. 4b) appeared in both
apical and basal segments of the EF genotype (Fig. 4a). The endosphere
in the apical zone of LF2 genotype harboured the largest number of core
ASVs, but these ASVs did not appear in other niches (Fig. 4a).