The partial SSU rDNA sequences of each microbial group were aligned using the CLUSTAL W program [ 62] followed by manual refinements.
Conversely, in the transverse and descending segments of the colon, a limited reduction in the number of these microbial groups was noted (Table 1).
Five microbial groups were considered in the model: facultatively aerobic bacteria or denitrifiers, fermenters, and sulfate-, mandanese-, and iron-reducers.
The majority of newly discovered microbial groups are cryptic lineages that greatly outnumber the 'known' diversity of life4, and are recognized only as DNA sequences stored in databases.
However, plant genetic properties accounting for these plant phenotypic differences are not well understood, and those determining differences in root-associated functional microbial groups are even less understood.
Diverse microbial groups were found in the transcriptome dataset even though the continuous culture was running for more than 15 years (Fig. 1).
When the spatio-temporal dynamics of microbial groups are accounted for, our simulations show the importance of reaction energetics and nutrient limitations such as microbial nitrogen demands.
Two major microbial groups are now believed to be involved in ammonia oxidation: chemolithotrophic ammonia-oxidizing bacteria (AOB) and ammonia-oxidizing archaea (AOA).
However, no dissimilarities in cell population densities or population ratios of the microbial groups were detected in the rhizosphere of the two plant lines.
Furthermore, soil microbial groups were highly correlated with soil SOC (P < 0.001), C/N ratio (P < 0.001), pH (P < 0.01), total nitrogen (P < 0.01), and the proportion of aggregates with a >0.25 mm diameter (P < 0.05).
