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Phylogenetic trees showing the affiliations of amoA gene sequences of AOA (a), AOB (b), and comammox Nitrospira (c) retrieved from the overlying water samples based on the 85% (AOA and AOB) and 95% (comammox) similarities. The tree was constructed with neighbor-joining methods using maximum composite likelihood with 1,000 bootstraps. The clone names are labeled with OTU number followed by the number of times this OTU was detected in the overlying water samples.
