the samples at 79 d-3
The raw 16S rRNA gene sequencing reads were demultiplexed, quality-filtered with fastp version 0.20.0 (https://github.com/OpenGene/fastp) (Chen et al., 2018) and merged using FLASH version 1.2.7 (http://www.cbcb.umd.edu/software/flash) (Mago and Salzberg, 2011). Operational taxonomic units (OTUs) with a 97% similarity cutoff were clustered using UPARSE version 7.1 (http://drive5.com/uparse/), while the chimeric sequences were identified and removed (Edgar, 2013). The taxonomy of each representative OTU sequence was analyzed via RDP Classifier version 2.2 (http://rdp.cme.msu.edu/), using the 16S rRNA database (Silva v138) at a confidence threshold of 0.7 (Wang et al., 2007).