Metagenomic sequencing of sample NH4-S1
We use Picogreen (Invitrogen) to quantitate genomic DNA samples. DNA is sheared using a Covaris and libraries are constructed with the Nugen Ovation Ultralow Library protocol. We aim for an insert size of 400-600 bp to maximize data.  Amplified libraries are visualized on an Agilent TapeStation 4200, pooled at equimolar concentrations based on these results, and size selected using a Sage PippinPrep 2% cassette. The library pool is quantified using a Kapa Biosystems qPCR library quantification protocol, then sequenced on the Illumina Hiseq 1000 in a 2 x100 paired-end sequencing run using dedicated read indexing. The samples are demultiplexed with bcl2fastq.