Pe150 sequencing platform

DNA extracted from peripheral blood leukocytes of all subjects with sporadic IPF was obtained for whole exome sequencing (WES) at Novogene (Hong Kong, China) using the Agilent SureSelect Human All Exon V6 kit (Agilent Technologies, Santa Clara, CA, USA) on an Illumina PE150 sequencing platform (Illumina, San Diego, California, USA) according to standard protocol. Additional detail on analysis of the sequence data is provided in an online data supplement (S1 File).

Genomic DNA was extracted from the salted kelp samples and saturated salt solution. The prepared salted kelp homogenate was subjected to high-speed centrifugation at 4 °C and 17,000 rpm for 10 min to obtain a precipitate. One gram of the precipitate was collected, and microbial genomic DNA extraction was performed according to the instructions of the PowerSoil^® DNA Isolation Kit. Then, 500 mL of saturated saline solution was used to extract the microbial genomic DNA according to the instructions of the PowerWater^® DNA Isolation Kit.
The extracted microbial genomic DNA was sent to Beijing Nuohe Zhiyuan Technology Company for high-throughput sequencing. The Illumina-HiSeq sequencing platform was used in combination with the universal primers U515F and U806R for the 16S rRNA gene of prokaryotic microorganisms to perform high-throughput sequencing of PCR amplicons of all the samples. Then, the Illumina-PE150 sequencing platform was used to fragment the genomic DNA of the selected rotten (T25S10) and non-rotten (T4S10) salted kelp into 350 bp fragments for metagenomic sequencing.

Whole Exome Sequencing (WES) was performed in gDNA from peripheral leukocytes by Novogene (Hong Kong, China) using the Agilent Sure-Select Human All Exon V6 kit (Agilent Technologies, Santa Clara, CA, USA) on an Illumina PE150 sequencing platform (Illumina, San Diego, CA, USA) according to standard protocol. On average at least 20-fold read coverage was achieved for 93.7%. Reads were aligned to reference genome assembly hg19/GRCh37.