Strawberry Fusarium wilt disease Suppressive or conducive soil
[Library Construction]      Soil DNA was extracted from 1 g of rhizosphere soil using a FastDNA SPIN Kit (MP Biomedicals, USA) following the manufacture’s protocol. For each treatment, soil DNA was extracted from 3 individual rhizospheres. DNA was amplified for preparing libraries according to the GS-FLX plus library prep guide. Universal primers for 16S [27F (5’ GAGTTTGATCMTGGCTCAG-3’) and 518R (5’ WTTACCGCGGCTGCTGG-3’)], were employed to amplify bacterial 16S rRNA genes. The PCR products were purified using AMPure beads (Beckman Coulter, USA) and then quantified using the Picogreen assay (Victor 3). Emulsion PCR was performed using the GS-FLX plus emPCR Kit (454 Life Sciences, USA) according to the manufacturer’s instructions. The immobilized libraries were suspended and emulsified in the emPCR product solution. The DNA-carrying beads were dispensed into a 96-well plate and PCR amplification was performed. After emPCR, the libraries were purified using biotinylated primer A and, the amplified single-stranded DNA library was counted with a Particle Counter (Beckman Coulter, USA). For pyrosequencing, the samples were loaded on a half-plate of Roche GX-FLX plus          [Experiment Design]  To determine the suppressiveness of the soils, four treatments were compared during three planting cycles: suppressive soil (S, 15-year monoculture soil); conducive soil (C, 3-year monoculture soil); mixed soil (CS, C:S = 90%:10%); and pasteurized soil (S80, 15-year monoculture soil heat treated, 80°C for 1 h). At the third planting (cycle), a fifth treatment with gamma-irradiated (60 KGy, KAERI, Republic of Korea) 15-year monoculture soil was included (SR) as a microbe-free control.   [Files] 2013_09_17_KSUnivKwakYS_13ea_reads.1C (C at 1 cycle) | 2013_09_17_KSUnivKwakYS_13ea_reads.1CS (CS at 1 cycle) |2013_09_17_KSUnivKwakYS_13ea_reads.1S80 (S80 at 1 cycle) | 2013_09_17_KSUnivKwakYS_13ea_reads.1S (S at 1 cycle) | 2013_09_17_KSUnivKwakYS_13ea_reads.2C (C at 2 cycle) | 2013_09_17_KSUnivKwakYS_13ea_reads.2CS (CS at 2 cycle) | 2013_09_17_KSUnivKwakYS_13ea_reads.2S80 (S80 at 2 cycle) | 2013_09_17_KSUnivKwakYS_13ea_reads.2S (S at 2 cycle) | 2013_09_17_KSUnivKwakYS_13ea_reads.3C (C at 3 cycle) | 2013_09_17_KSUnivKwakYS_13ea_reads.3CS (CS at 3 cycle) | 2013_09_17_KSUnivKwakYS_13ea_reads.3S80 (S80 at 23 cycle) | 2013_09_17_KSUnivKwakYS_13ea_reads.3S (S at 3 cycle) | 2013_09_17_KSUnivKwakYS_13ea_reads.SR (Control)