Note: 

A total of four biological replicates of Laccaria bicolor treated with either sulfated or non-sulfated LCOs (SLCOs or NSLCOs, respectively) and COs 21 days post-induction were processed for proteomics. 
The list of all raw files collected were:

CO4-treated samples: 
Vanquish_CO4_1_Lb_1D_2ug_180min_15cm_01_201226194214
Vanquish_CO4_2_Lb_1D_2ug_180min_15cm_01
Vanquish_CO4_3_Lb_1D_2ug_180min_15cm_01
Vanquish_CO4_4_Lb_1D_2ug_180min_15cm_01

CO8-treated samples:
Vanquish_CO8_1_Lb_1D_2ug_180min_15cm_01
Vanquish_CO8_2_Lb_1D_2ug_180min_15cm_01
Vanquish_CO8_3_Lb_1D_2ug_180min_15cm_01
Vanquish_CO8_4_Lb_1D_2ug_180min_15cm_01

Control samples: 
Vanquish_Control_1_Lb_1D_2ug_180min_15cm_01
Vanquish_Control_2_Lb_1D_2ug_180min_15cm_01
Vanquish_Control_3_Lb_1D_2ug_180min_15cm_01
Vanquish_Control_4_Lb_1D_2ug_180min_15cm_01

NSLCO-treated samples: 
Vanquish_NSLCO_1_Lb_1D_2ug_180min_15cm_01
Vanquish_NSLCO_2_Lb_1D_2ug_180min_15cm_01
Vanquish_NSLCO_3_Lb_1D_2ug_180min_15cm_01
Vanquish_NSLCO_4_Lb_1D_2ug_180min_15cm_01

SLCO-treated samples: 
Vanquish_SLCO_1_Lb_1D_2ug_180min_15cm_01
Vanquish_SLCO_2_Lb_1D_2ug_180min_15cm_01
Vanquish_SLCO_3_Lb_1D_2ug_180min_15cm_01
Vanquish_SLCO_4_Lb_1D_2ug_180min_15cm_01

Data was searched with ProteomeDiscoverer v2.3 using SEQUEST HT and Percolator.

NOTE:
Due to the corruption of raw file "Vanquish_SLCO_2_Lb_1D_2ug_180min_15cm_01", 
MS/MS searched data from the following raw files/biological replicates were chosen for downstream proteomics data processing and analysis: 

CO4-treated samples: 
Vanquish_CO4_1_Lb_1D_2ug_180min_15cm_01_201226194214.raw (F1)
Vanquish_CO4_2_Lb_1D_2ug_180min_15cm_01.raw (F2)
Vanquish_CO4_3_Lb_1D_2ug_180min_15cm_01.raw (F3)

CO8-treated samples: 
Vanquish_CO8_1_Lb_1D_2ug_180min_15cm_01.raw (F5)
Vanquish_CO8_3_Lb_1D_2ug_180min_15cm_01.raw (F7)
Vanquish_CO8_4_Lb_1D_2ug_180min_15cm_01.raw (F8)

Control samples: 
Vanquish_Control_1_Lb_1D_2ug_180min_15cm_01 (F9)
Vanquish_Control_3_Lb_1D_2ug_180min_15cm_01 (F11)
Vanquish_Control_4_Lb_1D_2ug_180min_15cm_01 (F12)

NSLCO-treated samples: 
Vanquish_NSLCO_2_Lb_1D_2ug_180min_15cm_01 (F14)
Vanquish_NSLCO_3_Lb_1D_2ug_180min_15cm_01 (F15)
Vanquish_NSLCO_4_Lb_1D_2ug_180min_15cm_01 (F16)

SLCO-treated samples: 
Vanquish_SLCO_1_Lb_1D_2ug_180min_15cm_01 (F17)
Vanquish_SLCO_3_Lb_1D_2ug_180min_15cm_01 (F19)
Vanquish_SLCO_4_Lb_1D_2ug_180min_15cm_01 (F20)