TABLE 2

Impact of host depletion and freeze-thaw on limit-of-detection studiesa

Method and organism% reads at indicated LODb
104103102101
No HD, freshHD, freshNo HD, freshHD, freshNo HD, frozenHD, frozenNo HD, freshHD, freshNo HD, frozenHD, frozenNo HD, freshHD, fresh
DNAamp
    Host40.790.903482.534.9476.888.5796.2158.0593.6120.0097.4858.77
    S. aureus0.20.010.090.0050.050.010.0027ND0.0070.0080.0001ND
    H. influenzae35.493.811.579.314.367.80.101.781.7628.470.00730.28
    M. smegmatis0.020.0060.0030.0020.0060.00080.00190.00180.00070.00150.00010.0003
    A. fumigatus20.71.94.20.86.27.31.2990.26941.10.070.09650.45
    C. neoformans0.080.00010.020.00020.002ND0.00480.00030.002ND0.0048ND
    CMV0.0070.0020.00090.00030.0020.003NDNDNDNDNDND
    Coxsackievirus A9NDNDNDNDNDNDNDNDNDNDNDND
cDNA
    Host41.22.172.410.346.91.11.430.023631.00.532.70.12
    S. aureus0.0070.0030.0010.10.0001NDNDND0.0002NDNDND
    H. influenzae32.160.811.049.64.513.50.670.350.61.30.05890.0294
    M. smegmatis1.53.30.0030.020.0080.0050.01440.01530.007ND0.00010.0001
    A. fumigatus11.612.93.70.51.60.040.85220.03860.060.010.03920.0027
    C. neoformansND0.0002NDNDNDNDNDNDNDNDNDND
    CMV0.06880.0050NDNDNDNDNDND0.0002NDNDND
    Coxsackievirus A9NDNDNDNDNDNDNDNDNDNDNDND
  • a ND, not detected; HD, host depletion; CMV, cytomegalovirus; fresh, processed without a freeze-thaw cycle.

  • b LOD are given in CFU or copies/ml.