TABLE 3

Comparison of GeoChip and shotgun metagenomics sequencing

Contamination level and sequencing methodFunctional gene richness (no. of genes)aNo. of significantly different genesb
L0
    Shotgun6,166 ± 415
    GeoChip63,739 ± 3,663
L1
    Shotgun5,462 ± 396782
    GeoChip66,225 ± 12,7101,987
L2
    Shotgun6,040 ± 180221
    GeoChip53,999 ± 7,8481,501
L3
    Shotgun5,231 ± 285971
    GeoChip53,357 ± 11,180832
  • a Standard deviation of triplicate samples.

  • b Compared to gene abundance in L0, t test.