Table 1.

RNA-seq data. Selected S. pneumoniae genes and operons showing statistically significant differential expression between the double mutant strains and the wild type 6B strain when cultured to mid-log growth phase in THY broth. Gene numbers for both BHN418 and the TIGR4 strain are given, along with gene names where these have been described. Data are presented as log₂ fold change (either for a single gene or mean and SD values for all genes in an operon) and include only genes with >1.5 log₂ differences. Genes or operons marked in bold are deleted in the mutant strains (cps locus, Spn_00899-913; psaA, Spn_02120; proABC, Spn_01479-81).

BHN418 Gene Number and Name or Operon Function	TIGR4 Gene Number (If Known)	∆cps/psaA	∆cps/proABC
Upregulated genes
Spn_00124_xylB	SP_1855	2.956	1.538
Spn_00125_6 regulator/cation efflux	SP_1856-7	3.493 (0.293)	2.099 (0.159
Spn_00599-00 Blp bacteriocin	SP_0041-	1.838 (0.127)
Spn_00677_mutT	SP_0119	1.533	1.502
Spn_00914_aliA	SP_0366	2.520	2.677
Spn_00963-68 fatty acid synthesis	SP_0415-419-420	1.623 (0.153)
Spn_01010-15_rlrA islet	SP_0462-68	4.766 (0.438)	2.706 (0.157)
Spn_01098-00 Blp bacteriocin	SP_0531-33	2.168 (0.510)
Spn_01108_blpX	SP_0544	2.561
Spn_01111 Blp bacteriocin	SP_0547	1.506
Spn_02091-97 fructose PTS	SP_1615-21		2.354 (0.083)
Downregulated genes
Spn_00121-22 Galactose metabolism	SP_1852-53	−2.058 (0.134)	−1.690 (0.006)
Spn_00617_bgaC	SP_0060		−1.698
Spn_00618-21 sugar PTS	SP_0060-64	−2.158 (0.238)	−2.273 (0.317)
Spn_00641-42 glycerol ABC transporter	SP_0091-92	−2.344 (0.125)	−1.669 (0.183)
Spn_00899-913 cps locus	SP_0343-65	−6.304 (0.164)	−8.385 (0.220)
Spn_01042-46 Endo-beta-N-acetylglucosaminidase	SP_0498	−1.771 (0.331)
Spn_01479-81_proBAC	SP_0931-33		−6.992 (0.247)
Spn_01723-26_lacGEFT	SP_1184-87	−1.978 (0.281)	−1.831 (0.023)
Spn_02120_psaA	SP_1650	−6.048