Journal of Proteome Research Table 3. Continued functional group UV induced pili system (upsF) Surface layer glycoprotein; Flags: Precursor Cell wall/membrane/envelope biogenesis hypothetical protein hypothetical protein hypothetical protein DNA binding proteins Similarity with Sso10 (hypothetical proteins) DNA-binding protein 7 (Sul7d) DNA-binding protein 7 Chromatin protein Cren7 Chromatin protein Alba Transcription and translation components Methylation guide ribonucleoprotein complex 50S ribosomal protein L7Ae ATP-dependent Zn Protease Replication Replication factor C small subunit Conserved/hypothetical protein Similarity with Sso10 Mn-dependent transcriptional regulator Superfamily I DNA and RNA helicases Endobeta-mannanase Aconitate hydratase Undecaprenyl pyrophosphate CRISPR-associated autoregulator, DevR- family ORF SSO0119 SSO0389 ST2425 SSO2829 Saci_0134 Saci_0882 Saci_0064 SSO10610 STS077 Saci_0362 SSO9180 Saci_1307 SSO6901 Saci_1322 STS141 Saci_1347 Saci_1520 Cell cycle Saci_0838 ST0475 Saci_0134 SSO2829 ST2425 Saci_0139 SSO0550 Saci_0882 ST0658 SSO3242 SSO1456 SSO3007 ST0833 ST1813 ST0029 fold change (log2) proteomic n.d. 0.6 n.d. n.d. n.d. 1.11 1.02 1 0.26 0.73 1.02 0.78 1.2 0.74 0.36 0.27 0.45 0.54 1 n.d. n.d. n.d. n.d. n.d. 1.11 0.43 0.85 1.05 1.24 0.44 0.53 0.42 microarray 0.54 n.d. 0.8 0,78 0,68 0.94 n.d. n.d. n.d. n.s. n.d. n.d. n.d. n.s. n.d. n.s. n.s. n.s. n.s. 0.7 0.78 0.8 0.75 0.56 n.s. n.d. n.d. n.d. n.s. n.s. n.s. n.s ARTICLE p-value microarray 0.06 0.001 0.001 0,001 0.001 0 0.002 0.001 0.034 a Fold changes correspond to the ratio of bioﬁlm v/s planktonic. Result conﬁdentiality was estimated by p-values calculation. p e 0.05 was used for all 3 strains in the proteomic analysis f. p-values of e0.05, e 0.0631 and e0.0747 were used for S. acidocaldarius, S. solfataricus and S. tokodaii respectively, in the transcriptomic analysis. n.d., not determined; n.s., not signiﬁcant; , down-regulated in bioﬁlm. (SSO2801) and S. tokodaii (ST0137) bioﬁlm cells (Table 3). In addition, while V-type ATPase subunit B levels were decreased in S. acidocaldarius bioﬁlm cells, V-type ATPase alpha subunit was found to be down-regulated in all three Sulfolobus strains bioﬁlm cells (Table 2). Levels of proteins related to transport functions were altered in bioﬁlm-associated cells of S. solfataricus and S. tokodaii. A homologous oligopeptide-binding protein (SSO2619 and ST2539) was up-regulated in both strains and a maltose-binding protein levels (ST1103) were greater in S. tokodaii bioﬁlm-associated cells. Moreover, a putative permease (SSO2701) was bioﬁlm-up- regulated in S. solfataricus (Table 3). Furthermore, molecular chap- erones were regulated during bioﬁlm growth. A small heat shock protein (Hsp20) was found to be commonly bioﬁlm-up-regulated among the three Sulfolobus species (Saci_1665 and SSO2447). Addi- tionally, the three thermosome subunits were down-regulated in bioﬁlm-associated cells from each species (Table 2). S. acidocaldarius and S. solfataricus also displayed up-regulation of two other 4113 dx.doi.org/10.1021/pr2003006 |J. Proteome Res. 2011, 10, 4105–4119