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Table 4 S. lividans TK24 genes with (partially) known function with significantly lower expression in a CelA-producing strain compared to an empty plasmid-containing strain in early exponential phase (Benjamini–Hochberg FDR 0.05)

From: Transcriptomic and fluxomic changes in Streptomyces lividans producing heterologous protein

Locus Function Expression [TPM] p-value
SLIV SCO Ref. CelA log2(FC)
01030 7657 Secreted protein 1297 430 \(-\) 1.59 2.2e−04
01080 7647 Calcium-binding protein 251 54 \(-\) 2.22 1.7e−03
01125 7638 Enolase 2 197 40 \(-\) 2.30 4.4e−05
09410 5839 Peptidase 486 140 \(-\) 1.80 4.0e−04
09470 5827 Transmembrane transporter 227 47 \(-\) 2.28 3.7e−06
09475 5826 Putative membrane protein 396 124 \(-\) 1.67 3.0e−03
10950 5511 Membrane associated phosphodiesterase 232 75 \(-\) 1.62 4.1e−04
12120 5249 Nucleotide-binding protein 944 305 \(-\) 1.63 5.2e−04
12275 5218 Integral membrane protein 182 43 \(-\) 2.08 3.8e−04
12510 5174 Transferase 217 71 \(-\) 1.61 1.7e−03
14370 4798 Peptidase 125 37 \(-\) 1.75 2.3e−03
17195 4239 Small membrane protein 531 146 \(-\) 1.86 1.1e−03
17200 4238 Guanyltransferase 284 81 \(-\) 1.82 1.9e−03
18400 4002 Structural cell wall protein NepA 5745 1211 \(-\) 2.25 2.4e−07
18605 3943 Transcriptional regulator 285 88 \(-\) 1.70 1.9e−03
18635 3926 Sporulation control protein SsgA 175 30 \(-\) 2.55 2.1e−03
20395 3579 WhiB-family transcriptional regulator 1517 449 \(-\) 1.76 1.2e−04
20705 3413 HTH-type transcriptional activator TipA 435 14 \(-\) 4.97 5.3e−18
21025 3350 Alanine-rich protein 57 11 \(-\) 2.37 1.5e−03
21180 3323 ECF sigma factor BldN 1502 445 \(-\) 1.76 3.9e−05
23265 2884 Cytochrome P450 190 51 \(-\) 1.89 6.6e−04
24080 2718 Hydrophobic surface protein 170 20 \(-\) 3.06 6.7e−04
28720 1800 Hydrophobic surface protein 10,102 3979 \(-\) 1.34 1.3e−03
29370 1674 Hydrophobic surface protein 24,089 8481 \(-\) 1.51 4.1e−04
31930 1174 Putative aldehyde dehydrogenase 245 43 \(-\) 2.53 4.8e−07
32840 6393 Transposase 299 57 \(-\) 2.40 9.1e−07
34120 0762 Protease inhibitor protein 1495 485 \(-\) 1.62 1.1e−03
35005 0588 Sensor kinase 113 34 \(-\) 1.74 3.4e−03
  1. A clustering algorithm was used for grouping nearby genes with similar expression patterns. When present, the corresponding ortholog of the model organism S. coelicolor is given