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Table 1 Nutrient metabolism genes with altered expression profiles in YSK4425

From: Genome-wide transcriptome analysis reveals that a pleiotropic antibiotic regulator, AfsS, modulates nutritional stress response in Streptomyces coelicolor A3(2)

Gene

Description

Euclidean Distance†

I. Phosphate starvation response and other similarly regulated genes

SCO0131

Endonuclease, exonuclease, phosphatase family protein

0.16

SCO0324

Putative secreted alkaline phosphatase

0.34

SCO0546

Pyruvate carboxylase (pyc)

0.13

SCO0919

Conserved hypothetical protein

0.15

SCO0921

Conserved hypothetical protein

0.10

SCO1048

Putative secreted protein

0.32

SCO1196

Probable Tat dependent secreted protein

0.36

SCO1290

Putative secreted alkaline phosphatase

0.19

SCO1564

Putative RNA polymerase sigma factor

0.10

SCO1565

Putative glycerophosphoryl diester phosphodiesterase

0.46

SCO1633

Tat dependent secreted protein (tatA)

0.23

SCO1906

Probable Tat dependent secreted protein

0.40

SCO1968

Glycerophosphoryl diester phosphodiesterase (glpQ)

0.52

SCO1969

Putative DNA-methyltransferase

0.20

SCO2068

Putative secreted alkaline phosphatase

0.28

SCO2286

Putative Tat-dependent secreted alkaline phosphatase (phoA)

0.43

SCO2348

Putative secreted protein

0.56

SCO2349

Hypothetical protein, similar to phosphodiesterase (phoD)

0.15

SCO2532

PhoH-like protein (phoH)

0.18

SCO2764

Putative lipoprotein.

0.15

SCO2878

Hypothetical protein

0.32

SCO3789

Endonuclease, exonuclease, phosphatase family protein

0.10

SCO3790

Conserved hypothetical protein

0.35

SCO4139

Phosphate ABC transport system ATP-binding protein (pstB)

0.32

SCO4140

Phosphate ABC transport system permease protein (pstA)

0.36

SCO4141

phosphate ABC transport system permease protein (pstC)

0.41

SCO4142

Phosphate-binding protein precursor (pstS)

0.57

SCO4143

Putative MutT-like protein (mutT)

0.09

SCO4144

Conserved hypothetical protein

0.20

SCO4152

Putative secreted 5'-nucleotidase (ushA)

0.27

SCO4226

Hypothetical protein

0.30

SCO4227

Metallothionein protein (mtpA)

0.36

SCO4228

Phosphate transport system regulatory protein (phoU)

0.37

SCO4229

Sensor kinase (phoR)

0.30

SCO4230

Response regulator (phoP)

0.19

SCO4401

Putative lipoprotein

0.18

SCO4873

Hypothetical protein

0.25

SCO4877

Hypothetical protein

0.22

SCO4878

Putative glycosyltransferase

0.21

SCO4879

Conserved hypothetical protein

0.28

SCO4880

Putative transferase

0.39

SCO4881

Putative polysaccharide biosynthesis related protein

0.46

SCO5005

Hypothetical protein

0.14

SCO5467

Muramoyl-pentapeptide carboxypeptidase

0.09

SCO5746

Hypothetical protein

0.22

SCO6145

Hypothetical protein

0.34

SCO6691

Putative phospholipase C

0.46

SCO7344

Putative secreted protein

0.16

SCO7550

Putative glycerophosphoryl diester phosphodiesterase

0.29

SCO7631

Putative secreted protein

0.24

SCO7697

Putative secreted hydrolase, phytase (phy)

0.30

SCO7722

Conserved hypothetical protein

0.11

II. Nitrogen utilization and chromosomally linked genes

SCO2207

Hypothetical secreted protein

0.70

SCO2208

Putative caboxylesterase

0.45

SCO2209

Putative transcriptional regulator

0.26

SCO2210

Glutamine synthetase (glnII)

0.63

SCO2211

Hypothetical protein

0.45

SCO2217

Putative secreted protein

0.69

SCO2218

Putative lipoprotein

0.21

SCO5583

Ammonium transporter (amtB)

0.43

SCO5584

Nitrogen regulatory protein PII (glnK)

0.59

III. Sulfate assimilation genes

SCO2910

Putative cysteine synthase (cysM)

0.21

SCO2911

Conserved hypothetical protein

0.28

SCO2912

Hypothetical protein

0.23

SCO4164

Putative thiosulfate sulfurtransferase (cysA)

0.43

SCO4165

Conserved hypothetical protein

0.32

SCO4293

Putative threonine synthase (thrC)

0.15

SCO4294

Conserved hypothetical protein

0.20

SCO6094

Aliphatic sulfonate ABC transporter, permease (ssuC)

0.10

SCO6095

Aliphatic sulfonate ABC transporter, binding protein (ssuB)

0.08

SCO6096

Aliphatic sulfonate ABC transporter, binding lipoprotein (ssuA)

0.18

SCO6097

Sulfate adenylyltransferase subunit 1 (cysN)

0.27

SCO6098

Sulfate adenylyltransferase subunit 2 (cysD)

0.25

SCO6099

Adenylylsulfate kinase (cysC)

0.19

SCO6100

Phosphoadenosine phosphosulfate reductase (cysH)

0.21

SCO6101

Hypothetical protein

0.21

SCO6102

Putative nitrite/sulphite reductase (cysI)

0.25

  1. † Euclidean distance normalized with number of time-points. Compare with the average Euclidean distance (μ) for all genes = 0.134 and standard deviation (σ) = 0.067. Euclidean distances ≥ μ + 1.2 σ indicates significant differential expression. However, there may be other genes which have lower Euclidean distances due to low expression levels. These genes were identified by profile similarity search and difference between M145 and YSK4425 were confirmed by visual inspection.