Download Table S1

Table S1. Genes modulated by SCO5785 propagation in high copy number
_______________________________________________________________________________
Gene
Ratio
Transcriptional
Annotated function
M28/wt
organisation
_______________________________________________________________________________
Up regulated genes
Secondary metabolism
SCO3218
2.69
SCO3218
Hypothetical protein, similar to
others located within antibiotic
synthesis clusters. MbtH-like
protein
Possible oxidoreductase,
similar to Bacteroides fragilis
tetracycline resistance protein
TetX
SCO7659
2.34
SCO7659
SCO0762
SCO2412
5.78
2.12
SCO0762
SCO2422-2412
SCO3222
2.16
SCO3222
SCO3286
SCO3607
SCO6197
SCO6198
SCO7657
2.0
2.01
2.75
2.16
9.70
SCO3286-3285
SCO3607
SCO6197
SCO6198
SCO7657
Sti1, secreted subtilisin inhibitor
Possible membrane protein.
Last gene of a large operon
containing seven genes encoding
possible secreted proteins
Possible secreted protein (CDA
cluster)
Possible secreted protein
Possible secreted protein
Possible secreted protein
Possible secreted protein
Possible secreted protein
2.73
SCO0712
LipR, Transcriptional activator
2.04
2.10
3.19
2.0
SCO1181-1182
SCO3635
SCO4037-4036
SCO7738
Hypothetical protein
Hypothetical protein
Hypothetical protein
Hypothetical protein
SCO0179
Zinc-containing dehydrogenase
Secretory proteins
Transcriptional regulators
SCO0712
Other genes
SCO1181
SCO3635
SCO4036
SCO7738
Down regulated genes
Primary metabolism
SCO0179
-2.79
SCO0212
SCO0213
-3.20
-3.07
SCO0213-0212
SCO0213-0212
Hypothetical protein
Possible nitrate/nitrite transporter
protein
NarG2, nitrate reductase alpha
chain
NarH2, nitrate reductase beta
chain
NarJ2, nitrate reductase delta
chain
NarI2, nitrate reductase gamma
Chain
Possible reductase iron-sulphur
protein
Reductase flavoprotein subunit
Cytochrome B subunit
SodF2, superoxide dismutase
Sugar binding lipoprotein
Possible isoleucyl-tRNA
synthetase
QcrC, cytochrome C hemebinding subunit
Possible integral membrane
protein
Cox1, cytochrome c oxidase
subunit I
Cox2, cytochrome c oxidase
subunit II
SucB, possible
dihydrolipoamide
succinyltransferase
Possible membrane protein.
SCO2518 and SCO2517 are a
possible two-component system
ClpP2, ATP dependent Clp
protease proteolytic subunit 2
SodF, superoxide dismutase
PepN, aminopeptidase N
RpmG, 50S ribosomal protein
L33
PsF, 30S ribosomal protein S6
RplW, 50S ribosomal protein
L23
RpsS, 30S ribosomal protein S19
RplV, 50S ribosomal protein
SCO0216
-2.18
SCO0216-0219
SCO0217
-2.31
SCO0216-0219
SCO0218
-4.05
SCO0216-0219
SCO0219
-3.63
SCO0216-0219
SCO0922
-2.37
SCO0924-0922
SCO0923
SCO0924
SCO0999
SCO1898
SCO2076*
-2.03
-2.02
-4.35
-2.20
-2.07
SCO0924-0922
SCO0924-0922
SCO0999
SCO1898-1901
SCO2076
SCO2150
-2.21
SCO2151-2148
SCO2154
-2.05
SCO2156-2153
SCO2155
-2.12
SCO2156-2153
SCO2156
-2.08
SCO2156-2153
SCO2181
-2.34
SCO2181
SCO2519
-3.13
SCO2519-2517
SCO2618*
-2.41
SCO2619-2617
SCO2633
SCO2643
SCO3428
-3.80
-2.14
-2.32
SCO2633
SCO2643
SCO3428-3426
SCO3906
SCO4704*
-2.27
-2.03
SCO3906
SCO4701-4721
SCO4706*
SCO4707*
L22
SCO4710*
-2.25
-2.22
SCO4701-4721
SCO4701-4721
-2.32
SCO4701-4721
SCO4713*
L24
SCO4714*
-2.09
SCO4701-4721
RpmC, 50S ribosomal protein
L29
RplX, 50S ribosomal protein
-2.15
SCO4701-4721
RplE, 50S ribosomal protein L5
SCO4716*
SCO4719*
SCO4726*
L36
SCO4727
-2.13
-2.04
-2.04
SCO4701-4721
SCO4701-4721
SCO4724-4731
RpsH, 30S ribosomal protein S8
RpsE, 30S ribosomal protein S5
RpmJ, 50S ribosomal protein
-2.04
SCO4724-4731
SCO4855
-2.20
SCO4858-4855
SCO4956*
-2.02
SCO4956
SCO4974
SCO4979
-2.40
-2.34
SCO4974
SCO4979
SCO5178
SCO5470
-2.45
-2.31
SCO5178
SCO5472-5469
SCO5471
H
SCO5805
SCO5897
SCO5999*
-2.73
SCO5472-5469
-2.53
-2.15
-2.63
SCO5805
SCO5877-5898
SCO5999
RpsM, 30S ribosomal protein
S13
DhsB, succinate dehydrogenase
iron-sulfur subunit
Possible peptide methionine
sulfoxide reductase
Possible deaminase
Possible phosphoenolpyruvate
carboxykinase
MoeB, possible sulphurylase
GlyA2, probable serine
hydroxymethyltransferase
GcvH, glycine cleavage system
protein
NrdJ, ribonucleotide reductase
RedG, probable oxidase
Hypothetical protein
Secondary metabolism
SCO0107
-2.09
SCO0107
SCO3899
-2.35
SCO3899
SCO6764
cyclase
SCO6766
-2.36
SCO6762-6769
Possible aminoglycoside
nucleotidyltransferase (drug
resistance)
Hypothetical protein
(streptomycin biosynthesis)
Possible squalene-hopene
-2.11
SCO6762-6769
Hypothetical protein
-2.11
SCO0527
ScoF, cold shock protein
-2.18
SCO6108-6109
Possible secreted hydrolase
-2.60
SCO0618
Possible regulator protein
-2.49
-3.13
SCO0169
SCO0200
Hypothetical protein
Hypothetical protein
Cellular stress
SCO0527
Secretory proteins
SCO6109*
Transcriptional regulators
SCO0168
Other genes
SCO0169
SCO0200
SCO4252
SCO4253*
SCO4509
SCO4822
-2.09
-2.27
-2.08
-2.53
SCO4253-4251
SCO4253-4251
SCO4509
SCO4822
Hypothetical protein
Hypothetical protein
Hypothetical protein
Possible integral membrane
protein
SCO5555
-2.27
SCO5555
Hypothetical protein
SCO5638
-2.07
SCO5639-5638
Possible integral membrane
protein
SCO5650
-2.37
SCO5650
Possible membrane protein
_______________________________________________________________________________
Transcriptional units potentially ppGpp regulated [10] are underlined. *Genes up regulated in the
strain carrying the disrupted SCO5784-SCO5785 operon.