Collection of Manually Curated Inferences of Regulons in Prokaryotic Genomes
-- version 4.0 --

Collection of regulogs in Shewanellaceae taxonomic group

General statistics
Genomes 16
TF regulogs 90
TF regulons 911
TF binding sites 8632
RNA regulogs 15
RNA regulons 214
RNA sites 291

This collection involves all regulons that were tentatively predicted by applying integrative comparative genomic approach to a single taxonomic group of closely-related genomes. To infer the regulons operated by transcription factors (TFs), we combined the identification of TF binding sites and cross-genome comparison of regulons with the analysis of the genomic and functional context of candidate target genes. To infer the regulons operated by regulatory RNAs such as riboswitches, we identified candidate RNA regulatory elements using HMM profiles and further analyzed their genomic and functional context.

Studied genomes and reconstructed regulon statistics
TF RNA Total
Genomes Regulons Sites Regulons Sites Regulons Sites
Shewanella amazonensis SB2B 57 471 12 17 69 488
Shewanella baltica OS155 64 572 14 18 78 590
Shewanella denitrificans OS217 45 317 11 13 56 330
Shewanella frigidimarina NCIMB 400 55 481 11 14 66 495
Shewanella halifaxensis HAW-EB4 51 544 14 22 65 566
Shewanella loihica PV-4 54 510 13 17 67 527
Shewanella oneidensis MR-1 62 535 14 19 76 554
Shewanella pealeana ATCC 700345 52 551 14 21 66 572
Shewanella piezotolerans WP3 52 553 14 17 66 570
Shewanella putrefaciens CN-32 63 591 13 17 76 608
Shewanella sediminis HAW-EB3 53 548 14 21 67 569
Shewanella sp ANA-3 64 615 14 18 78 633
Shewanella sp MR-4 61 621 14 20 75 641
Shewanella sp MR-7 60 617 14 20 74 637
Shewanella sp W3-18-1 62 586 14 18 76 604
Shewanella woodyi ATCC 51908 56 520 14 19 70 539
Genomic distribution of regulons
Family Type Regulator Function
ArgR TF ArgR
22 ArgR

Shewanella oneidensis MR-1
21 ArgR

Shewanella putrefaciens CN-32
21 ArgR

Shewanella sp W3-18-1
24 ArgR

Shewanella sp ANA-3
21 ArgR

Shewanella sp MR-4
24 ArgR

Shewanella sp MR-7
21 ArgR

Shewanella baltica OS155
13 ArgR

Shewanella denitrificans OS217
16 ArgR

Shewanella frigidimarina NCIMB 400
18 ArgR

Shewanella amazonensis SB2B
17 ArgR

Shewanella loihica PV-4
19 ArgR

Shewanella pealeana ATCC 700345
17 ArgR

Shewanella halifaxensis HAW-EB4
17 ArgR

Shewanella piezotolerans WP3
17 ArgR

Shewanella sediminis HAW-EB3
19 ArgR

Shewanella woodyi ATCC 51908
Arginine degradation; Arginine biosynthesis
BirA TF BirA
2 BirA

Shewanella oneidensis MR-1
2 BirA

Shewanella putrefaciens CN-32
2 BirA

Shewanella sp W3-18-1
2 BirA

Shewanella sp ANA-3
2 BirA

Shewanella sp MR-4
2 BirA

Shewanella sp MR-7
2 BirA

Shewanella baltica OS155
2 BirA

Shewanella denitrificans OS217
2 BirA

Shewanella frigidimarina NCIMB 400
2 BirA

Shewanella amazonensis SB2B
2 BirA

Shewanella loihica PV-4
2 BirA

Shewanella pealeana ATCC 700345
2 BirA

Shewanella halifaxensis HAW-EB4
2 BirA

Shewanella piezotolerans WP3
2 BirA

Shewanella sediminis HAW-EB3
2 BirA

Shewanella woodyi ATCC 51908
Biotin biosynthesis
CRP TF Crp
150 Crp

Shewanella oneidensis MR-1
165 Crp

Shewanella putrefaciens CN-32
164 Crp

Shewanella sp W3-18-1
178 Crp

Shewanella sp ANA-3
181 Crp

Shewanella sp MR-4
179 Crp

Shewanella sp MR-7
153 Crp

Shewanella baltica OS155
55 Crp

Shewanella denitrificans OS217
120 Crp

Shewanella frigidimarina NCIMB 400
106 Crp

Shewanella amazonensis SB2B
126 Crp

Shewanella loihica PV-4
148 Crp

Shewanella pealeana ATCC 700345
162 Crp

Shewanella halifaxensis HAW-EB4
136 Crp

Shewanella piezotolerans WP3
144 Crp

Shewanella sediminis HAW-EB3
130 Crp

Shewanella woodyi ATCC 51908
Carbon catabolism
TF DeoR
1 DeoR

Shewanella oneidensis MR-1
1 DeoR

Shewanella putrefaciens CN-32
1 DeoR

Shewanella sp W3-18-1
1 DeoR

Shewanella sp ANA-3
1 DeoR

Shewanella pealeana ATCC 700345
1 DeoR

Shewanella halifaxensis HAW-EB4
1 DeoR

Shewanella piezotolerans WP3
1 DeoR

Shewanella sediminis HAW-EB3
1 DeoR

Shewanella woodyi ATCC 51908
Nucleoside utilization
TF Dnr
2 Dnr

Shewanella denitrificans OS217
1 Dnr

Shewanella amazonensis SB2B
2 Dnr

Shewanella loihica PV-4
Denitrification
TF Fnr
26 Fnr

Shewanella oneidensis MR-1
28 Fnr

Shewanella putrefaciens CN-32
27 Fnr

Shewanella sp W3-18-1
30 Fnr

Shewanella sp ANA-3
33 Fnr

Shewanella sp MR-4
33 Fnr

Shewanella sp MR-7
31 Fnr

Shewanella baltica OS155
12 Fnr

Shewanella denitrificans OS217
24 Fnr

Shewanella frigidimarina NCIMB 400
28 Fnr

Shewanella amazonensis SB2B
32 Fnr

Shewanella loihica PV-4
34 Fnr

Shewanella pealeana ATCC 700345
36 Fnr

Shewanella halifaxensis HAW-EB4
31 Fnr

Shewanella piezotolerans WP3
38 Fnr

Shewanella sediminis HAW-EB3
28 Fnr

Shewanella woodyi ATCC 51908
Anaerobic metabolism
TF PnuR
1 PnuR

Shewanella oneidensis MR-1
1 PnuR

Shewanella putrefaciens CN-32
1 PnuR

Shewanella sp W3-18-1
1 PnuR

Shewanella baltica OS155
NAD biosynthesis
DeoR TF AgaR
2 AgaR

Shewanella sp ANA-3
2 AgaR

Shewanella sp MR-4
2 AgaR

Shewanella sp MR-7
2 AgaR

Shewanella amazonensis SB2B
N-acetylgalactosamine utilization
TF GlmR
1 GlmR

Shewanella oneidensis MR-1
1 GlmR

Shewanella putrefaciens CN-32
1 GlmR

Shewanella sp W3-18-1
1 GlmR

Shewanella sp ANA-3
1 GlmR

Shewanella sp MR-4
1 GlmR

Shewanella sp MR-7
1 GlmR

Shewanella baltica OS155
1 GlmR

Shewanella denitrificans OS217
1 GlmR

Shewanella frigidimarina NCIMB 400
1 GlmR

Shewanella amazonensis SB2B
1 GlmR

Shewanella loihica PV-4
1 GlmR

Shewanella pealeana ATCC 700345
1 GlmR

Shewanella halifaxensis HAW-EB4
1 GlmR

Shewanella piezotolerans WP3
1 GlmR

Shewanella sediminis HAW-EB3
1 GlmR

Shewanella woodyi ATCC 51908
Lipopolysaccharide biosynthesis
FUR TF Fur
32 Fur

Shewanella oneidensis MR-1
39 Fur

Shewanella putrefaciens CN-32
37 Fur

Shewanella sp W3-18-1
36 Fur

Shewanella sp ANA-3
35 Fur

Shewanella sp MR-4
35 Fur

Shewanella sp MR-7
36 Fur

Shewanella baltica OS155
22 Fur

Shewanella denitrificans OS217
24 Fur

Shewanella frigidimarina NCIMB 400
24 Fur

Shewanella amazonensis SB2B
21 Fur

Shewanella loihica PV-4
26 Fur

Shewanella pealeana ATCC 700345
24 Fur

Shewanella halifaxensis HAW-EB4
33 Fur

Shewanella piezotolerans WP3
23 Fur

Shewanella sediminis HAW-EB3
29 Fur

Shewanella woodyi ATCC 51908
Iron homeostasis
Fis TF NorR
2 NorR

Shewanella putrefaciens CN-32
2 NorR

Shewanella sp W3-18-1
2 NorR

Shewanella sp ANA-3
2 NorR

Shewanella sp MR-4
2 NorR

Shewanella sp MR-7
3 NorR

Shewanella frigidimarina NCIMB 400
2 NorR

Shewanella amazonensis SB2B
2 NorR

Shewanella loihica PV-4
2 NorR

Shewanella pealeana ATCC 700345
3 NorR

Shewanella halifaxensis HAW-EB4
5 NorR

Shewanella piezotolerans WP3
3 NorR

Shewanella sediminis HAW-EB3
4 NorR

Shewanella woodyi ATCC 51908
Nitrosative stress response
TF NtrC
4 NtrC

Shewanella oneidensis MR-1
4 NtrC

Shewanella putrefaciens CN-32
4 NtrC

Shewanella sp W3-18-1
4 NtrC

Shewanella sp ANA-3
4 NtrC

Shewanella sp MR-4
4 NtrC

Shewanella sp MR-7
4 NtrC

Shewanella baltica OS155
3 NtrC

Shewanella denitrificans OS217
3 NtrC

Shewanella frigidimarina NCIMB 400
3 NtrC

Shewanella amazonensis SB2B
3 NtrC

Shewanella loihica PV-4
3 NtrC

Shewanella pealeana ATCC 700345
3 NtrC

Shewanella halifaxensis HAW-EB4
3 NtrC

Shewanella piezotolerans WP3
3 NtrC

Shewanella sediminis HAW-EB3
4 NtrC

Shewanella woodyi ATCC 51908
Nitrogen assimilation
GntR/MocR TF PdxW
1 PdxW

Shewanella woodyi ATCC 51908
Pyridoxine/pyridoxal homeostasis
TF SO2282
2 SO2282

Shewanella oneidensis MR-1
2 SO2282

Shewanella putrefaciens CN-32
2 SO2282

Shewanella sp W3-18-1
3 SO2282

Shewanella sp ANA-3
3 SO2282

Shewanella sp MR-4
3 SO2282

Shewanella sp MR-7
3 SO2282

Shewanella baltica OS155
3 SO2282

Shewanella amazonensis SB2B
2 SO2282

Shewanella pealeana ATCC 700345
2 SO2282

Shewanella halifaxensis HAW-EB4
2 SO2282

Shewanella piezotolerans WP3
2 SO2282

Shewanella woodyi ATCC 51908
Metabolite transport
TF Sbal_1936
1 Sbal_1936

Shewanella baltica OS155
Metabolite transport
TF Sbal_3352
2 Sbal_3352

Shewanella putrefaciens CN-32
2 Sbal_3352

Shewanella sp W3-18-1
2 Sbal_3352

Shewanella baltica OS155
TF Sbal_4072
2 Sbal_4072

Shewanella baltica OS155
TF YdcR
1 YdcR

Shewanella putrefaciens CN-32
1 YdcR

Shewanella sp W3-18-1
1 YdcR

Shewanella sp ANA-3
1 YdcR

Shewanella sp MR-7
1 YdcR

Shewanella baltica OS155
GntR/Others TF AlgR
2 AlgR

Shewanella frigidimarina NCIMB 400
Alginate utilization
TF AraR
5 AraR

Shewanella putrefaciens CN-32
5 AraR

Shewanella sp W3-18-1
5 AraR

Shewanella sp ANA-3
5 AraR

Shewanella sp MR-4
5 AraR

Shewanella sp MR-7
Arabinose utilization
TF FadR
6 FadR

Shewanella oneidensis MR-1
6 FadR

Shewanella putrefaciens CN-32
6 FadR

Shewanella sp W3-18-1
6 FadR

Shewanella sp ANA-3
6 FadR

Shewanella sp MR-4
6 FadR

Shewanella sp MR-7
6 FadR

Shewanella baltica OS155
5 FadR

Shewanella denitrificans OS217
5 FadR

Shewanella frigidimarina NCIMB 400
6 FadR

Shewanella amazonensis SB2B
6 FadR

Shewanella loihica PV-4
6 FadR

Shewanella pealeana ATCC 700345
6 FadR

Shewanella halifaxensis HAW-EB4
6 FadR

Shewanella piezotolerans WP3
5 FadR

Shewanella sediminis HAW-EB3
6 FadR

Shewanella woodyi ATCC 51908
Fatty acid degradation
TF HutC
2 HutC

Shewanella oneidensis MR-1
2 HutC

Shewanella putrefaciens CN-32
2 HutC

Shewanella sp W3-18-1
2 HutC

Shewanella sp ANA-3
2 HutC

Shewanella sp MR-4
2 HutC

Shewanella sp MR-7
2 HutC

Shewanella baltica OS155
2 HutC

Shewanella denitrificans OS217
2 HutC

Shewanella frigidimarina NCIMB 400
2 HutC

Shewanella amazonensis SB2B
2 HutC

Shewanella loihica PV-4
2 HutC

Shewanella pealeana ATCC 700345
2 HutC

Shewanella halifaxensis HAW-EB4
2 HutC

Shewanella piezotolerans WP3
2 HutC

Shewanella sediminis HAW-EB3
3 HutC

Shewanella woodyi ATCC 51908
Histidine utilization
TF HypR
1 HypR

Shewanella oneidensis MR-1
1 HypR

Shewanella putrefaciens CN-32
1 HypR

Shewanella sp W3-18-1
1 HypR

Shewanella sp ANA-3
1 HypR

Shewanella sp MR-4
1 HypR

Shewanella sp MR-7
1 HypR

Shewanella baltica OS155
2 HypR

Shewanella denitrificans OS217
3 HypR

Shewanella frigidimarina NCIMB 400
7 HypR

Shewanella amazonensis SB2B
10 HypR

Shewanella loihica PV-4
11 HypR

Shewanella pealeana ATCC 700345
11 HypR

Shewanella halifaxensis HAW-EB4
11 HypR

Shewanella piezotolerans WP3
8 HypR

Shewanella sediminis HAW-EB3
9 HypR

Shewanella woodyi ATCC 51908
Proline and 4-hydrohyproline utilization
TF PdhR
4 PdhR

Shewanella oneidensis MR-1
5 PdhR

Shewanella putrefaciens CN-32
5 PdhR

Shewanella sp W3-18-1
5 PdhR

Shewanella sp ANA-3
5 PdhR

Shewanella sp MR-4
5 PdhR

Shewanella sp MR-7
5 PdhR

Shewanella baltica OS155
4 PdhR

Shewanella denitrificans OS217
5 PdhR

Shewanella frigidimarina NCIMB 400
9 PdhR

Shewanella amazonensis SB2B
6 PdhR

Shewanella loihica PV-4
6 PdhR

Shewanella pealeana ATCC 700345
5 PdhR

Shewanella halifaxensis HAW-EB4
5 PdhR

Shewanella piezotolerans WP3
6 PdhR

Shewanella sediminis HAW-EB3
7 PdhR

Shewanella woodyi ATCC 51908
Pyruvate metabolism
TF PrpR
1 PrpR

Shewanella oneidensis MR-1
1 PrpR

Shewanella putrefaciens CN-32
1 PrpR

Shewanella sp W3-18-1
1 PrpR

Shewanella sp ANA-3
1 PrpR

Shewanella sp MR-4
1 PrpR

Shewanella sp MR-7
1 PrpR

Shewanella baltica OS155
1 PrpR

Shewanella denitrificans OS217
1 PrpR

Shewanella frigidimarina NCIMB 400
1 PrpR

Shewanella amazonensis SB2B
2 PrpR

Shewanella loihica PV-4
1 PrpR

Shewanella pealeana ATCC 700345
1 PrpR

Shewanella halifaxensis HAW-EB4
1 PrpR

Shewanella piezotolerans WP3
2 PrpR

Shewanella sediminis HAW-EB3
1 PrpR

Shewanella woodyi ATCC 51908
Methylcitrate utilization
TF SO0072
2 SO0072

Shewanella oneidensis MR-1
2 SO0072

Shewanella putrefaciens CN-32
2 SO0072

Shewanella sp W3-18-1
2 SO0072

Shewanella sp ANA-3
2 SO0072

Shewanella sp MR-4
2 SO0072

Shewanella sp MR-7
2 SO0072

Shewanella baltica OS155
2 SO0072

Shewanella denitrificans OS217
2 SO0072

Shewanella frigidimarina NCIMB 400
2 SO0072

Shewanella amazonensis SB2B
2 SO0072

Shewanella loihica PV-4
2 SO0072

Shewanella pealeana ATCC 700345
2 SO0072

Shewanella piezotolerans WP3
2 SO0072

Shewanella woodyi ATCC 51908
Hypothetical ABC transporter
LacI TF BglR
2 BglR

Shewanella baltica OS155
3 BglR

Shewanella denitrificans OS217
3 BglR

Shewanella frigidimarina NCIMB 400
4 BglR

Shewanella amazonensis SB2B
4 BglR

Shewanella piezotolerans WP3
3 BglR

Shewanella woodyi ATCC 51908
Beta-glucosides utilization
TF GalR
2 GalR

Shewanella woodyi ATCC 51908
Galactose utilization
TF GntR
2 GntR

Shewanella baltica OS155
Gluconate utilization
TF MalR
3 MalR

Shewanella oneidensis MR-1
4 MalR

Shewanella sp ANA-3
4 MalR

Shewanella sp MR-4
4 MalR

Shewanella sp MR-7
4 MalR

Shewanella baltica OS155
5 MalR

Shewanella denitrificans OS217
4 MalR

Shewanella frigidimarina NCIMB 400
5 MalR

Shewanella amazonensis SB2B
4 MalR

Shewanella loihica PV-4
5 MalR

Shewanella piezotolerans WP3
4 MalR

Shewanella woodyi ATCC 51908
Maltodextrin utilization
TF ManR1
2 ManR1

Shewanella sp MR-7
2 ManR1

Shewanella amazonensis SB2B
Mannose utilization; Mannosides utilization
TF ManR2
3 ManR2

Shewanella amazonensis SB2B
Mannose utilization; Mannosides utilization
TF NagR
6 NagR

Shewanella oneidensis MR-1
3 NagR

Shewanella putrefaciens CN-32
3 NagR

Shewanella sp W3-18-1
8 NagR

Shewanella sp ANA-3
9 NagR

Shewanella sp MR-4
9 NagR

Shewanella sp MR-7
7 NagR

Shewanella baltica OS155
7 NagR

Shewanella denitrificans OS217
4 NagR

Shewanella amazonensis SB2B
5 NagR

Shewanella loihica PV-4
7 NagR

Shewanella pealeana ATCC 700345
6 NagR

Shewanella halifaxensis HAW-EB4
10 NagR

Shewanella piezotolerans WP3
6 NagR

Shewanella sediminis HAW-EB3
11 NagR

Shewanella woodyi ATCC 51908
N-acetylglucosamine utilization
TF RbsR
1 RbsR

Shewanella pealeana ATCC 700345
1 RbsR

Shewanella halifaxensis HAW-EB4
Ribose utilization
TF ScrR
3 ScrR

Shewanella sp ANA-3
3 ScrR

Shewanella sp MR-4
3 ScrR

Shewanella sp MR-7
3 ScrR

Shewanella baltica OS155
4 ScrR

Shewanella frigidimarina NCIMB 400
Sucrose utilization
TF TreR
3 TreR

Shewanella frigidimarina NCIMB 400
4 TreR

Shewanella woodyi ATCC 51908
Trehalose utilization
TF XltR
2 XltR

Shewanella pealeana ATCC 700345
2 XltR

Shewanella halifaxensis HAW-EB4
Xylitol utilization
LexA TF LexA
10 LexA

Shewanella oneidensis MR-1
9 LexA

Shewanella putrefaciens CN-32
10 LexA

Shewanella sp W3-18-1
10 LexA

Shewanella sp ANA-3
9 LexA

Shewanella sp MR-4
11 LexA

Shewanella sp MR-7
11 LexA

Shewanella baltica OS155
10 LexA

Shewanella denitrificans OS217
9 LexA

Shewanella frigidimarina NCIMB 400
11 LexA

Shewanella amazonensis SB2B
10 LexA

Shewanella loihica PV-4
10 LexA

Shewanella pealeana ATCC 700345
12 LexA

Shewanella halifaxensis HAW-EB4
8 LexA

Shewanella piezotolerans WP3
9 LexA

Shewanella sediminis HAW-EB3
10 LexA

Shewanella woodyi ATCC 51908
SOS response
LuxR TF NarP
19 NarP

Shewanella oneidensis MR-1
16 NarP

Shewanella putrefaciens CN-32
16 NarP

Shewanella sp W3-18-1
20 NarP

Shewanella sp ANA-3
20 NarP

Shewanella sp MR-4
20 NarP

Shewanella sp MR-7
16 NarP

Shewanella baltica OS155
14 NarP

Shewanella frigidimarina NCIMB 400
15 NarP

Shewanella amazonensis SB2B
15 NarP

Shewanella loihica PV-4
12 NarP

Shewanella pealeana ATCC 700345
14 NarP

Shewanella halifaxensis HAW-EB4
16 NarP

Shewanella piezotolerans WP3
14 NarP

Shewanella sediminis HAW-EB3
10 NarP

Shewanella woodyi ATCC 51908
Nitrate and nitrite respiration
TF PhsR
1 PhsR

Shewanella oneidensis MR-1
1 PhsR

Shewanella putrefaciens CN-32
1 PhsR

Shewanella sp W3-18-1
1 PhsR

Shewanella sp ANA-3
1 PhsR

Shewanella sp MR-4
1 PhsR

Shewanella sp MR-7
1 PhsR

Shewanella baltica OS155
1 PhsR

Shewanella frigidimarina NCIMB 400
1 PhsR

Shewanella amazonensis SB2B
1 PhsR

Shewanella loihica PV-4
1 PhsR

Shewanella pealeana ATCC 700345
1 PhsR

Shewanella halifaxensis HAW-EB4
1 PhsR

Shewanella piezotolerans WP3
1 PhsR

Shewanella sediminis HAW-EB3
Thiosulfate reduction
TF TtrR
2 TtrR

Shewanella putrefaciens CN-32
2 TtrR

Shewanella sp W3-18-1
2 TtrR

Shewanella sp ANA-3
2 TtrR

Shewanella sp MR-4
2 TtrR

Shewanella baltica OS155
Tetrathionate reduction
LysR TF GcvA
7 GcvA

Shewanella oneidensis MR-1
7 GcvA

Shewanella putrefaciens CN-32
7 GcvA

Shewanella sp W3-18-1
7 GcvA

Shewanella sp ANA-3
7 GcvA

Shewanella sp MR-4
7 GcvA

Shewanella sp MR-7
7 GcvA

Shewanella baltica OS155
4 GcvA

Shewanella denitrificans OS217
5 GcvA

Shewanella frigidimarina NCIMB 400
6 GcvA

Shewanella amazonensis SB2B
5 GcvA

Shewanella loihica PV-4
7 GcvA

Shewanella pealeana ATCC 700345
7 GcvA

Shewanella halifaxensis HAW-EB4
7 GcvA

Shewanella piezotolerans WP3
6 GcvA

Shewanella sediminis HAW-EB3
6 GcvA

Shewanella woodyi ATCC 51908
Glycine metabolism
TF HmgQ
2 HmgQ

Shewanella oneidensis MR-1
2 HmgQ

Shewanella putrefaciens CN-32
2 HmgQ

Shewanella sp W3-18-1
2 HmgQ

Shewanella sp ANA-3
2 HmgQ

Shewanella sp MR-4
2 HmgQ

Shewanella sp MR-7
2 HmgQ

Shewanella baltica OS155
2 HmgQ

Shewanella denitrificans OS217
2 HmgQ

Shewanella frigidimarina NCIMB 400
2 HmgQ

Shewanella amazonensis SB2B
2 HmgQ

Shewanella loihica PV-4
2 HmgQ

Shewanella pealeana ATCC 700345
2 HmgQ

Shewanella halifaxensis HAW-EB4
2 HmgQ

Shewanella piezotolerans WP3
2 HmgQ

Shewanella sediminis HAW-EB3
2 HmgQ

Shewanella woodyi ATCC 51908
Tyrosine degradation
TF IlvY
2 IlvY

Shewanella oneidensis MR-1
2 IlvY

Shewanella putrefaciens CN-32
2 IlvY

Shewanella sp W3-18-1
2 IlvY

Shewanella sp ANA-3
2 IlvY

Shewanella sp MR-4
2 IlvY

Shewanella sp MR-7
2 IlvY

Shewanella baltica OS155
2 IlvY

Shewanella denitrificans OS217
2 IlvY

Shewanella frigidimarina NCIMB 400
2 IlvY

Shewanella amazonensis SB2B
2 IlvY

Shewanella loihica PV-4
2 IlvY

Shewanella pealeana ATCC 700345
2 IlvY

Shewanella halifaxensis HAW-EB4
2 IlvY

Shewanella piezotolerans WP3
2 IlvY

Shewanella sediminis HAW-EB3
2 IlvY

Shewanella woodyi ATCC 51908
Branched-chain amino acid biosynthesis
TF LldR
1 LldR

Shewanella oneidensis MR-1
1 LldR

Shewanella putrefaciens CN-32
1 LldR

Shewanella sp W3-18-1
1 LldR

Shewanella sp ANA-3
1 LldR

Shewanella sp MR-4
1 LldR

Shewanella sp MR-7
1 LldR

Shewanella baltica OS155
1 LldR

Shewanella frigidimarina NCIMB 400
1 LldR

Shewanella amazonensis SB2B
1 LldR

Shewanella loihica PV-4
1 LldR

Shewanella pealeana ATCC 700345
1 LldR

Shewanella halifaxensis HAW-EB4
1 LldR

Shewanella piezotolerans WP3
1 LldR

Shewanella sediminis HAW-EB3
Lactate utilization
TF MetR
6 MetR

Shewanella oneidensis MR-1
6 MetR

Shewanella putrefaciens CN-32
6 MetR

Shewanella sp W3-18-1
6 MetR

Shewanella sp ANA-3
6 MetR

Shewanella sp MR-4
6 MetR

Shewanella sp MR-7
6 MetR

Shewanella baltica OS155
5 MetR

Shewanella denitrificans OS217
3 MetR

Shewanella frigidimarina NCIMB 400
4 MetR

Shewanella amazonensis SB2B
5 MetR

Shewanella loihica PV-4
4 MetR

Shewanella pealeana ATCC 700345
3 MetR

Shewanella halifaxensis HAW-EB4
3 MetR

Shewanella piezotolerans WP3
4 MetR

Shewanella sediminis HAW-EB3
2 MetR

Shewanella woodyi ATCC 51908
Methionine biosynthesis
TF NhaR
2 NhaR

Shewanella oneidensis MR-1
2 NhaR

Shewanella putrefaciens CN-32
2 NhaR

Shewanella sp W3-18-1
3 NhaR

Shewanella sp ANA-3
3 NhaR

Shewanella sp MR-4
3 NhaR

Shewanella sp MR-7
2 NhaR

Shewanella baltica OS155
1 NhaR

Shewanella denitrificans OS217
2 NhaR

Shewanella frigidimarina NCIMB 400
1 NhaR

Shewanella amazonensis SB2B
1 NhaR

Shewanella loihica PV-4
2 NhaR

Shewanella pealeana ATCC 700345
2 NhaR

Shewanella halifaxensis HAW-EB4
2 NhaR

Shewanella piezotolerans WP3
2 NhaR

Shewanella sediminis HAW-EB3
1 NhaR

Shewanella woodyi ATCC 51908
Osmotic stress response
TF PflR
3 PflR

Shewanella putrefaciens CN-32
3 PflR

Shewanella sp W3-18-1
3 PflR

Shewanella frigidimarina NCIMB 400
3 PflR

Shewanella amazonensis SB2B
4 PflR

Shewanella loihica PV-4
4 PflR

Shewanella pealeana ATCC 700345
3 PflR

Shewanella halifaxensis HAW-EB4
4 PflR

Shewanella piezotolerans WP3
4 PflR

Shewanella sediminis HAW-EB3
4 PflR

Shewanella woodyi ATCC 51908
Formate metabolism
MerR TF CadR-PbrR
4 CadR-PbrR

Shewanella putrefaciens CN-32
4 CadR-PbrR

Shewanella sp W3-18-1
1 CadR-PbrR

Shewanella sp ANA-3
1 CadR-PbrR

Shewanella frigidimarina NCIMB 400
Lead resistance; Cadmium resistance
TF CueR
1 CueR

Shewanella oneidensis MR-1
2 CueR

Shewanella putrefaciens CN-32
2 CueR

Shewanella sp W3-18-1
2 CueR

Shewanella sp ANA-3
2 CueR

Shewanella sp MR-4
2 CueR

Shewanella sp MR-7
2 CueR

Shewanella baltica OS155
1 CueR

Shewanella denitrificans OS217
2 CueR

Shewanella amazonensis SB2B
2 CueR

Shewanella pealeana ATCC 700345
2 CueR

Shewanella halifaxensis HAW-EB4
2 CueR

Shewanella piezotolerans WP3
2 CueR

Shewanella sediminis HAW-EB3
2 CueR

Shewanella woodyi ATCC 51908
Copper resistance
TF CueR2
1 CueR2

Shewanella putrefaciens CN-32
1 CueR2

Shewanella frigidimarina NCIMB 400
1 CueR2

Shewanella loihica PV-4
Copper resistance
TF LiuR
9 LiuR

Shewanella oneidensis MR-1
9 LiuR

Shewanella putrefaciens CN-32
9 LiuR

Shewanella sp W3-18-1
9 LiuR

Shewanella sp ANA-3
9 LiuR

Shewanella sp MR-4
9 LiuR

Shewanella sp MR-7
8 LiuR

Shewanella baltica OS155
8 LiuR

Shewanella denitrificans OS217
9 LiuR

Shewanella frigidimarina NCIMB 400
8 LiuR

Shewanella amazonensis SB2B
7 LiuR

Shewanella loihica PV-4
8 LiuR

Shewanella pealeana ATCC 700345
8 LiuR

Shewanella halifaxensis HAW-EB4
8 LiuR

Shewanella piezotolerans WP3
8 LiuR

Shewanella sediminis HAW-EB3
8 LiuR

Shewanella woodyi ATCC 51908
Branched-chain amino acid degradation
TF MerR
1 MerR

Shewanella putrefaciens CN-32
1 MerR

Shewanella sp W3-18-1
2 MerR

Shewanella sp ANA-3
1 MerR

Shewanella frigidimarina NCIMB 400
Mercury resistance
TF NmlR
1 NmlR

Shewanella oneidensis MR-1
1 NmlR

Shewanella sp MR-4
1 NmlR

Shewanella baltica OS155
1 NmlR

Shewanella frigidimarina NCIMB 400
1 NmlR

Shewanella woodyi ATCC 51908
Carbonyl stress response
TF PhrR
2 PhrR

Shewanella oneidensis MR-1
2 PhrR

Shewanella putrefaciens CN-32
2 PhrR

Shewanella sp W3-18-1
2 PhrR

Shewanella sp ANA-3
2 PhrR

Shewanella sp MR-4
2 PhrR

Shewanella sp MR-7
2 PhrR

Shewanella baltica OS155
Light-dependent DNA repair
TF SoxR
3 SoxR

Shewanella denitrificans OS217
2 SoxR

Shewanella frigidimarina NCIMB 400
2 SoxR

Shewanella amazonensis SB2B
2 SoxR

Shewanella loihica PV-4
2 SoxR

Shewanella piezotolerans WP3
1 SoxR

Shewanella woodyi ATCC 51908
Superoxide stress response
TF ZntR
1 ZntR

Shewanella oneidensis MR-1
1 ZntR

Shewanella putrefaciens CN-32
1 ZntR

Shewanella sp W3-18-1
1 ZntR

Shewanella sp ANA-3
1 ZntR

Shewanella sp MR-4
1 ZntR

Shewanella sp MR-7
1 ZntR

Shewanella baltica OS155
1 ZntR

Shewanella denitrificans OS217
1 ZntR

Shewanella frigidimarina NCIMB 400
1 ZntR

Shewanella amazonensis SB2B
1 ZntR

Shewanella loihica PV-4
1 ZntR

Shewanella pealeana ATCC 700345
1 ZntR

Shewanella halifaxensis HAW-EB4
1 ZntR

Shewanella piezotolerans WP3
1 ZntR

Shewanella sediminis HAW-EB3
1 ZntR

Shewanella woodyi ATCC 51908
Zinc resistance; Cadmium resistance
MetJ TF MetJ
12 MetJ

Shewanella oneidensis MR-1
14 MetJ

Shewanella putrefaciens CN-32
14 MetJ

Shewanella sp W3-18-1
12 MetJ

Shewanella sp ANA-3
12 MetJ

Shewanella sp MR-4
12 MetJ

Shewanella sp MR-7
15 MetJ

Shewanella baltica OS155
11 MetJ

Shewanella denitrificans OS217
10 MetJ

Shewanella frigidimarina NCIMB 400
11 MetJ

Shewanella amazonensis SB2B
13 MetJ

Shewanella loihica PV-4
12 MetJ

Shewanella pealeana ATCC 700345
11 MetJ

Shewanella halifaxensis HAW-EB4
11 MetJ

Shewanella piezotolerans WP3
13 MetJ

Shewanella sediminis HAW-EB3
11 MetJ

Shewanella woodyi ATCC 51908
Methionine biosynthesis; Methionine metabolism
ModE TF ModE
2 ModE

Shewanella oneidensis MR-1
2 ModE

Shewanella sp ANA-3
2 ModE

Shewanella sp MR-4
2 ModE

Shewanella sp MR-7
2 ModE

Shewanella baltica OS155
Molybdopterin biosynthesis; Molybdenum homeostasis
NikR TF NikR
3 NikR

Shewanella pealeana ATCC 700345
3 NikR

Shewanella halifaxensis HAW-EB4
2 NikR

Shewanella sediminis HAW-EB3
Nickel homeostasis
NrdR TF NrdR
2 NrdR

Shewanella oneidensis MR-1
2 NrdR

Shewanella putrefaciens CN-32
2 NrdR

Shewanella sp W3-18-1
2 NrdR

Shewanella sp ANA-3
2 NrdR

Shewanella sp MR-4
2 NrdR

Shewanella sp MR-7
2 NrdR

Shewanella baltica OS155
2 NrdR

Shewanella denitrificans OS217
2 NrdR

Shewanella frigidimarina NCIMB 400
2 NrdR

Shewanella amazonensis SB2B
2 NrdR

Shewanella loihica PV-4
2 NrdR

Shewanella pealeana ATCC 700345
2 NrdR

Shewanella halifaxensis HAW-EB4
2 NrdR

Shewanella piezotolerans WP3
2 NrdR

Shewanella sediminis HAW-EB3
2 NrdR

Shewanella woodyi ATCC 51908
Deoxyribonucleotide biosynthesis
NrtR TF NrtR
1 NrtR

Shewanella oneidensis MR-1
1 NrtR

Shewanella putrefaciens CN-32
1 NrtR

Shewanella sp W3-18-1
NAD biosynthesis
PadR TF SO0734
1 SO0734

Shewanella oneidensis MR-1
1 SO0734

Shewanella putrefaciens CN-32
1 SO0734

Shewanella sp W3-18-1
1 SO0734

Shewanella baltica OS155
RpiR TF HexR
16 HexR

Shewanella oneidensis MR-1
19 HexR

Shewanella putrefaciens CN-32
19 HexR

Shewanella sp W3-18-1
18 HexR

Shewanella sp ANA-3
17 HexR

Shewanella sp MR-4
17 HexR

Shewanella sp MR-7
18 HexR

Shewanella baltica OS155
12 HexR

Shewanella denitrificans OS217
15 HexR

Shewanella frigidimarina NCIMB 400
14 HexR

Shewanella amazonensis SB2B
17 HexR

Shewanella loihica PV-4
17 HexR

Shewanella pealeana ATCC 700345
18 HexR

Shewanella halifaxensis HAW-EB4
17 HexR

Shewanella piezotolerans WP3
17 HexR

Shewanella sediminis HAW-EB3
14 HexR

Shewanella woodyi ATCC 51908
Central carbohydrate metabolism
Rrf2 TF IscR
5 IscR

Shewanella oneidensis MR-1
5 IscR

Shewanella putrefaciens CN-32
5 IscR

Shewanella sp W3-18-1
5 IscR

Shewanella sp ANA-3
5 IscR

Shewanella sp MR-4
5 IscR

Shewanella sp MR-7
5 IscR

Shewanella baltica OS155
3 IscR

Shewanella denitrificans OS217
4 IscR

Shewanella frigidimarina NCIMB 400
5 IscR

Shewanella amazonensis SB2B
5 IscR

Shewanella loihica PV-4
5 IscR

Shewanella pealeana ATCC 700345
5 IscR

Shewanella halifaxensis HAW-EB4
5 IscR

Shewanella piezotolerans WP3
5 IscR

Shewanella sediminis HAW-EB3
4 IscR

Shewanella woodyi ATCC 51908
Iron-sulfur cluster biogenesis
TF NsrR
3 NsrR

Shewanella oneidensis MR-1
2 NsrR

Shewanella putrefaciens CN-32
2 NsrR

Shewanella sp W3-18-1
5 NsrR

Shewanella sp ANA-3
4 NsrR

Shewanella sp MR-4
4 NsrR

Shewanella sp MR-7
4 NsrR

Shewanella baltica OS155
1 NsrR

Shewanella denitrificans OS217
4 NsrR

Shewanella frigidimarina NCIMB 400
3 NsrR

Shewanella amazonensis SB2B
2 NsrR

Shewanella loihica PV-4
3 NsrR

Shewanella pealeana ATCC 700345
1 NsrR

Shewanella halifaxensis HAW-EB4
3 NsrR

Shewanella piezotolerans WP3
4 NsrR

Shewanella sediminis HAW-EB3
3 NsrR

Shewanella woodyi ATCC 51908
Nitrosative stress response
SdaR TF SdaR
1 SdaR

Shewanella oneidensis MR-1
1 SdaR

Shewanella putrefaciens CN-32
1 SdaR

Shewanella sp W3-18-1
1 SdaR

Shewanella sp ANA-3
1 SdaR

Shewanella sp MR-4
1 SdaR

Shewanella sp MR-7
1 SdaR

Shewanella baltica OS155
1 SdaR

Shewanella frigidimarina NCIMB 400
1 SdaR

Shewanella loihica PV-4
1 SdaR

Shewanella pealeana ATCC 700345
1 SdaR

Shewanella halifaxensis HAW-EB4
1 SdaR

Shewanella piezotolerans WP3
1 SdaR

Shewanella sediminis HAW-EB3
1 SdaR

Shewanella woodyi ATCC 51908
Glycerate utilization
SorC TF MtlR
1 MtlR

Shewanella frigidimarina NCIMB 400
Mannitol utilization
TetR TF BetI
1 BetI

Shewanella baltica OS155
1 BetI

Shewanella denitrificans OS217
1 BetI

Shewanella frigidimarina NCIMB 400
1 BetI

Shewanella pealeana ATCC 700345
1 BetI

Shewanella halifaxensis HAW-EB4
2 BetI

Shewanella sediminis HAW-EB3
1 BetI

Shewanella woodyi ATCC 51908
Osmotic stress response
TF CalR
1 CalR

Shewanella oneidensis MR-1
1 CalR

Shewanella putrefaciens CN-32
1 CalR

Shewanella sp W3-18-1
1 CalR

Shewanella sp ANA-3
1 CalR

Shewanella sp MR-4
1 CalR

Shewanella sp MR-7
1 CalR

Shewanella baltica OS155
1 CalR

Shewanella denitrificans OS217
1 CalR

Shewanella frigidimarina NCIMB 400
1 CalR

Shewanella amazonensis SB2B
1 CalR

Shewanella loihica PV-4
1 CalR

Shewanella pealeana ATCC 700345
1 CalR

Shewanella halifaxensis HAW-EB4
1 CalR

Shewanella piezotolerans WP3
1 CalR

Shewanella sediminis HAW-EB3
1 CalR

Shewanella woodyi ATCC 51908
Utilization of aromatic compounds
TF FabR
7 FabR

Shewanella oneidensis MR-1
7 FabR

Shewanella putrefaciens CN-32
7 FabR

Shewanella sp W3-18-1
7 FabR

Shewanella sp ANA-3
7 FabR

Shewanella sp MR-4
7 FabR

Shewanella sp MR-7
7 FabR

Shewanella baltica OS155
6 FabR

Shewanella denitrificans OS217
6 FabR

Shewanella frigidimarina NCIMB 400
7 FabR

Shewanella amazonensis SB2B
8 FabR

Shewanella loihica PV-4
9 FabR

Shewanella pealeana ATCC 700345
9 FabR

Shewanella halifaxensis HAW-EB4
9 FabR

Shewanella piezotolerans WP3
7 FabR

Shewanella sediminis HAW-EB3
8 FabR

Shewanella woodyi ATCC 51908
Fatty acid biosynthesis
TF PsrA
16 PsrA

Shewanella oneidensis MR-1
17 PsrA

Shewanella putrefaciens CN-32
17 PsrA

Shewanella sp W3-18-1
16 PsrA

Shewanella sp ANA-3
16 PsrA

Shewanella sp MR-4
16 PsrA

Shewanella sp MR-7
17 PsrA

Shewanella baltica OS155
15 PsrA

Shewanella denitrificans OS217
16 PsrA

Shewanella frigidimarina NCIMB 400
15 PsrA

Shewanella amazonensis SB2B
17 PsrA

Shewanella loihica PV-4
17 PsrA

Shewanella pealeana ATCC 700345
17 PsrA

Shewanella halifaxensis HAW-EB4
17 PsrA

Shewanella piezotolerans WP3
18 PsrA

Shewanella sediminis HAW-EB3
17 PsrA

Shewanella woodyi ATCC 51908
Fatty acid degradation
TF SO0193
1 SO0193

Shewanella oneidensis MR-1
1 SO0193

Shewanella putrefaciens CN-32
1 SO0193

Shewanella sp W3-18-1
1 SO0193

Shewanella sp ANA-3
1 SO0193

Shewanella sp MR-4
1 SO0193

Shewanella sp MR-7
1 SO0193

Shewanella baltica OS155
1 SO0193

Shewanella frigidimarina NCIMB 400
1 SO0193

Shewanella amazonensis SB2B
1 SO0193

Shewanella loihica PV-4
Fatty acid metabolism
TF SO1393
2 SO1393

Shewanella oneidensis MR-1
2 SO1393

Shewanella sp ANA-3
2 SO1393

Shewanella sp MR-4
2 SO1393

Shewanella sp MR-7
2 SO1393

Shewanella loihica PV-4
TF SO1415
3 SO1415

Shewanella oneidensis MR-1
3 SO1415

Shewanella sp MR-4
3 SO1415

Shewanella loihica PV-4
3 SO1415

Shewanella pealeana ATCC 700345
3 SO1415

Shewanella halifaxensis HAW-EB4
3 SO1415

Shewanella sediminis HAW-EB3
TF SO1578
2 SO1578

Shewanella oneidensis MR-1
2 SO1578

Shewanella sp ANA-3
2 SO1578

Shewanella sp MR-4
2 SO1578

Shewanella sp MR-7
2 SO1578

Shewanella baltica OS155
2 SO1578

Shewanella amazonensis SB2B
2 SO1578

Shewanella loihica PV-4
2 SO1578

Shewanella woodyi ATCC 51908
Glutathione metabolism
TF SO1703
1 SO1703

Shewanella oneidensis MR-1
1 SO1703

Shewanella putrefaciens CN-32
1 SO1703

Shewanella sp W3-18-1
1 SO1703

Shewanella sp ANA-3
1 SO1703

Shewanella sp MR-4
1 SO1703

Shewanella sp MR-7
1 SO1703

Shewanella baltica OS155
1 SO1703

Shewanella denitrificans OS217
1 SO1703

Shewanella amazonensis SB2B
1 SO1703

Shewanella loihica PV-4
1 SO1703

Shewanella sediminis HAW-EB3
Multidrug resistance
TF SO3277
2 SO3277

Shewanella oneidensis MR-1
2 SO3277

Shewanella putrefaciens CN-32
2 SO3277

Shewanella sp W3-18-1
2 SO3277

Shewanella sp ANA-3
2 SO3277

Shewanella sp MR-4
2 SO3277

Shewanella sp MR-7
2 SO3277

Shewanella baltica OS155
2 SO3277

Shewanella denitrificans OS217
2 SO3277

Shewanella frigidimarina NCIMB 400
2 SO3277

Shewanella amazonensis SB2B
2 SO3277

Shewanella loihica PV-4
2 SO3277

Shewanella pealeana ATCC 700345
2 SO3277

Shewanella halifaxensis HAW-EB4
2 SO3277

Shewanella piezotolerans WP3
2 SO3277

Shewanella sediminis HAW-EB3
2 SO3277

Shewanella woodyi ATCC 51908
Multidrug resistance
TF SO3393
2 SO3393

Shewanella oneidensis MR-1
2 SO3393

Shewanella putrefaciens CN-32
2 SO3393

Shewanella sp W3-18-1
2 SO3393

Shewanella sp ANA-3
2 SO3393

Shewanella sp MR-4
2 SO3393

Shewanella sp MR-7
2 SO3393

Shewanella baltica OS155
2 SO3393

Shewanella denitrificans OS217
2 SO3393

Shewanella frigidimarina NCIMB 400
2 SO3393

Shewanella amazonensis SB2B
2 SO3393

Shewanella loihica PV-4
2 SO3393

Shewanella piezotolerans WP3
2 SO3393

Shewanella sediminis HAW-EB3
2 SO3393

Shewanella woodyi ATCC 51908
Drug resistance
TF SO3494
2 SO3494

Shewanella oneidensis MR-1
2 SO3494

Shewanella putrefaciens CN-32
2 SO3494

Shewanella sp W3-18-1
2 SO3494

Shewanella sp ANA-3
2 SO3494

Shewanella sp MR-4
2 SO3494

Shewanella sp MR-7
2 SO3494

Shewanella baltica OS155
1 SO3494

Shewanella denitrificans OS217
2 SO3494

Shewanella frigidimarina NCIMB 400
Multidrug resistance
TF SO3627
2 SO3627

Shewanella oneidensis MR-1
2 SO3627

Shewanella sediminis HAW-EB3
TF SO4326
1 SO4326

Shewanella oneidensis MR-1
1 SO4326

Shewanella sp ANA-3
1 SO4326

Shewanella amazonensis SB2B
1 SO4326

Shewanella pealeana ATCC 700345
1 SO4326

Shewanella halifaxensis HAW-EB4
1 SO4326

Shewanella piezotolerans WP3
1 SO4326

Shewanella sediminis HAW-EB3
1 SO4326

Shewanella woodyi ATCC 51908
Multidrug resistance
TF SO4468
2 SO4468

Shewanella oneidensis MR-1
2 SO4468

Shewanella putrefaciens CN-32
2 SO4468

Shewanella sp W3-18-1
2 SO4468

Shewanella sp ANA-3
2 SO4468

Shewanella sp MR-4
2 SO4468

Shewanella sp MR-7
2 SO4468

Shewanella baltica OS155
2 SO4468

Shewanella denitrificans OS217
2 SO4468

Shewanella amazonensis SB2B
2 SO4468

Shewanella piezotolerans WP3
2 SO4468

Shewanella sediminis HAW-EB3
TrpR TF TrpR
2 TrpR

Shewanella oneidensis MR-1
2 TrpR

Shewanella putrefaciens CN-32
2 TrpR

Shewanella sp W3-18-1
2 TrpR

Shewanella sp ANA-3
2 TrpR

Shewanella sp MR-4
2 TrpR

Shewanella sp MR-7
2 TrpR

Shewanella baltica OS155
2 TrpR

Shewanella denitrificans OS217
2 TrpR

Shewanella frigidimarina NCIMB 400
1 TrpR

Shewanella amazonensis SB2B
1 TrpR

Shewanella loihica PV-4
2 TrpR

Shewanella pealeana ATCC 700345
2 TrpR

Shewanella halifaxensis HAW-EB4
2 TrpR

Shewanella piezotolerans WP3
2 TrpR

Shewanella sediminis HAW-EB3
2 TrpR

Shewanella woodyi ATCC 51908
Aromatic amino acid metabolism
TyrR TF TyrR
17 TyrR

Shewanella oneidensis MR-1
19 TyrR

Shewanella putrefaciens CN-32
19 TyrR

Shewanella sp W3-18-1
18 TyrR

Shewanella sp ANA-3
18 TyrR

Shewanella sp MR-4
18 TyrR

Shewanella sp MR-7
19 TyrR

Shewanella baltica OS155
18 TyrR

Shewanella denitrificans OS217
15 TyrR

Shewanella frigidimarina NCIMB 400
18 TyrR

Shewanella amazonensis SB2B
15 TyrR

Shewanella loihica PV-4
16 TyrR

Shewanella pealeana ATCC 700345
14 TyrR

Shewanella halifaxensis HAW-EB4
16 TyrR

Shewanella piezotolerans WP3
15 TyrR

Shewanella sediminis HAW-EB3
17 TyrR

Shewanella woodyi ATCC 51908
Amino acid utilization
XRE TF SO4705
2 SO4705

Shewanella oneidensis MR-1
2 SO4705

Shewanella putrefaciens CN-32
2 SO4705

Shewanella sp W3-18-1
2 SO4705

Shewanella sp ANA-3
2 SO4705

Shewanella sp MR-4
2 SO4705

Shewanella sp MR-7
2 SO4705

Shewanella baltica OS155
2 SO4705

Shewanella denitrificans OS217
2 SO4705

Shewanella frigidimarina NCIMB 400
2 SO4705

Shewanella amazonensis SB2B
2 SO4705

Shewanella loihica PV-4
2 SO4705

Shewanella pealeana ATCC 700345
2 SO4705

Shewanella halifaxensis HAW-EB4
2 SO4705

Shewanella piezotolerans WP3
2 SO4705

Shewanella sediminis HAW-EB3
2 SO4705

Shewanella woodyi ATCC 51908
[Other] TF AzrR
2 AzrR

Shewanella oneidensis MR-1
2 AzrR

Shewanella putrefaciens CN-32
2 AzrR

Shewanella sp W3-18-1
2 AzrR

Shewanella sp ANA-3
2 AzrR

Shewanella sp MR-4
2 AzrR

Shewanella sp MR-7
2 AzrR

Shewanella baltica OS155
2 AzrR

Shewanella amazonensis SB2B
2 AzrR

Shewanella loihica PV-4
2 AzrR

Shewanella pealeana ATCC 700345
2 AzrR

Shewanella halifaxensis HAW-EB4
2 AzrR

Shewanella piezotolerans WP3
2 AzrR

Shewanella sediminis HAW-EB3
2 AzrR

Shewanella woodyi ATCC 51908
Superoxide stress response
TF PUR
4 PUR

Shewanella oneidensis MR-1
4 PUR

Shewanella putrefaciens CN-32
4 PUR

Shewanella sp W3-18-1
4 PUR

Shewanella sp ANA-3
4 PUR

Shewanella sp MR-4
4 PUR

Shewanella sp MR-7
4 PUR

Shewanella baltica OS155
2 PUR

Shewanella denitrificans OS217
3 PUR

Shewanella frigidimarina NCIMB 400
3 PUR

Shewanella amazonensis SB2B
4 PUR

Shewanella loihica PV-4
4 PUR

Shewanella pealeana ATCC 700345
4 PUR

Shewanella halifaxensis HAW-EB4
4 PUR

Shewanella piezotolerans WP3
4 PUR

Shewanella sediminis HAW-EB3
4 PUR

Shewanella woodyi ATCC 51908
Purine metabolism
TF SO1758
1 SO1758

Shewanella oneidensis MR-1
1 SO1758

Shewanella putrefaciens CN-32
1 SO1758

Shewanella sp W3-18-1
1 SO1758

Shewanella sp ANA-3
1 SO1758

Shewanella sp MR-4
1 SO1758

Shewanella sp MR-7
1 SO1758

Shewanella baltica OS155
1 SO1758

Shewanella amazonensis SB2B
1 SO1758

Shewanella loihica PV-4
1 SO1758

Shewanella sediminis HAW-EB3
1 SO1758

Shewanella woodyi ATCC 51908
TF TsrR
2 TsrR

Shewanella oneidensis MR-1
2 TsrR

Shewanella putrefaciens CN-32
2 TsrR

Shewanella sp W3-18-1
2 TsrR

Shewanella sp ANA-3
2 TsrR

Shewanella sp MR-4
2 TsrR

Shewanella sp MR-7
2 TsrR

Shewanella loihica PV-4
3 TsrR

Shewanella pealeana ATCC 700345
3 TsrR

Shewanella halifaxensis HAW-EB4
2 TsrR

Shewanella piezotolerans WP3
3 TsrR

Shewanella sediminis HAW-EB3
3 TsrR

Shewanella woodyi ATCC 51908
Thiosulfate reduction
RF00050 RNA FMN
1 FMN

Shewanella oneidensis MR-1
1 FMN

Shewanella putrefaciens CN-32
1 FMN

Shewanella sp W3-18-1
1 FMN

Shewanella sp ANA-3
1 FMN

Shewanella sp MR-4
1 FMN

Shewanella sp MR-7
1 FMN

Shewanella baltica OS155
1 FMN

Shewanella frigidimarina NCIMB 400
1 FMN

Shewanella amazonensis SB2B
1 FMN

Shewanella loihica PV-4
1 FMN

Shewanella pealeana ATCC 700345
1 FMN

Shewanella halifaxensis HAW-EB4
1 FMN

Shewanella piezotolerans WP3
1 FMN

Shewanella sediminis HAW-EB3
1 FMN

Shewanella woodyi ATCC 51908
Riboflavin biosynthesis
RF00059 RNA TPP
2 TPP

Shewanella oneidensis MR-1
2 TPP

Shewanella putrefaciens CN-32
2 TPP

Shewanella sp W3-18-1
2 TPP

Shewanella sp ANA-3
2 TPP

Shewanella sp MR-4
2 TPP

Shewanella sp MR-7
1 TPP

Shewanella baltica OS155
2 TPP

Shewanella denitrificans OS217
2 TPP

Shewanella frigidimarina NCIMB 400
2 TPP

Shewanella amazonensis SB2B
2 TPP

Shewanella loihica PV-4
2 TPP

Shewanella pealeana ATCC 700345
2 TPP

Shewanella halifaxensis HAW-EB4
2 TPP

Shewanella piezotolerans WP3
2 TPP

Shewanella sediminis HAW-EB3
2 TPP

Shewanella woodyi ATCC 51908
Thiamine biosynthesis
RF00080 RNA yybP-ykoY
1 yybP-ykoY

Shewanella oneidensis MR-1
1 yybP-ykoY

Shewanella putrefaciens CN-32
1 yybP-ykoY

Shewanella sp W3-18-1
1 yybP-ykoY

Shewanella sp ANA-3
1 yybP-ykoY

Shewanella sp MR-4
1 yybP-ykoY

Shewanella sp MR-7
1 yybP-ykoY

Shewanella baltica OS155
1 yybP-ykoY

Shewanella denitrificans OS217
1 yybP-ykoY

Shewanella frigidimarina NCIMB 400
2 yybP-ykoY

Shewanella amazonensis SB2B
1 yybP-ykoY

Shewanella loihica PV-4
2 yybP-ykoY

Shewanella pealeana ATCC 700345
2 yybP-ykoY

Shewanella halifaxensis HAW-EB4
1 yybP-ykoY

Shewanella piezotolerans WP3
1 yybP-ykoY

Shewanella sediminis HAW-EB3
1 yybP-ykoY

Shewanella woodyi ATCC 51908
RF00114 RNA S15
1 S15

Shewanella oneidensis MR-1
1 S15

Shewanella putrefaciens CN-32
1 S15

Shewanella sp W3-18-1
1 S15

Shewanella sp ANA-3
1 S15

Shewanella sp MR-4
1 S15

Shewanella sp MR-7
1 S15

Shewanella baltica OS155
1 S15

Shewanella denitrificans OS217
1 S15

Shewanella frigidimarina NCIMB 400
1 S15

Shewanella amazonensis SB2B
1 S15

Shewanella loihica PV-4
1 S15

Shewanella pealeana ATCC 700345
1 S15

Shewanella halifaxensis HAW-EB4
1 S15

Shewanella piezotolerans WP3
1 S15

Shewanella sediminis HAW-EB3
1 S15

Shewanella woodyi ATCC 51908
Ribosome biogenesis
RF00167 RNA Purine
2 Purine

Shewanella pealeana ATCC 700345
2 Purine

Shewanella halifaxensis HAW-EB4
1 Purine

Shewanella piezotolerans WP3
1 Purine

Shewanella sediminis HAW-EB3
1 Purine

Shewanella woodyi ATCC 51908
Purine metabolism
RF00168 RNA Lysine
3 Lysine

Shewanella oneidensis MR-1
2 Lysine

Shewanella putrefaciens CN-32
2 Lysine

Shewanella sp W3-18-1
2 Lysine

Shewanella sp ANA-3
2 Lysine

Shewanella sp MR-4
2 Lysine

Shewanella sp MR-7
2 Lysine

Shewanella baltica OS155
2 Lysine

Shewanella denitrificans OS217
2 Lysine

Shewanella frigidimarina NCIMB 400
2 Lysine

Shewanella amazonensis SB2B
2 Lysine

Shewanella loihica PV-4
3 Lysine

Shewanella pealeana ATCC 700345
3 Lysine

Shewanella halifaxensis HAW-EB4
2 Lysine

Shewanella piezotolerans WP3
2 Lysine

Shewanella sediminis HAW-EB3
2 Lysine

Shewanella woodyi ATCC 51908
Lysine biosynthesis
RF00174 RNA Cobalamin
2 Cobalamin

Shewanella oneidensis MR-1
2 Cobalamin

Shewanella putrefaciens CN-32
2 Cobalamin

Shewanella sp W3-18-1
2 Cobalamin

Shewanella sp ANA-3
2 Cobalamin

Shewanella sp MR-4
2 Cobalamin

Shewanella sp MR-7
2 Cobalamin

Shewanella baltica OS155
1 Cobalamin

Shewanella denitrificans OS217
2 Cobalamin

Shewanella frigidimarina NCIMB 400
2 Cobalamin

Shewanella amazonensis SB2B
2 Cobalamin

Shewanella loihica PV-4
2 Cobalamin

Shewanella pealeana ATCC 700345
2 Cobalamin

Shewanella halifaxensis HAW-EB4
2 Cobalamin

Shewanella piezotolerans WP3
5 Cobalamin

Shewanella sediminis HAW-EB3
2 Cobalamin

Shewanella woodyi ATCC 51908
Cobalamin biosynthesis
RF00504 RNA Glycine
1 Glycine

Shewanella oneidensis MR-1
1 Glycine

Shewanella putrefaciens CN-32
1 Glycine

Shewanella sp W3-18-1
1 Glycine

Shewanella sp ANA-3
1 Glycine

Shewanella sp MR-4
1 Glycine

Shewanella sp MR-7
1 Glycine

Shewanella baltica OS155
1 Glycine

Shewanella amazonensis SB2B
1 Glycine

Shewanella loihica PV-4
1 Glycine

Shewanella pealeana ATCC 700345
1 Glycine

Shewanella halifaxensis HAW-EB4
1 Glycine

Shewanella piezotolerans WP3
1 Glycine

Shewanella sediminis HAW-EB3
1 Glycine

Shewanella woodyi ATCC 51908
Glycine metabolism
RF00506 RNA Thr_leader
1 Thr_leader

Shewanella oneidensis MR-1
1 Thr_leader

Shewanella putrefaciens CN-32
1 Thr_leader

Shewanella sp W3-18-1
1 Thr_leader

Shewanella sp ANA-3
1 Thr_leader

Shewanella sp MR-4
1 Thr_leader

Shewanella sp MR-7
1 Thr_leader

Shewanella baltica OS155
1 Thr_leader

Shewanella denitrificans OS217
1 Thr_leader

Shewanella frigidimarina NCIMB 400
1 Thr_leader

Shewanella amazonensis SB2B
1 Thr_leader

Shewanella loihica PV-4
1 Thr_leader

Shewanella pealeana ATCC 700345
1 Thr_leader

Shewanella halifaxensis HAW-EB4
1 Thr_leader

Shewanella piezotolerans WP3
1 Thr_leader

Shewanella sediminis HAW-EB3
1 Thr_leader

Shewanella woodyi ATCC 51908
Threonine biosynthesis
RF00512 RNA Leu_leader
1 Leu_leader

Shewanella oneidensis MR-1
1 Leu_leader

Shewanella putrefaciens CN-32
1 Leu_leader

Shewanella sp W3-18-1
1 Leu_leader

Shewanella sp ANA-3
1 Leu_leader

Shewanella sp MR-4
1 Leu_leader

Shewanella sp MR-7
1 Leu_leader

Shewanella baltica OS155
1 Leu_leader

Shewanella denitrificans OS217
1 Leu_leader

Shewanella frigidimarina NCIMB 400
1 Leu_leader

Shewanella amazonensis SB2B
1 Leu_leader

Shewanella loihica PV-4
1 Leu_leader

Shewanella pealeana ATCC 700345
1 Leu_leader

Shewanella halifaxensis HAW-EB4
1 Leu_leader

Shewanella piezotolerans WP3
1 Leu_leader

Shewanella sediminis HAW-EB3
1 Leu_leader

Shewanella woodyi ATCC 51908
Branched-chain amino acid biosynthesis
RF00513 RNA Trp_leader
1 Trp_leader

Shewanella oneidensis MR-1
1 Trp_leader

Shewanella putrefaciens CN-32
1 Trp_leader

Shewanella sp W3-18-1
1 Trp_leader

Shewanella sp ANA-3
1 Trp_leader

Shewanella sp MR-4
1 Trp_leader

Shewanella sp MR-7
1 Trp_leader

Shewanella baltica OS155
1 Trp_leader

Shewanella denitrificans OS217
1 Trp_leader

Shewanella frigidimarina NCIMB 400
1 Trp_leader

Shewanella amazonensis SB2B
1 Trp_leader

Shewanella loihica PV-4
1 Trp_leader

Shewanella pealeana ATCC 700345
1 Trp_leader

Shewanella halifaxensis HAW-EB4
1 Trp_leader

Shewanella piezotolerans WP3
1 Trp_leader

Shewanella sediminis HAW-EB3
1 Trp_leader

Shewanella woodyi ATCC 51908
Tryptophan biosynthesis
RF00514 RNA His_leader
1 His_leader

Shewanella oneidensis MR-1
1 His_leader

Shewanella putrefaciens CN-32
1 His_leader

Shewanella sp W3-18-1
1 His_leader

Shewanella sp ANA-3
1 His_leader

Shewanella sp MR-4
1 His_leader

Shewanella sp MR-7
1 His_leader

Shewanella baltica OS155
1 His_leader

Shewanella denitrificans OS217
1 His_leader

Shewanella frigidimarina NCIMB 400
1 His_leader

Shewanella amazonensis SB2B
1 His_leader

Shewanella loihica PV-4
1 His_leader

Shewanella pealeana ATCC 700345
1 His_leader

Shewanella halifaxensis HAW-EB4
1 His_leader

Shewanella piezotolerans WP3
1 His_leader

Shewanella sediminis HAW-EB3
1 His_leader

Shewanella woodyi ATCC 51908
Histidine biosynthesis
RF01051 RNA GEMM_RNA_motif
1 GEMM_RNA_motif

Shewanella oneidensis MR-1
1 GEMM_RNA_motif

Shewanella sp W3-18-1
1 GEMM_RNA_motif

Shewanella sp ANA-3
3 GEMM_RNA_motif

Shewanella sp MR-4
3 GEMM_RNA_motif

Shewanella sp MR-7
2 GEMM_RNA_motif

Shewanella baltica OS155
1 GEMM_RNA_motif

Shewanella denitrificans OS217
1 GEMM_RNA_motif

Shewanella loihica PV-4
1 GEMM_RNA_motif

Shewanella pealeana ATCC 700345
2 GEMM_RNA_motif

Shewanella halifaxensis HAW-EB4
1 GEMM_RNA_motif

Shewanella piezotolerans WP3
1 GEMM_RNA_motif

Shewanella sediminis HAW-EB3
2 GEMM_RNA_motif

Shewanella woodyi ATCC 51908
Second messenger response
RF01055 RNA MOCO_RNA_motif
1 MOCO_RNA_motif

Shewanella oneidensis MR-1
1 MOCO_RNA_motif

Shewanella putrefaciens CN-32
1 MOCO_RNA_motif

Shewanella sp W3-18-1
1 MOCO_RNA_motif

Shewanella sp ANA-3
1 MOCO_RNA_motif

Shewanella sp MR-4
1 MOCO_RNA_motif

Shewanella sp MR-7
1 MOCO_RNA_motif

Shewanella baltica OS155
1 MOCO_RNA_motif

Shewanella denitrificans OS217
1 MOCO_RNA_motif

Shewanella frigidimarina NCIMB 400
1 MOCO_RNA_motif

Shewanella amazonensis SB2B
1 MOCO_RNA_motif

Shewanella loihica PV-4
1 MOCO_RNA_motif

Shewanella pealeana ATCC 700345
1 MOCO_RNA_motif

Shewanella halifaxensis HAW-EB4
1 MOCO_RNA_motif

Shewanella piezotolerans WP3
1 MOCO_RNA_motif

Shewanella sediminis HAW-EB3
1 MOCO_RNA_motif

Shewanella woodyi ATCC 51908
Molybdopterin biosynthesis; Molybdenum homeostasis
RF01068 RNA mini-ykkC
1 mini-ykkC

Shewanella oneidensis MR-1
1 mini-ykkC

Shewanella putrefaciens CN-32
1 mini-ykkC

Shewanella sp W3-18-1
1 mini-ykkC

Shewanella sp ANA-3
1 mini-ykkC

Shewanella sp MR-4
1 mini-ykkC

Shewanella sp MR-7
1 mini-ykkC

Shewanella baltica OS155
Multidrug resistance