These table show the average effect on the genes associated to the pathway. Click for details.
pathway | genes | glucose | succinate | citrate | |||||||||
---|---|---|---|---|---|---|---|---|---|---|---|---|---|
ΔTn6212 | Δ3 | ΔLysR | ΔdctT | ΔTn6212 | Δ3 | ΔLysR | ΔdctT | ΔTn6212 | Δ3 | ΔLysR | ΔdctT | ||
Metabolic pathways | 714 | -0.0633 |
-0.036 |
-0.0116 |
-0.149 |
0.023 |
0.0642 |
0.0485 |
-0.0222 |
0.055 |
0.0254 |
0.002 |
0.0665 |
Biosynthesis of secondary metabolites | 289 | -0.0541 |
-0.0447 |
-0.00564 |
-0.164 |
0.0826 |
0.108 |
0.0962 |
0.0208 |
0.0618 |
0.00527 |
-0.014 |
0.0592 |
Microbial metabolism in diverse environments | 216 | -0.0717 |
-0.0526 |
-0.0174 |
-0.216 |
-0.00525 |
0.0356 |
0.0225 |
-0.0708 |
0.105 |
0.0637 |
0.0212 |
0.1 |
Biosynthesis of antibiotics | 202 | -0.0702 |
-0.0597 |
-0.013 |
-0.202 |
0.104 |
0.117 |
0.109 |
0.0272 |
0.0766 |
0.00583 |
-0.0174 |
0.0494 |
Carbon metabolism | 97 | -0.0309 |
-0.046 |
0.00845 |
-0.225 |
0.0668 |
0.0779 |
0.0816 |
-0.00282 |
0.143 |
0.0474 |
0.00766 |
0.11 |
2-Oxocarboxylic acid metabolism | 26 | -0.128 |
-0.102 |
-0.0215 |
-0.267 |
0.108 |
0.218 |
0.146 |
0.0892 |
0.0236 |
-0.0202 |
-0.0547 |
-0.0707 |
Fatty acid metabolism | 34 | -0.0488 |
-0.0122 |
0.0249 |
-0.139 |
0.085 |
0.0673 |
0.0916 |
0.0755 |
0.0952 |
0.0746 |
0.04 |
0.123 |
Biosynthesis of amino acids | 115 | -0.0546 |
-0.0901 |
-0.011 |
-0.211 |
0.183 |
0.174 |
0.17 |
0.0965 |
0.0604 |
-0.0508 |
-0.0647 |
-0.0211 |
Degradation of aromatic compounds | 14 | -0.168 |
-0.0154 |
-0.117 |
-0.223 |
-0.185 |
-0.12 |
-0.201 |
-0.258 |
-0.0588 |
-0.0626 |
-0.0719 |
0.00469 |
pathway | genes | glucose | succinate | citrate | |||||||||
---|---|---|---|---|---|---|---|---|---|---|---|---|---|
ΔTn6212 | Δ3 | ΔLysR | ΔdctT | ΔTn6212 | Δ3 | ΔLysR | ΔdctT | ΔTn6212 | Δ3 | ΔLysR | ΔdctT | ||
Glycolysis / Gluconeogenesis | 24 | 0.105 |
-0.0892 |
0.0183 |
-0.304 |
0.29 |
0.165 |
0.139 |
-0.00409 |
0.337 |
0.0492 |
0.0393 |
0.13 |
Citrate cycle (TCA cycle) | 22 | -0.142 |
-0.0799 |
-0.0402 |
-0.333 |
0.177 |
0.261 |
0.217 |
0.138 |
0.0962 |
0.0413 |
0.00554 |
0.129 |
Pentose phosphate pathway | 27 | -0.0596 |
-0.0213 |
0.0434 |
-0.18 |
-0.0324 |
0.0568 |
0.0615 |
-0.0903 |
0.145 |
0.114 |
0.0679 |
0.185 |
Pentose and glucuronate interconversions | 7 | -0.061 |
-0.0327 |
0.0638 |
-0.215 |
0.0648 |
0.0908 |
0.152 |
0.12 |
0.0616 |
-0.0367 |
-0.0405 |
0.0449 |
Fructose and mannose metabolism | 18 | -0.0919 |
-0.0583 |
-0.0124 |
-0.18 |
0.0366 |
0.116 |
0.126 |
0.0679 |
0.0713 |
0.0395 |
-0.0112 |
0.0682 |
Galactose metabolism | 7 | -0.0478 |
-0.0589 |
0.0756 |
-0.189 |
0.098 |
0.187 |
0.137 |
0.014 |
0.113 |
0.0505 |
0.0387 |
0.109 |
Ascorbate and aldarate metabolism | 9 | -0.0865 |
-0.0107 |
0.0247 |
-0.262 |
0.0993 |
0.0379 |
0.133 |
0.101 |
-0.0704 |
-0.076 |
-0.151 |
-0.112 |
Starch and sucrose metabolism | 22 | 0.0713 |
-0.00849 |
0.12 |
-0.0538 |
-0.0549 |
0.0744 |
0.0268 |
-0.01 |
0.151 |
0.159 |
0.123 |
0.239 |
Amino sugar and nucleotide sugar metabolism | 28 | -0.0559 |
-0.0463 |
0.0312 |
-0.167 |
0.122 |
0.17 |
0.168 |
0.153 |
0.115 |
0.0507 |
0.0289 |
0.114 |
Pyruvate metabolism | 38 | -0.105 |
-0.0709 |
-0.00675 |
-0.29 |
0.0728 |
0.149 |
0.142 |
0.0544 |
0.119 |
0.0602 |
0.0282 |
0.128 |
Glyoxylate and dicarboxylate metabolism | 36 | -0.0769 |
-0.0581 |
0.00417 |
-0.207 |
-0.154 |
-0.0707 |
-0.0576 |
-0.17 |
0.1 |
0.0816 |
0.031 |
0.15 |
Propanoate metabolism | 30 | -0.106 |
-0.0261 |
-0.016 |
-0.255 |
-0.131 |
0.017 |
-0.0216 |
-0.16 |
0.102 |
0.0733 |
0.0268 |
0.125 |
Butanoate metabolism | 28 | -0.0911 |
-0.0173 |
-0.0365 |
-0.204 |
-0.0997 |
0.00742 |
-0.0693 |
-0.112 |
0.0574 |
0.0703 |
0.0325 |
0.106 |
C5-Branched dibasic acid metabolism | 6 | -0.169 |
-0.107 |
-0.0572 |
-0.286 |
0.322 |
0.401 |
0.322 |
0.397 |
-0.129 |
-0.193 |
-0.182 |
-0.182 |
Inositol phosphate metabolism | 15 | -0.0812 |
0.0089 |
-0.0344 |
-0.225 |
-0.031 |
0.011 |
0.0173 |
-0.208 |
0.0743 |
0.045 |
-0.0144 |
0.0832 |
pathway | genes | glucose | succinate | citrate | |||||||||
---|---|---|---|---|---|---|---|---|---|---|---|---|---|
ΔTn6212 | Δ3 | ΔLysR | ΔdctT | ΔTn6212 | Δ3 | ΔLysR | ΔdctT | ΔTn6212 | Δ3 | ΔLysR | ΔdctT | ||
Oxidative phosphorylation | 33 | 0.139 |
0.027 |
0.0199 |
-0.0089 |
0.369 |
0.178 |
0.155 |
0.0874 |
0.216 |
0.0896 |
0.064 |
0.113 |
Photosynthesis | 7 | -0.0855 |
0.0233 |
-0.0296 |
-0.147 |
0.472 |
0.352 |
0.36 |
0.26 |
0.0675 |
0.0362 |
0.0273 |
0.111 |
Carbon fixation in photosynthetic organisms | 14 | -0.0753 |
-0.0905 |
0.0182 |
-0.203 |
0.221 |
0.236 |
0.268 |
0.19 |
0.00881 |
-0.106 |
-0.0772 |
-0.00407 |
Carbon fixation pathways in prokaryotes | 28 | -0.0619 |
-0.02 |
0.029 |
-0.194 |
0.0968 |
0.12 |
0.148 |
0.142 |
0.11 |
0.074 |
0.0194 |
0.12 |
Methane metabolism | 17 | 0.213 |
-0.0884 |
0.0215 |
-0.265 |
0.35 |
0.0966 |
0.117 |
0.0372 |
0.374 |
0.0134 |
-0.0273 |
0.0471 |
Nitrogen metabolism | 13 | -0.142 |
-0.0956 |
-0.043 |
-0.229 |
-0.00984 |
-0.0241 |
0.0489 |
-0.119 |
0.0772 |
0.0878 |
0.0585 |
0.108 |
Sulfur metabolism | 35 | -0.178 |
-0.0571 |
-0.0634 |
-0.378 |
-0.558 |
-0.426 |
-0.304 |
-0.182 |
-0.174 |
-0.0688 |
-0.173 |
-0.396 |
pathway | genes | glucose | succinate | citrate | |||||||||
---|---|---|---|---|---|---|---|---|---|---|---|---|---|
ΔTn6212 | Δ3 | ΔLysR | ΔdctT | ΔTn6212 | Δ3 | ΔLysR | ΔdctT | ΔTn6212 | Δ3 | ΔLysR | ΔdctT | ||
Fatty acid biosynthesis | 23 | -0.0443 |
-0.0109 |
0.0143 |
-0.105 |
0.177 |
0.119 |
0.152 |
0.174 |
0.0792 |
0.0272 |
0.019 |
0.0826 |
Fatty acid degradation | 17 | -0.0948 |
-0.0468 |
-0.0095 |
-0.243 |
-0.0678 |
0.00202 |
-0.00531 |
-0.127 |
0.0856 |
0.109 |
0.0398 |
0.142 |
Synthesis and degradation of ketone bodies | 7 | -0.0688 |
-0.0274 |
0.0321 |
-0.252 |
-0.0372 |
-0.0441 |
0.00206 |
-0.0695 |
0.0479 |
0.0598 |
0.000582 |
0.0637 |
Glycerolipid metabolism | 6 | 0.073 |
0.0571 |
0.0109 |
0.0238 |
0.198 |
0.227 |
0.212 |
0.17 |
0.0691 |
0.0157 |
0.051 |
0.137 |
Glycerophospholipid metabolism | 20 | 0.0259 |
0.0191 |
0.0406 |
-0.0167 |
-0.036 |
0.0591 |
0.0146 |
-0.0688 |
0.149 |
0.14 |
0.11 |
0.218 |
Ether lipid metabolism | 2 | 0.105 |
0.02 |
0.0658 |
-0.0185 |
-0.0729 |
-0.0652 |
-0.0123 |
0.0667 |
0.126 |
0.116 |
0.124 |
0.206 |
Arachidonic acid metabolism | 3 | -0.0792 |
0.00946 |
-0.0477 |
-0.129 |
-0.256 |
-0.121 |
-0.199 |
-0.36 |
0.023 |
-0.0417 |
0.0193 |
0.0175 |
alpha-Linolenic acid metabolism | 2 | -0.146 |
-0.0832 |
0.0412 |
-0.367 |
-0.0327 |
-0.0197 |
0.00865 |
-0.223 |
0.195 |
0.282 |
0.197 |
0.325 |
Biosynthesis of unsaturated fatty acids | 3 | -0.0514 |
-0.0256 |
-0.0787 |
0.0449 |
-0.233 |
-0.104 |
-0.224 |
-0.45 |
0.13 |
0.111 |
0.0607 |
0.19 |
pathway | genes | glucose | succinate | citrate | |||||||||
---|---|---|---|---|---|---|---|---|---|---|---|---|---|
ΔTn6212 | Δ3 | ΔLysR | ΔdctT | ΔTn6212 | Δ3 | ΔLysR | ΔdctT | ΔTn6212 | Δ3 | ΔLysR | ΔdctT | ||
Purine metabolism | 61 | -0.0669 |
-0.0335 |
-0.00261 |
-0.129 |
-0.0138 |
0.0552 |
0.0331 |
-0.0616 |
0.0397 |
0.0368 |
0.0135 |
0.0762 |
Pyrimidine metabolism | 26 | -0.117 |
-0.0332 |
-0.0523 |
-0.158 |
0.0705 |
0.0763 |
0.0825 |
-0.034 |
-0.0166 |
-0.0539 |
-0.0268 |
-0.00409 |
pathway | genes | glucose | succinate | citrate | |||||||||
---|---|---|---|---|---|---|---|---|---|---|---|---|---|
ΔTn6212 | Δ3 | ΔLysR | ΔdctT | ΔTn6212 | Δ3 | ΔLysR | ΔdctT | ΔTn6212 | Δ3 | ΔLysR | ΔdctT | ||
Alanine, aspartate and glutamate metabolism | 29 | -0.106 |
-0.0901 |
-0.0166 |
-0.266 |
-0.048 |
0.119 |
0.0246 |
-0.173 |
0.173 |
0.116 |
0.0975 |
0.248 |
Glycine, serine and threonine metabolism | 41 | -0.13 |
-0.0795 |
-0.0128 |
-0.277 |
-0.12 |
-0.00426 |
-0.0516 |
-0.153 |
0.059 |
0.0475 |
-0.00681 |
0.0474 |
Cysteine and methionine metabolism | 33 | -0.103 |
-0.107 |
-0.0136 |
-0.231 |
0.057 |
0.0937 |
0.106 |
0.0432 |
-0.00128 |
-0.041 |
-0.0612 |
-0.00206 |
Valine, leucine and isoleucine degradation | 23 | -0.0851 |
-0.0191 |
-0.00737 |
-0.24 |
-0.177 |
-0.0748 |
-0.0809 |
-0.288 |
0.0798 |
0.0904 |
0.024 |
0.138 |
Valine, leucine and isoleucine biosynthesis | 11 | -0.122 |
-0.114 |
-0.0396 |
-0.223 |
0.245 |
0.288 |
0.267 |
0.302 |
-0.0907 |
-0.158 |
-0.138 |
-0.142 |
Lysine biosynthesis | 15 | -0.182 |
-0.11 |
-0.0415 |
-0.311 |
0.202 |
0.238 |
0.207 |
0.119 |
0.0851 |
0.0258 |
-0.00893 |
0.0296 |
Lysine degradation | 21 | -0.111 |
-0.0474 |
-0.0235 |
-0.255 |
-0.315 |
-0.156 |
-0.22 |
-0.262 |
0.0946 |
0.119 |
0.0657 |
0.182 |
Arginine biosynthesis | 22 | -0.1 |
-0.0726 |
-0.0207 |
-0.202 |
-0.0333 |
0.0293 |
-0.0177 |
-0.119 |
0.0181 |
0.0102 |
-0.000563 |
0.067 |
Arginine and proline metabolism | 29 | -0.111 |
-0.0838 |
-0.0314 |
-0.24 |
-0.123 |
0.0236 |
-0.0352 |
-0.211 |
0.0996 |
0.0452 |
0.0319 |
0.141 |
Histidine metabolism | 16 | -0.0374 |
0.0134 |
-0.0157 |
-0.06 |
0.115 |
0.11 |
0.111 |
0.0696 |
-0.00121 |
0.00835 |
-0.0238 |
0.0401 |
Tyrosine metabolism | 16 | -0.147 |
-0.0767 |
-0.0721 |
-0.283 |
-0.14 |
-0.0134 |
-0.0587 |
-0.309 |
0.0941 |
0.0788 |
0.0209 |
0.104 |
Phenylalanine metabolism | 22 | -0.106 |
-0.0761 |
-0.0491 |
-0.202 |
-0.111 |
-0.0337 |
-0.0138 |
-0.106 |
-0.00233 |
0.0133 |
-0.0683 |
0.0156 |
Tryptophan metabolism | 19 | -0.112 |
-0.0495 |
-0.0231 |
-0.28 |
-0.0489 |
-0.00951 |
0.0536 |
-0.0202 |
0.0652 |
0.0582 |
-0.0108 |
0.0862 |
Phenylalanine, tyrosine and tryptophan biosynthesis | 24 | -0.107 |
-0.0966 |
-0.0417 |
-0.209 |
0.0957 |
0.12 |
0.125 |
0.0856 |
-0.0175 |
-0.0886 |
-0.124 |
-0.0654 |
pathway | genes | glucose | succinate | citrate | |||||||||
---|---|---|---|---|---|---|---|---|---|---|---|---|---|
ΔTn6212 | Δ3 | ΔLysR | ΔdctT | ΔTn6212 | Δ3 | ΔLysR | ΔdctT | ΔTn6212 | Δ3 | ΔLysR | ΔdctT | ||
beta-Alanine metabolism | 11 | -0.114 |
-0.0153 |
-0.0386 |
-0.24 |
-0.291 |
-0.0429 |
-0.148 |
-0.439 |
0.0795 |
0.057 |
0.019 |
0.118 |
Taurine and hypotaurine metabolism | 3 | -0.314 |
-0.0777 |
-0.0837 |
-0.541 |
-0.555 |
-0.384 |
-0.286 |
-0.321 |
-0.176 |
-0.128 |
-0.239 |
-0.258 |
Phosphonate and phosphinate metabolism | 5 | -0.166 |
0.0984 |
-0.242 |
-0.102 |
-0.342 |
-0.303 |
-0.239 |
-0.365 |
0.19 |
0.41 |
0.188 |
0.291 |
Selenocompound metabolism | 7 | -0.0643 |
-0.131 |
0.026 |
-0.215 |
0.28 |
0.215 |
0.321 |
0.455 |
-0.138 |
-0.161 |
-0.163 |
-0.233 |
Cyanoamino acid metabolism | 7 | -0.122 |
-0.102 |
0.0107 |
-0.222 |
0.311 |
0.265 |
0.29 |
0.303 |
-0.0329 |
-0.113 |
-0.109 |
-0.0582 |
D-Glutamine and D-glutamate metabolism | 4 | -0.15 |
-0.144 |
-0.0599 |
-0.0404 |
-0.0306 |
0.0271 |
-0.000401 |
0.0698 |
0.0185 |
-0.0482 |
-0.0235 |
0.0734 |
D-Alanine metabolism | 3 | -0.0421 |
-0.0654 |
-0.0342 |
-0.0656 |
-0.309 |
-0.139 |
-0.247 |
-0.301 |
0.209 |
0.114 |
0.125 |
0.339 |
Glutathione metabolism | 23 | -0.0737 |
-0.0483 |
0.00524 |
-0.188 |
-0.0278 |
0.0515 |
0.0408 |
-0.101 |
0.0281 |
0.00194 |
-0.0162 |
0.0451 |
pathway | genes | glucose | succinate | citrate | |||||||||
---|---|---|---|---|---|---|---|---|---|---|---|---|---|
ΔTn6212 | Δ3 | ΔLysR | ΔdctT | ΔTn6212 | Δ3 | ΔLysR | ΔdctT | ΔTn6212 | Δ3 | ΔLysR | ΔdctT | ||
Glycosaminoglycan degradation | 1 | 0.0615 |
-0.0094 |
0.0395 |
-0.0701 |
-0.00174 |
-0.00666 |
0.0364 |
-0.0988 |
0.0952 |
0.0798 |
0.00873 |
0.17 |
Lipopolysaccharide biosynthesis | 24 | 0.0108 |
-0.00714 |
-0.00118 |
0.0168 |
0.255 |
0.219 |
0.199 |
0.235 |
-0.00063 |
-0.0759 |
-0.0141 |
0.00569 |
Peptidoglycan biosynthesis | 20 | -0.00631 |
-0.0448 |
0.00378 |
0.0238 |
0.159 |
0.166 |
0.134 |
0.233 |
0.0186 |
-0.065 |
-0.02 |
0.0709 |
pathway | genes | glucose | succinate | citrate | |||||||||
---|---|---|---|---|---|---|---|---|---|---|---|---|---|
ΔTn6212 | Δ3 | ΔLysR | ΔdctT | ΔTn6212 | Δ3 | ΔLysR | ΔdctT | ΔTn6212 | Δ3 | ΔLysR | ΔdctT | ||
Thiamine metabolism | 10 | -0.0447 |
-0.0315 |
0.053 |
-0.269 |
-0.0773 |
-0.011 |
0.0102 |
-0.0164 |
0.0159 |
-0.0192 |
-0.0363 |
0.0416 |
Riboflavin metabolism | 11 | -0.0053 |
-0.0415 |
0.00638 |
-0.0418 |
-0.0773 |
-0.0099 |
-0.036 |
-0.035 |
-0.0305 |
-0.0724 |
-0.05 |
-0.0632 |
Vitamin B6 metabolism | 9 | -0.0475 |
-0.0403 |
-0.0398 |
-0.0909 |
0.154 |
0.151 |
0.129 |
0.158 |
-0.0144 |
-0.0598 |
-0.0745 |
-0.0519 |
Nicotinate and nicotinamide metabolism | 22 | 0.000478 |
-0.0209 |
0.0169 |
-0.0942 |
-0.096 |
0.0422 |
-0.0218 |
-0.138 |
0.0964 |
0.112 |
0.0681 |
0.146 |
Pantothenate and CoA biosynthesis | 14 | -0.05 |
-0.0534 |
-0.0061 |
-0.0765 |
0.219 |
0.214 |
0.223 |
0.23 |
-0.11 |
-0.173 |
-0.172 |
-0.194 |
Biotin metabolism | 18 | -0.0076 |
0.0385 |
0.00777 |
-0.0222 |
0.142 |
0.113 |
0.104 |
0.0797 |
0.0158 |
-0.00901 |
-0.0254 |
0.0421 |
Lipoic acid metabolism | 2 | -0.0101 |
0.0464 |
0.0282 |
0.0691 |
0.18 |
0.0079 |
0.0238 |
0.207 |
-0.0094 |
-0.0464 |
-0.00793 |
0.0477 |
Folate biosynthesis | 25 | -0.0876 |
0.0406 |
-0.0404 |
-0.123 |
-0.0725 |
-0.0381 |
-0.0968 |
-0.12 |
-0.00563 |
-0.00684 |
-0.036 |
-0.0324 |
One carbon pool by folate | 16 | -0.144 |
-0.0615 |
-0.024 |
-0.225 |
0.0621 |
0.0462 |
0.122 |
0.12 |
-0.0261 |
-0.135 |
-0.119 |
-0.0322 |
Retinol metabolism | 1 | -0.0755 |
-0.0383 |
-0.0569 |
-0.329 |
0.0349 |
0.121 |
0.134 |
-0.079 |
-0.00972 |
0.0112 |
-0.0477 |
-0.00801 |
Porphyrin and chlorophyll metabolism | 33 | -0.0713 |
-0.0321 |
-0.0345 |
-0.0843 |
0.136 |
0.143 |
0.109 |
0.0161 |
0.101 |
0.0735 |
0.0492 |
0.139 |
Ubiquinone and other terpenoid-quinone biosynthesis | 15 | -0.0854 |
0.0101 |
-0.0628 |
-0.0795 |
-0.025 |
0.0213 |
-0.0118 |
-0.104 |
-0.000295 |
-0.0146 |
-0.0217 |
0.039 |
pathway | genes | glucose | succinate | citrate | |||||||||
---|---|---|---|---|---|---|---|---|---|---|---|---|---|
ΔTn6212 | Δ3 | ΔLysR | ΔdctT | ΔTn6212 | Δ3 | ΔLysR | ΔdctT | ΔTn6212 | Δ3 | ΔLysR | ΔdctT | ||
Terpenoid backbone biosynthesis | 16 | 0.0252 |
0.0109 |
0.0511 |
0.000857 |
0.123 |
0.102 |
0.108 |
0.0466 |
0.084 |
0.0377 |
0.0228 |
0.0847 |
Zeatin biosynthesis | 1 | 0.183 |
0.0349 |
0.0797 |
0.314 |
0.0747 |
0.137 |
0.0134 |
0.291 |
0.0459 |
0.039 |
0.0547 |
0.1 |
Limonene and pinene degradation | 4 | -0.153 |
-0.0514 |
-0.0363 |
-0.276 |
-0.0582 |
-0.0506 |
-0.0102 |
-0.0487 |
-0.00465 |
-0.00492 |
-0.0563 |
0.0063 |
Geraniol degradation | 7 | -0.118 |
-0.0637 |
-0.00611 |
-0.28 |
-0.0606 |
-0.0532 |
-0.0165 |
-0.124 |
0.0638 |
0.0897 |
0.0274 |
0.0795 |
Biosynthesis of ansamycins | 1 | -0.172 |
-0.165 |
-0.0232 |
-0.396 |
0.205 |
0.238 |
0.245 |
0.217 |
0.0982 |
-0.0635 |
-0.0243 |
0.0977 |
Polyketide sugar unit biosynthesis | 6 | -0.0472 |
-0.0236 |
-0.0162 |
-0.0624 |
-0.0473 |
-0.00286 |
0.0376 |
-0.112 |
0.0314 |
-0.0127 |
-0.0203 |
0.038 |
Biosynthesis of siderophore group nonribosomal peptides | 3 | -0.218 |
-0.251 |
-0.221 |
-0.308 |
-0.0263 |
0.00872 |
-0.164 |
-0.109 |
0.0831 |
0.16 |
0.0242 |
0.102 |
Biosynthesis of vancomycin group antibiotics | 3 | -0.031 |
-0.0164 |
0.0184 |
-0.00493 |
-0.016 |
0.0141 |
0.0325 |
-0.0362 |
-0.0744 |
-0.0947 |
-0.0918 |
-0.0883 |
pathway | genes | glucose | succinate | citrate | |||||||||
---|---|---|---|---|---|---|---|---|---|---|---|---|---|
ΔTn6212 | Δ3 | ΔLysR | ΔdctT | ΔTn6212 | Δ3 | ΔLysR | ΔdctT | ΔTn6212 | Δ3 | ΔLysR | ΔdctT | ||
Phenylpropanoid biosynthesis | 6 | -0.069 |
-0.0548 |
-0.00482 |
-0.122 |
0.0895 |
0.0977 |
0.118 |
0.16 |
-0.0221 |
-0.0541 |
-0.0655 |
0.0229 |
Isoquinoline alkaloid biosynthesis | 3 | -0.0836 |
-0.0591 |
-0.0233 |
-0.257 |
0.0966 |
0.135 |
0.185 |
-0.00191 |
0.0467 |
-0.0828 |
-0.0772 |
0.0119 |
Tropane, piperidine and pyridine alkaloid biosynthesis | 4 | -0.159 |
-0.13 |
-0.0607 |
-0.31 |
-0.0645 |
0.0111 |
0.0259 |
-0.196 |
0.0826 |
0.0444 |
0.0187 |
0.132 |
Betalain biosynthesis | 1 | -0.205 |
-0.104 |
-0.0718 |
-0.269 |
-0.194 |
0.03 |
-0.197 |
-0.478 |
0.0175 |
-0.122 |
0.0263 |
0.112 |
Glucosinolate biosynthesis | 2 | -0.042 |
-0.0179 |
-0.0281 |
-0.171 |
-0.0121 |
0.0401 |
0.0809 |
-0.00149 |
0.0979 |
0.139 |
0.0784 |
0.234 |
Penicillin and cephalosporin biosynthesis | 1 | -0.128 |
-0.189 |
-0.0309 |
-0.202 |
0.219 |
0.29 |
0.276 |
0.243 |
0.0271 |
-0.085 |
-0.117 |
-0.04 |
Carbapenem biosynthesis | 2 | -0.0749 |
-0.135 |
-0.0169 |
-0.162 |
0.0544 |
0.0902 |
0.151 |
-0.0665 |
0.104 |
0.0368 |
0.0291 |
0.164 |
Monobactam biosynthesis | 10 | -0.189 |
-0.0613 |
-0.0604 |
-0.239 |
0.0589 |
0.0494 |
0.0148 |
0.0654 |
-0.0931 |
-0.0818 |
-0.113 |
-0.271 |
Streptomycin biosynthesis | 11 | -0.0284 |
-0.0254 |
0.0212 |
-0.114 |
-0.0114 |
0.0542 |
0.0528 |
-0.132 |
0.0678 |
0.0256 |
0.0102 |
0.105 |
Acarbose and validamycin biosynthesis | 3 | -0.0452 |
-0.00641 |
0.00589 |
-0.0138 |
-0.0464 |
-0.0394 |
0.0384 |
-0.0971 |
-0.0173 |
-0.0389 |
-0.0591 |
-0.0368 |
Novobiocin biosynthesis | 4 | -0.11 |
-0.104 |
-0.0761 |
-0.257 |
0.118 |
0.173 |
0.162 |
0.00961 |
0.0539 |
0.0274 |
-0.013 |
0.101 |
Phenazine biosynthesis | 4 | -0.139 |
-0.149 |
-0.075 |
-0.173 |
0.0789 |
0.127 |
0.148 |
0.125 |
-0.0679 |
-0.177 |
-0.168 |
-0.134 |
Prodigiosin biosynthesis | 8 | -0.0479 |
0.0252 |
0.0545 |
-0.131 |
0.0159 |
0.00249 |
-0.0074 |
0.00474 |
0.0797 |
0.0929 |
0.0714 |
0.192 |
Biosynthesis of various secondary metabolites - part 2 | 2 | -0.0831 |
-0.0484 |
-0.196 |
-0.184 |
0.125 |
0.0923 |
0.0876 |
0.137 |
-0.379 |
-0.0782 |
-0.0845 |
0.0495 |
Biosynthesis of various secondary metabolites - part 3 | 1 | -0.424 |
-0.078 |
-0.0717 |
-0.945 |
-0.226 |
-0.0176 |
-0.0877 |
-1.14 |
0.329 |
0.546 |
0.285 |
-0.0214 |
pathway | genes | glucose | succinate | citrate | |||||||||
---|---|---|---|---|---|---|---|---|---|---|---|---|---|
ΔTn6212 | Δ3 | ΔLysR | ΔdctT | ΔTn6212 | Δ3 | ΔLysR | ΔdctT | ΔTn6212 | Δ3 | ΔLysR | ΔdctT | ||
Benzoate degradation | 19 | -0.0974 |
0.0152 |
-0.0341 |
-0.179 |
-0.114 |
-0.0785 |
-0.105 |
-0.12 |
-0.0341 |
-0.0147 |
-0.0357 |
0.0309 |
Aminobenzoate degradation | 15 | -0.0473 |
-0.067 |
0.00278 |
-0.157 |
-0.198 |
-0.183 |
-0.107 |
-0.122 |
0.0432 |
0.0569 |
0.00222 |
0.0797 |
Fluorobenzoate degradation | 5 | -0.218 |
-0.0527 |
-0.0752 |
-0.257 |
-0.318 |
-0.161 |
-0.264 |
-0.332 |
0.201 |
0.213 |
0.317 |
0.369 |
Chloroalkane and chloroalkene degradation | 5 | -0.18 |
-0.109 |
-0.0845 |
-0.33 |
-0.406 |
-0.0932 |
-0.339 |
-0.474 |
0.201 |
0.249 |
0.141 |
0.294 |
Chlorocyclohexane and chlorobenzene degradation | 6 | -0.21 |
-0.101 |
-0.0597 |
-0.274 |
-0.431 |
-0.165 |
-0.397 |
-0.441 |
0.262 |
0.291 |
0.35 |
0.418 |
Toluene degradation | 6 | -0.187 |
-0.0656 |
-0.0567 |
-0.246 |
-0.287 |
-0.169 |
-0.241 |
-0.301 |
0.182 |
0.159 |
0.251 |
0.284 |
Xylene degradation | 1 | -0.0279 |
-0.13 |
0.0358 |
-0.188 |
-0.131 |
-0.21 |
-0.123 |
-0.149 |
0.0891 |
-0.11 |
-0.0825 |
-0.143 |
Nitrotoluene degradation | 1 | -0.106 |
-0.13 |
-0.167 |
-0.0507 |
0.223 |
-0.087 |
0.192 |
0.338 |
-0.176 |
-0.136 |
-0.327 |
-0.0828 |
Ethylbenzene degradation | 2 | -0.146 |
-0.0832 |
0.0412 |
-0.367 |
-0.0327 |
-0.0197 |
0.00865 |
-0.223 |
0.195 |
0.282 |
0.197 |
0.325 |
Styrene degradation | 8 | -0.112 |
-0.0689 |
-0.0456 |
-0.224 |
-0.0294 |
-0.0404 |
0.0533 |
-0.00117 |
-0.0235 |
-0.038 |
-0.0898 |
-0.0392 |
Atrazine degradation | 5 | -0.00778 |
0.0739 |
-0.0287 |
-0.0458 |
-0.239 |
-0.308 |
-0.421 |
-0.277 |
-0.128 |
0.0816 |
0.043 |
0.0445 |
Caprolactam degradation | 7 | -0.123 |
-0.036 |
-0.0205 |
-0.252 |
-0.0759 |
-0.0491 |
-0.0349 |
-0.124 |
1.09e-05 |
0.0138 |
-0.0563 |
0.0146 |
Naphthalene degradation | 2 | -0.375 |
-0.183 |
-0.294 |
-0.543 |
-0.211 |
-0.00158 |
-0.201 |
-0.5 |
0.19 |
0.201 |
0.145 |
0.339 |
Polycyclic aromatic hydrocarbon degradation | 1 | -0.0174 |
0.0447 |
-0.149 |
0.0272 |
-0.458 |
-0.315 |
-0.422 |
-0.183 |
-0.308 |
-0.563 |
-0.188 |
-0.271 |
Metabolism of xenobiotics by cytochrome P450 | 7 | -0.0737 |
-0.0456 |
-0.00585 |
-0.134 |
-0.0239 |
0.0202 |
0.0305 |
-0.0908 |
-0.0316 |
-0.0363 |
-0.0444 |
-0.0302 |
Drug metabolism - cytochrome P450 | 8 | -0.0677 |
-0.0398 |
-0.00491 |
-0.146 |
0.014 |
0.0506 |
0.0683 |
-0.062 |
-0.0186 |
-0.0555 |
-0.0559 |
-0.0299 |
Drug metabolism - other enzymes | 12 | -0.101 |
-0.0503 |
-0.0359 |
-0.136 |
0.0249 |
0.0911 |
0.0781 |
-0.036 |
-0.00897 |
-0.0238 |
-0.0396 |
0.0383 |
pathway | genes | glucose | succinate | citrate | |||||||||
---|---|---|---|---|---|---|---|---|---|---|---|---|---|
ΔTn6212 | Δ3 | ΔLysR | ΔdctT | ΔTn6212 | Δ3 | ΔLysR | ΔdctT | ΔTn6212 | Δ3 | ΔLysR | ΔdctT | ||
RNA polymerase | 4 | -0.106 |
-0.0264 |
-0.0372 |
-0.227 |
0.208 |
0.128 |
0.141 |
0.0502 |
0.0412 |
0.0459 |
0.0418 |
0.0991 |
pathway | genes | glucose | succinate | citrate | |||||||||
---|---|---|---|---|---|---|---|---|---|---|---|---|---|
ΔTn6212 | Δ3 | ΔLysR | ΔdctT | ΔTn6212 | Δ3 | ΔLysR | ΔdctT | ΔTn6212 | Δ3 | ΔLysR | ΔdctT | ||
Ribosome | 36 | 0.0187 |
0.118 |
-0.0262 |
0.0703 |
0.367 |
0.144 |
0.16 |
0.356 |
-0.142 |
-0.107 |
-0.116 |
-0.0949 |
Aminoacyl-tRNA biosynthesis | 24 | -0.103 |
-0.0854 |
-0.0248 |
-0.217 |
0.289 |
0.299 |
0.3 |
0.242 |
0.0547 |
-0.0445 |
-0.039 |
0.0563 |
RNA transport | 2 | 0.174 |
0.0499 |
0.208 |
0.204 |
-0.106 |
0.022 |
-0.0515 |
-0.13 |
0.0962 |
-0.0665 |
0.0886 |
0.17 |
Ribosome biogenesis in eukaryotes | 1 | -0.122 |
-0.149 |
-0.05 |
-0.263 |
0.0446 |
0.117 |
0.131 |
-0.136 |
-0.069 |
-0.128 |
-0.176 |
-0.123 |
Protein export | 15 | 0.0231 |
0.0707 |
0.016 |
0.0756 |
0.279 |
0.134 |
0.131 |
0.284 |
-0.0828 |
-0.109 |
-0.0832 |
-0.0846 |
Protein processing in endoplasmic reticulum | 1 | 0.198 |
-0.0397 |
0.246 |
-0.252 |
0.97 |
0.635 |
0.749 |
0.939 |
0.543 |
0.63 |
0.441 |
0.608 |
Sulfur relay system | 15 | 0.0482 |
0.121 |
-0.0515 |
0.0819 |
-0.132 |
-0.284 |
-0.239 |
-0.124 |
-0.0855 |
-0.0182 |
0.00274 |
-0.0107 |
RNA degradation | 17 | 0.274 |
-0.085 |
0.0405 |
-0.195 |
0.631 |
0.294 |
0.27 |
0.242 |
0.465 |
0.0926 |
0.091 |
0.161 |
pathway | genes | glucose | succinate | citrate | |||||||||
---|---|---|---|---|---|---|---|---|---|---|---|---|---|
ΔTn6212 | Δ3 | ΔLysR | ΔdctT | ΔTn6212 | Δ3 | ΔLysR | ΔdctT | ΔTn6212 | Δ3 | ΔLysR | ΔdctT | ||
DNA replication | 17 | -0.0349 |
-0.0467 |
-0.00549 |
-0.0296 |
0.178 |
0.198 |
0.162 |
0.0973 |
0.0571 |
0.0253 |
0.0299 |
0.0804 |
Base excision repair | 11 | -0.00822 |
-0.0334 |
0.0296 |
-0.0619 |
0.0431 |
0.0987 |
0.0886 |
-0.0688 |
0.0936 |
0.0732 |
0.0597 |
0.131 |
Nucleotide excision repair | 10 | 0.0313 |
-0.0372 |
0.0652 |
-0.0786 |
0.0766 |
0.159 |
0.0945 |
0.0133 |
0.194 |
0.16 |
0.149 |
0.272 |
Mismatch repair | 20 | -0.0307 |
-0.0668 |
0.00773 |
-0.0595 |
0.174 |
0.146 |
0.136 |
0.0832 |
0.0596 |
-0.00366 |
0.0243 |
0.0479 |
Homologous recombination | 21 | -0.0621 |
-0.0689 |
-0.00199 |
-0.0865 |
0.155 |
0.184 |
0.162 |
0.0641 |
0.0705 |
-0.0207 |
-0.00616 |
0.0649 |
Non-homologous end-joining | 2 | 0.359 |
0.168 |
0.423 |
0.18 |
-0.384 |
-0.0327 |
-0.122 |
-0.186 |
0.137 |
0.415 |
0.229 |
0.44 |
Fanconi anemia pathway | 1 | 0.19 |
0.0505 |
0.0778 |
0.284 |
0.0505 |
0.108 |
0.13 |
0.347 |
0.091 |
-0.0102 |
-0.0453 |
-0.0313 |
pathway | genes | glucose | succinate | citrate | |||||||||
---|---|---|---|---|---|---|---|---|---|---|---|---|---|
ΔTn6212 | Δ3 | ΔLysR | ΔdctT | ΔTn6212 | Δ3 | ΔLysR | ΔdctT | ΔTn6212 | Δ3 | ΔLysR | ΔdctT | ||
ABC transporters | 165 | -0.06 |
-0.00969 |
-0.00175 |
-0.167 |
-0.0375 |
-0.00991 |
0.0155 |
0.0209 |
-0.0358 |
-0.0422 |
-0.0656 |
-0.106 |
Phosphotransferase system (PTS) | 3 | 0.0101 |
-0.0134 |
0.0119 |
-0.11 |
-0.0808 |
-0.000217 |
-0.0121 |
-0.155 |
0.0439 |
0.109 |
0.0257 |
0.179 |
Bacterial secretion system | 48 | -0.052 |
-0.0039 |
-0.0186 |
0.0583 |
0.077 |
-0.00199 |
0.0221 |
0.119 |
0.0306 |
0.00485 |
0.00784 |
0.0264 |
pathway | genes | glucose | succinate | citrate | |||||||||
---|---|---|---|---|---|---|---|---|---|---|---|---|---|
ΔTn6212 | Δ3 | ΔLysR | ΔdctT | ΔTn6212 | Δ3 | ΔLysR | ΔdctT | ΔTn6212 | Δ3 | ΔLysR | ΔdctT | ||
Two-component system | 192 | -0.0331 |
-0.0137 |
-0.0086 |
-0.126 |
-0.0265 |
-0.0137 |
-0.037 |
-0.0312 |
0.022 |
-0.0221 |
-0.0137 |
-0.0409 |
Ras signaling pathway | 1 | 0.25 |
0.0616 |
0.315 |
0.0553 |
0.0953 |
0.185 |
0.221 |
0.126 |
0.254 |
0.237 |
0.204 |
0.412 |
MAPK signaling pathway - fly | 2 | -0.383 |
-0.208 |
-0.158 |
-0.482 |
-0.5 |
-0.309 |
-0.29 |
-0.397 |
0.102 |
0.065 |
0.00105 |
-0.0538 |
MAPK signaling pathway - plant | 3 | -0.0765 |
-0.000195 |
-0.0121 |
-0.0492 |
0.0146 |
-0.0839 |
0.0253 |
0.0733 |
0.048 |
0.0483 |
0.0206 |
0.0247 |
MAPK signaling pathway - yeast | 1 | -0.0612 |
-0.0768 |
-0.039 |
-0.0763 |
-0.25 |
-0.363 |
0.00957 |
0.111 |
0.254 |
0.238 |
0.152 |
0.115 |
HIF-1 signaling pathway | 6 | 0.733 |
-0.0846 |
0.0449 |
-0.293 |
1.05 |
0.228 |
0.231 |
0.0963 |
0.905 |
-0.0453 |
-0.0331 |
-0.0415 |
FoxO signaling pathway | 3 | -0.276 |
-0.165 |
-0.119 |
-0.347 |
-0.417 |
-0.327 |
-0.19 |
-0.228 |
0.153 |
0.123 |
0.0513 |
0.00255 |
Phosphatidylinositol signaling system | 2 | 0.161 |
0.146 |
0.0197 |
0.173 |
0.386 |
0.298 |
0.294 |
0.326 |
-0.0364 |
-0.0912 |
-0.0652 |
-0.0244 |
Phospholipase D signaling pathway | 1 | 0.25 |
0.0616 |
0.315 |
0.0553 |
0.0953 |
0.185 |
0.221 |
0.126 |
0.254 |
0.237 |
0.204 |
0.412 |
Sphingolipid signaling pathway | 1 | 0.25 |
0.0616 |
0.315 |
0.0553 |
0.0953 |
0.185 |
0.221 |
0.126 |
0.254 |
0.237 |
0.204 |
0.412 |
cAMP signaling pathway | 1 | 0.25 |
0.0616 |
0.315 |
0.0553 |
0.0953 |
0.185 |
0.221 |
0.126 |
0.254 |
0.237 |
0.204 |
0.412 |
PI3K-Akt signaling pathway | 1 | 0.198 |
-0.0397 |
0.246 |
-0.252 |
0.97 |
0.635 |
0.749 |
0.939 |
0.543 |
0.63 |
0.441 |
0.608 |
AMPK signaling pathway | 1 | -0.0808 |
-0.102 |
0.0521 |
-0.232 |
-0.145 |
0.0387 |
0.00467 |
-0.312 |
0.306 |
0.275 |
0.252 |
0.401 |
pathway | genes | glucose | succinate | citrate | |||||||||
---|---|---|---|---|---|---|---|---|---|---|---|---|---|
ΔTn6212 | Δ3 | ΔLysR | ΔdctT | ΔTn6212 | Δ3 | ΔLysR | ΔdctT | ΔTn6212 | Δ3 | ΔLysR | ΔdctT | ||
Endocytosis | 1 | 0.25 |
0.0616 |
0.315 |
0.0553 |
0.0953 |
0.185 |
0.221 |
0.126 |
0.254 |
0.237 |
0.204 |
0.412 |
Peroxisome | 9 | -0.136 |
-0.118 |
-0.0578 |
-0.167 |
-0.143 |
-0.112 |
-0.0579 |
-0.089 |
0.0631 |
0.0304 |
-0.0117 |
-0.0244 |
pathway | genes | glucose | succinate | citrate | |||||||||
---|---|---|---|---|---|---|---|---|---|---|---|---|---|
ΔTn6212 | Δ3 | ΔLysR | ΔdctT | ΔTn6212 | Δ3 | ΔLysR | ΔdctT | ΔTn6212 | Δ3 | ΔLysR | ΔdctT | ||
Cell cycle - Caulobacter | 16 | -0.0594 |
-0.0681 |
-0.015 |
-0.053 |
-0.0296 |
-0.0128 |
-0.09 |
0.0245 |
0.0464 |
0.0841 |
0.0536 |
0.136 |
Apoptosis | 2 | 0.171 |
0.275 |
-0.00234 |
0.189 |
-0.226 |
-0.198 |
-0.216 |
-0.252 |
0.0179 |
0.0988 |
0.0251 |
-0.000204 |
Apoptosis - fly | 2 | 0.101 |
0.249 |
0.0557 |
0.119 |
-0.0383 |
-0.0974 |
-0.093 |
-0.187 |
0.0917 |
0.201 |
0.0933 |
0.0376 |
Apoptosis - multiple species | 1 | 0.469 |
0.67 |
0.117 |
0.766 |
0.0556 |
-0.0782 |
-0.163 |
-0.116 |
0.00977 |
0.223 |
0.0869 |
-0.0867 |
Ferroptosis | 2 | -0.0721 |
-0.173 |
0.0108 |
-0.172 |
0.342 |
0.246 |
0.315 |
0.335 |
-0.135 |
-0.297 |
-0.25 |
-0.272 |
Necroptosis | 6 | -0.0987 |
-0.123 |
0.00608 |
-0.311 |
0.063 |
0.149 |
0.152 |
-0.117 |
0.209 |
0.168 |
0.123 |
0.26 |
p53 signaling pathway | 1 | 0.469 |
0.67 |
0.117 |
0.766 |
0.0556 |
-0.0782 |
-0.163 |
-0.116 |
0.00977 |
0.223 |
0.0869 |
-0.0867 |
Quorum sensing | 87 | -0.00897 |
0.0124 |
0.025 |
-0.105 |
-0.0403 |
-0.00838 |
-0.0099 |
-0.011 |
0.00638 |
-0.0233 |
-0.0329 |
-0.0155 |
Biofilm formation - Vibrio cholerae | 26 | 0.0701 |
0.0545 |
0.0591 |
0.0704 |
-0.126 |
-0.0897 |
-0.156 |
-0.131 |
0.0267 |
0.0397 |
0.0282 |
0.0868 |
Biofilm formation - Pseudomonas aeruginosa | 58 | -0.0859 |
0.00225 |
-0.0522 |
-0.0697 |
-0.11 |
-0.0791 |
-0.101 |
-0.0648 |
-0.0506 |
-0.0658 |
-0.0498 |
-0.052 |
Biofilm formation - Escherichia coli | 30 | 0.00442 |
-0.0112 |
-0.00195 |
0.0037 |
-0.0679 |
-0.0224 |
-0.0464 |
-0.0509 |
-0.00873 |
-0.0042 |
-0.0147 |
0.005 |
pathway | genes | glucose | succinate | citrate | |||||||||
---|---|---|---|---|---|---|---|---|---|---|---|---|---|
ΔTn6212 | Δ3 | ΔLysR | ΔdctT | ΔTn6212 | Δ3 | ΔLysR | ΔdctT | ΔTn6212 | Δ3 | ΔLysR | ΔdctT | ||
Bacterial chemotaxis | 80 | -0.0327 |
-0.0188 |
0.00046 |
-0.248 |
-0.0662 |
-0.0545 |
-0.0884 |
-0.137 |
0.0576 |
0.00963 |
0.00563 |
-0.0249 |
Flagellar assembly | 37 | -0.154 |
-0.00136 |
-0.0763 |
-0.172 |
-0.344 |
-0.255 |
-0.41 |
-0.504 |
0.056 |
0.0459 |
0.0804 |
0.136 |
pathway | genes | glucose | succinate | citrate | |||||||||
---|---|---|---|---|---|---|---|---|---|---|---|---|---|
ΔTn6212 | Δ3 | ΔLysR | ΔdctT | ΔTn6212 | Δ3 | ΔLysR | ΔdctT | ΔTn6212 | Δ3 | ΔLysR | ΔdctT | ||
NOD-like receptor signaling pathway | 5 | -0.1 |
-0.0715 |
-0.0209 |
-0.175 |
0.356 |
0.187 |
0.236 |
0.293 |
0.0692 |
0.0444 |
0.0581 |
-0.12 |
Antigen processing and presentation | 1 | 0.198 |
-0.0397 |
0.246 |
-0.252 |
0.97 |
0.635 |
0.749 |
0.939 |
0.543 |
0.63 |
0.441 |
0.608 |
Th17 cell differentiation | 1 | 0.198 |
-0.0397 |
0.246 |
-0.252 |
0.97 |
0.635 |
0.749 |
0.939 |
0.543 |
0.63 |
0.441 |
0.608 |
IL-17 signaling pathway | 1 | 0.198 |
-0.0397 |
0.246 |
-0.252 |
0.97 |
0.635 |
0.749 |
0.939 |
0.543 |
0.63 |
0.441 |
0.608 |
Fc gamma R-mediated phagocytosis | 1 | 0.25 |
0.0616 |
0.315 |
0.0553 |
0.0953 |
0.185 |
0.221 |
0.126 |
0.254 |
0.237 |
0.204 |
0.412 |
pathway | genes | glucose | succinate | citrate | |||||||||
---|---|---|---|---|---|---|---|---|---|---|---|---|---|
ΔTn6212 | Δ3 | ΔLysR | ΔdctT | ΔTn6212 | Δ3 | ΔLysR | ΔdctT | ΔTn6212 | Δ3 | ΔLysR | ΔdctT | ||
Insulin signaling pathway | 2 | -0.0447 |
-0.0347 |
0.054 |
-0.24 |
-0.31 |
-0.0201 |
-0.105 |
-0.412 |
0.255 |
0.295 |
0.215 |
0.415 |
Glucagon signaling pathway | 3 | -0.0913 |
-0.0802 |
0.0298 |
-0.308 |
-0.089 |
0.115 |
0.0555 |
-0.22 |
0.214 |
0.187 |
0.125 |
0.298 |
Adipocytokine signaling pathway | 2 | -0.0721 |
-0.173 |
0.0108 |
-0.172 |
0.342 |
0.246 |
0.315 |
0.335 |
-0.135 |
-0.297 |
-0.25 |
-0.272 |
PPAR signaling pathway | 6 | -0.0905 |
-0.115 |
0.00262 |
-0.248 |
0.195 |
0.192 |
0.227 |
0.132 |
-0.0477 |
-0.106 |
-0.15 |
-0.101 |
GnRH signaling pathway | 1 | 0.25 |
0.0616 |
0.315 |
0.0553 |
0.0953 |
0.185 |
0.221 |
0.126 |
0.254 |
0.237 |
0.204 |
0.412 |
Estrogen signaling pathway | 1 | 0.198 |
-0.0397 |
0.246 |
-0.252 |
0.97 |
0.635 |
0.749 |
0.939 |
0.543 |
0.63 |
0.441 |
0.608 |
Progesterone-mediated oocyte maturation | 1 | 0.198 |
-0.0397 |
0.246 |
-0.252 |
0.97 |
0.635 |
0.749 |
0.939 |
0.543 |
0.63 |
0.441 |
0.608 |
Thyroid hormone synthesis | 4 | -0.0921 |
-0.0104 |
-0.0496 |
-0.154 |
-0.215 |
-0.0948 |
-0.159 |
-0.286 |
0.0339 |
-0.0284 |
0.003 |
0.0384 |
Thyroid hormone signaling pathway | 1 | -0.04 |
-0.0216 |
-0.183 |
-0.0923 |
-0.241 |
-0.315 |
-0.245 |
0.00753 |
-0.0019 |
-0.00492 |
0.0441 |
0.00111 |
Parathyroid hormone synthesis, secretion and action | 1 | 0.25 |
0.0616 |
0.315 |
0.0553 |
0.0953 |
0.185 |
0.221 |
0.126 |
0.254 |
0.237 |
0.204 |
0.412 |
pathway | genes | glucose | succinate | citrate | |||||||||
---|---|---|---|---|---|---|---|---|---|---|---|---|---|
ΔTn6212 | Δ3 | ΔLysR | ΔdctT | ΔTn6212 | Δ3 | ΔLysR | ΔdctT | ΔTn6212 | Δ3 | ΔLysR | ΔdctT | ||
Proximal tubule bicarbonate reclamation | 1 | -0.248 |
-0.238 |
-0.117 |
-0.111 |
-0.181 |
-0.237 |
-0.0671 |
0.00735 |
-0.224 |
-0.262 |
-0.179 |
-0.162 |
pathway | genes | glucose | succinate | citrate | |||||||||
---|---|---|---|---|---|---|---|---|---|---|---|---|---|
ΔTn6212 | Δ3 | ΔLysR | ΔdctT | ΔTn6212 | Δ3 | ΔLysR | ΔdctT | ΔTn6212 | Δ3 | ΔLysR | ΔdctT | ||
Glutamatergic synapse | 6 | -0.13 |
-0.151 |
-0.0114 |
-0.237 |
-0.0339 |
0.0479 |
0.0884 |
-0.166 |
0.0896 |
0.00612 |
0.0238 |
0.128 |
GABAergic synapse | 5 | -0.206 |
-0.194 |
-0.0766 |
-0.296 |
-0.0598 |
0.0205 |
0.0619 |
-0.225 |
0.0566 |
-0.0401 |
-0.0123 |
0.0718 |
Dopaminergic synapse | 1 | -0.026 |
0.000583 |
0.00162 |
-0.225 |
0.279 |
0.263 |
0.333 |
0.139 |
0.0722 |
-0.19 |
-0.136 |
-0.0276 |
Serotonergic synapse | 1 | -0.026 |
0.000583 |
0.00162 |
-0.225 |
0.279 |
0.263 |
0.333 |
0.139 |
0.0722 |
-0.19 |
-0.136 |
-0.0276 |
Retrograde endocannabinoid signaling | 1 | -0.142 |
-0.0863 |
-0.0656 |
-0.339 |
-0.0525 |
-0.0415 |
0.0822 |
-0.33 |
0.0967 |
-0.0252 |
0.00162 |
0.0297 |
pathway | genes | glucose | succinate | citrate | |||||||||
---|---|---|---|---|---|---|---|---|---|---|---|---|---|
ΔTn6212 | Δ3 | ΔLysR | ΔdctT | ΔTn6212 | Δ3 | ΔLysR | ΔdctT | ΔTn6212 | Δ3 | ΔLysR | ΔdctT | ||
Longevity regulating pathway | 3 | -0.276 |
-0.165 |
-0.119 |
-0.347 |
-0.417 |
-0.327 |
-0.19 |
-0.228 |
0.153 |
0.123 |
0.0513 |
0.00255 |
Longevity regulating pathway - worm | 12 | -0.0835 |
-0.0838 |
0.0108 |
-0.203 |
0.0215 |
0.00984 |
0.0579 |
-0.00764 |
0.155 |
0.159 |
0.104 |
0.144 |
Longevity regulating pathway - multiple species | 5 | -0.183 |
-0.112 |
-0.0721 |
-0.231 |
-0.262 |
-0.203 |
-0.156 |
-0.217 |
0.296 |
0.333 |
0.245 |
0.298 |
pathway | genes | glucose | succinate | citrate | |||||||||
---|---|---|---|---|---|---|---|---|---|---|---|---|---|
ΔTn6212 | Δ3 | ΔLysR | ΔdctT | ΔTn6212 | Δ3 | ΔLysR | ΔdctT | ΔTn6212 | Δ3 | ΔLysR | ΔdctT | ||
Thermogenesis | 3 | -0.0571 |
-0.135 |
-0.00409 |
-0.15 |
0.418 |
0.288 |
0.363 |
0.429 |
-0.0943 |
-0.223 |
-0.175 |
-0.188 |
Plant-pathogen interaction | 9 | -0.0718 |
-0.108 |
-0.00782 |
-0.24 |
0.293 |
0.217 |
0.247 |
0.291 |
0.0817 |
0.039 |
-0.00317 |
-0.0523 |
pathway | genes | glucose | succinate | citrate | |||||||||
---|---|---|---|---|---|---|---|---|---|---|---|---|---|
ΔTn6212 | Δ3 | ΔLysR | ΔdctT | ΔTn6212 | Δ3 | ΔLysR | ΔdctT | ΔTn6212 | Δ3 | ΔLysR | ΔdctT | ||
Primary immunodeficiency | 2 | -0.101 |
-0.102 |
-0.0719 |
-0.186 |
-0.14 |
-0.132 |
-0.106 |
-0.435 |
0.092 |
0.147 |
0.118 |
0.238 |
pathway | genes | glucose | succinate | citrate | |||||||||
---|---|---|---|---|---|---|---|---|---|---|---|---|---|
ΔTn6212 | Δ3 | ΔLysR | ΔdctT | ΔTn6212 | Δ3 | ΔLysR | ΔdctT | ΔTn6212 | Δ3 | ΔLysR | ΔdctT | ||
Alzheimer disease | 4 | 0.0313 |
0.0925 |
0.00219 |
-0.000654 |
0.0769 |
0.0828 |
0.0997 |
0.0583 |
0.00162 |
-0.00792 |
-0.0261 |
-0.048 |
Parkinson disease | 1 | 0.469 |
0.67 |
0.117 |
0.766 |
0.0556 |
-0.0782 |
-0.163 |
-0.116 |
0.00977 |
0.223 |
0.0869 |
-0.0867 |
Amyotrophic lateral sclerosis (ALS) | 6 | 0.0116 |
0.0954 |
-0.0101 |
0.0778 |
-0.214 |
-0.142 |
-0.161 |
-0.221 |
0.0939 |
0.111 |
0.0992 |
0.0838 |
Huntington disease | 7 | -0.0908 |
0.0332 |
-0.0483 |
-0.0602 |
-0.291 |
-0.158 |
-0.223 |
-0.319 |
0.0736 |
0.0798 |
0.0637 |
0.04 |
Spinocerebellar ataxia | 1 | -0.255 |
-0.171 |
0.00424 |
-0.46 |
0.187 |
0.181 |
0.266 |
0.141 |
-0.00518 |
-0.101 |
-0.109 |
-0.156 |
Prion diseases | 1 | -0.1 |
-0.0496 |
0.00442 |
0.163 |
-0.324 |
-0.0437 |
-0.217 |
-0.238 |
0.231 |
0.33 |
0.299 |
0.422 |
pathway | genes | glucose | succinate | citrate | |||||||||
---|---|---|---|---|---|---|---|---|---|---|---|---|---|
ΔTn6212 | Δ3 | ΔLysR | ΔdctT | ΔTn6212 | Δ3 | ΔLysR | ΔdctT | ΔTn6212 | Δ3 | ΔLysR | ΔdctT | ||
Cocaine addiction | 1 | -0.026 |
0.000583 |
0.00162 |
-0.225 |
0.279 |
0.263 |
0.333 |
0.139 |
0.0722 |
-0.19 |
-0.136 |
-0.0276 |
Amphetamine addiction | 1 | -0.026 |
0.000583 |
0.00162 |
-0.225 |
0.279 |
0.263 |
0.333 |
0.139 |
0.0722 |
-0.19 |
-0.136 |
-0.0276 |
Alcoholism | 1 | -0.026 |
0.000583 |
0.00162 |
-0.225 |
0.279 |
0.263 |
0.333 |
0.139 |
0.0722 |
-0.19 |
-0.136 |
-0.0276 |
pathway | genes | glucose | succinate | citrate | |||||||||
---|---|---|---|---|---|---|---|---|---|---|---|---|---|
ΔTn6212 | Δ3 | ΔLysR | ΔdctT | ΔTn6212 | Δ3 | ΔLysR | ΔdctT | ΔTn6212 | Δ3 | ΔLysR | ΔdctT | ||
Fluid shear stress and atherosclerosis | 10 | -0.0676 |
-0.0517 |
0.0087 |
-0.126 |
0.12 |
0.0792 |
0.111 |
0.0539 |
-0.00046 |
-0.0088 |
-0.0058 |
-0.0123 |
Viral myocarditis | 1 | 0.469 |
0.67 |
0.117 |
0.766 |
0.0556 |
-0.0782 |
-0.163 |
-0.116 |
0.00977 |
0.223 |
0.0869 |
-0.0867 |
pathway | genes | glucose | succinate | citrate | |||||||||
---|---|---|---|---|---|---|---|---|---|---|---|---|---|
ΔTn6212 | Δ3 | ΔLysR | ΔdctT | ΔTn6212 | Δ3 | ΔLysR | ΔdctT | ΔTn6212 | Δ3 | ΔLysR | ΔdctT | ||
Type II diabetes mellitus | 1 | -0.185 |
-0.171 |
-0.0187 |
-0.443 |
0.353 |
0.384 |
0.376 |
0.166 |
0.132 |
-0.0293 |
-0.055 |
0.063 |
Type I diabetes mellitus | 1 | 0.315 |
-0.0322 |
0.313 |
-0.206 |
1.07 |
0.678 |
0.846 |
0.942 |
0.598 |
0.626 |
0.471 |
0.608 |
Non-alcoholic fatty liver disease (NAFLD) | 1 | 0.469 |
0.67 |
0.117 |
0.766 |
0.0556 |
-0.0782 |
-0.163 |
-0.116 |
0.00977 |
0.223 |
0.0869 |
-0.0867 |
Insulin resistance | 2 | -0.103 |
-0.0759 |
0.0404 |
-0.307 |
-0.11 |
0.0693 |
-0.0176 |
-0.259 |
0.116 |
0.0279 |
0.00195 |
0.203 |
Cushing syndrome | 2 | -0.315 |
-0.107 |
-0.0561 |
-0.583 |
-0.361 |
0.0347 |
-0.229 |
-0.38 |
0.247 |
0.263 |
0.166 |
0.142 |
Epithelial cell signaling in Helicobacter pylori infection | 5 | -0.0244 |
-0.0708 |
0.0277 |
-0.136 |
-0.0539 |
-0.0646 |
-0.144 |
-0.0118 |
0.0577 |
0.0722 |
-0.0123 |
0.0926 |
Pathogenic Escherichia coli infection | 4 | 0.0313 |
0.0925 |
0.00219 |
-0.000654 |
0.0769 |
0.0828 |
0.0997 |
0.0583 |
0.00162 |
-0.00792 |
-0.0261 |
-0.048 |
Salmonella infection | 4 | -0.156 |
-0.127 |
-0.066 |
-0.191 |
0.0658 |
0.0187 |
0.000346 |
0.0286 |
0.0434 |
0.0164 |
0.0603 |
-0.172 |
Shigellosis | 4 | 0.00188 |
0.104 |
0.0237 |
-0.0868 |
0.0957 |
0.0201 |
0.0287 |
0.0501 |
0.0561 |
0.0965 |
-0.00374 |
-0.146 |
Yersinia infection | 1 | -0.223 |
-0.172 |
-0.216 |
0.167 |
0.52 |
0.178 |
0.315 |
0.876 |
-0.049 |
-0.174 |
-0.102 |
-0.69 |
Pertussis | 9 | 0.0561 |
0.0452 |
0.0618 |
0.0447 |
-0.0309 |
-0.0754 |
-0.0195 |
0.0765 |
0.0712 |
0.105 |
0.0698 |
0.0668 |
Legionellosis | 5 | 0.0963 |
0.0697 |
0.0922 |
-0.105 |
0.44 |
0.343 |
0.351 |
0.361 |
0.172 |
0.154 |
0.108 |
0.111 |
Staphylococcus aureus infection | 1 | 0.0651 |
-0.0559 |
-0.028 |
0.0835 |
0.031 |
-0.0126 |
0.0127 |
0.153 |
-0.0679 |
-0.154 |
-0.0878 |
-0.0685 |
Tuberculosis | 7 | 0.113 |
0.0341 |
0.0904 |
-0.109 |
0.515 |
0.339 |
0.368 |
0.517 |
0.198 |
0.235 |
0.182 |
0.166 |
Human immunodeficiency virus 1 infection | 1 | 0.469 |
0.67 |
0.117 |
0.766 |
0.0556 |
-0.0782 |
-0.163 |
-0.116 |
0.00977 |
0.223 |
0.0869 |
-0.0867 |
Measles | 1 | 0.469 |
0.67 |
0.117 |
0.766 |
0.0556 |
-0.0782 |
-0.163 |
-0.116 |
0.00977 |
0.223 |
0.0869 |
-0.0867 |
Influenza A | 1 | 0.469 |
0.67 |
0.117 |
0.766 |
0.0556 |
-0.0782 |
-0.163 |
-0.116 |
0.00977 |
0.223 |
0.0869 |
-0.0867 |
Hepatitis B | 1 | 0.469 |
0.67 |
0.117 |
0.766 |
0.0556 |
-0.0782 |
-0.163 |
-0.116 |
0.00977 |
0.223 |
0.0869 |
-0.0867 |
Hepatitis C | 1 | 0.469 |
0.67 |
0.117 |
0.766 |
0.0556 |
-0.0782 |
-0.163 |
-0.116 |
0.00977 |
0.223 |
0.0869 |
-0.0867 |
Herpes simplex virus 1 infection | 1 | 0.469 |
0.67 |
0.117 |
0.766 |
0.0556 |
-0.0782 |
-0.163 |
-0.116 |
0.00977 |
0.223 |
0.0869 |
-0.0867 |
Human cytomegalovirus infection | 1 | 0.469 |
0.67 |
0.117 |
0.766 |
0.0556 |
-0.0782 |
-0.163 |
-0.116 |
0.00977 |
0.223 |
0.0869 |
-0.0867 |
Kaposi sarcoma-associated herpesvirus infection | 1 | 0.469 |
0.67 |
0.117 |
0.766 |
0.0556 |
-0.0782 |
-0.163 |
-0.116 |
0.00977 |
0.223 |
0.0869 |
-0.0867 |
Epstein-Barr virus infection | 1 | 0.469 |
0.67 |
0.117 |
0.766 |
0.0556 |
-0.0782 |
-0.163 |
-0.116 |
0.00977 |
0.223 |
0.0869 |
-0.0867 |
Human papillomavirus infection | 1 | -0.185 |
-0.171 |
-0.0187 |
-0.443 |
0.353 |
0.384 |
0.376 |
0.166 |
0.132 |
-0.0293 |
-0.055 |
0.063 |
Toxoplasmosis | 1 | 0.469 |
0.67 |
0.117 |
0.766 |
0.0556 |
-0.0782 |
-0.163 |
-0.116 |
0.00977 |
0.223 |
0.0869 |
-0.0867 |
Chagas disease (American trypanosomiasis) | 1 | -0.117 |
-0.125 |
-0.0168 |
-0.352 |
0.048 |
0.0825 |
0.0605 |
-0.0904 |
0.068 |
0.0034 |
-0.0577 |
0.0425 |
African trypanosomiasis | 2 | -0.101 |
-0.00587 |
-0.0667 |
-0.183 |
-0.0244 |
-0.121 |
-0.0764 |
-0.138 |
-0.101 |
-0.0917 |
-0.112 |
-0.0918 |
beta-Lactam resistance | 15 | -0.0419 |
-0.0932 |
0.00611 |
-0.129 |
0.206 |
0.208 |
0.197 |
0.252 |
-0.0199 |
-0.148 |
-0.107 |
-0.0669 |
Vancomycin resistance | 5 | -0.0753 |
-0.0734 |
-0.0574 |
0.00434 |
-0.184 |
-0.0643 |
-0.182 |
-0.127 |
0.124 |
0.0707 |
0.108 |
0.27 |
Cationic antimicrobial peptide (CAMP) resistance | 26 | -0.0144 |
-0.0487 |
0.0029 |
-0.0739 |
0.0791 |
0.0403 |
0.104 |
0.16 |
0.0244 |
-0.0304 |
-0.0157 |
0.0334 |
Platinum drug resistance | 8 | -0.00476 |
0.0459 |
0.0311 |
-0.00742 |
-0.0249 |
-0.0105 |
-0.0233 |
-0.11 |
-0.0152 |
0.00478 |
-0.0185 |
-0.0219 |
Antifolate resistance | 4 | -0.157 |
-0.102 |
-0.0143 |
-0.26 |
0.424 |
0.4 |
0.411 |
0.379 |
-0.0699 |
-0.208 |
-0.162 |
-0.0534 |
pathway | genes | glucose | succinate | citrate | |||||||||
---|---|---|---|---|---|---|---|---|---|---|---|---|---|
ΔTn6212 | Δ3 | ΔLysR | ΔdctT | ΔTn6212 | Δ3 | ΔLysR | ΔdctT | ΔTn6212 | Δ3 | ΔLysR | ΔdctT | ||
Pathways in cancer | 11 | -0.0139 |
0.018 |
0.053 |
-0.11 |
0.0178 |
0.0757 |
0.039 |
-0.0334 |
0.099 |
0.123 |
0.0729 |
0.0922 |
MicroRNAs in cancer | 1 | -0.248 |
-0.238 |
-0.117 |
-0.111 |
-0.181 |
-0.237 |
-0.0671 |
0.00735 |
-0.224 |
-0.262 |
-0.179 |
-0.162 |
Chemical carcinogenesis | 7 | -0.0737 |
-0.0456 |
-0.00585 |
-0.134 |
-0.0239 |
0.0202 |
0.0305 |
-0.0908 |
-0.0316 |
-0.0363 |
-0.0444 |
-0.0302 |
Viral carcinogenesis | 1 | -0.185 |
-0.171 |
-0.0187 |
-0.443 |
0.353 |
0.384 |
0.376 |
0.166 |
0.132 |
-0.0293 |
-0.055 |
0.063 |
Central carbon metabolism in cancer | 4 | -0.116 |
-0.132 |
0.0023 |
-0.216 |
0.0729 |
0.0976 |
0.172 |
0.0835 |
0.0222 |
-0.0533 |
-0.0408 |
0.0245 |
Choline metabolism in cancer | 1 | 0.25 |
0.0616 |
0.315 |
0.0553 |
0.0953 |
0.185 |
0.221 |
0.126 |
0.254 |
0.237 |
0.204 |
0.412 |
Colorectal cancer | 1 | 0.469 |
0.67 |
0.117 |
0.766 |
0.0556 |
-0.0782 |
-0.163 |
-0.116 |
0.00977 |
0.223 |
0.0869 |
-0.0867 |
Pancreatic cancer | 1 | 0.25 |
0.0616 |
0.315 |
0.0553 |
0.0953 |
0.185 |
0.221 |
0.126 |
0.254 |
0.237 |
0.204 |
0.412 |
Hepatocellular carcinoma | 6 | -0.0734 |
-0.0468 |
0.00266 |
-0.102 |
-0.0337 |
0.00348 |
0.0133 |
-0.0927 |
-0.0352 |
-0.0442 |
-0.0438 |
-0.0339 |
Renal cell carcinoma | 2 | -0.315 |
-0.107 |
-0.0561 |
-0.583 |
-0.361 |
0.0347 |
-0.229 |
-0.38 |
0.247 |
0.263 |
0.166 |
0.142 |
Prostate cancer | 1 | 0.198 |
-0.0397 |
0.246 |
-0.252 |
0.97 |
0.635 |
0.749 |
0.939 |
0.543 |
0.63 |
0.441 |
0.608 |
Small cell lung cancer | 1 | 0.469 |
0.67 |
0.117 |
0.766 |
0.0556 |
-0.0782 |
-0.163 |
-0.116 |
0.00977 |
0.223 |
0.0869 |
-0.0867 |