Table 1.
Stress-responsive operons in Y. pestis predicted from microarray expression data
| Potential operon (r value) | Gene ID | Putative or predicted function | Reference (s) |
| Iron uptake or heme synthesis | |||
| yfeABCD operon* (r > 0.91) | YPO2439-2442 | Transport/binding chelated iron | yfeABCD [54] |
| hmuRSTUV operon (r > 0.90) | YPO0279-0283 | Transport/binding hemin | hmuRSTUV [55] |
| ysuJIHG* (r > 0.95) | YPO1529-1532 | Iron uptake | - |
| sufABCDS* (r > 0.90) | YPO2400-2404 | Iron-regulated Fe-S cluster assembly? | - |
| YPO1854-1856* (r > 0.97) | YPO1854-1856 | Iron uptake or heme synthesis? | - |
| Sulfur metabolism | |||
| tauABCD operon (r > 0.90) | YPO0182-0185 | Transport/binding taurine | tauABCD [56] |
| ssuEADCB operon (r > 0.97) | YPO3623-3627 | Sulphur metabolism | ssu operon [57] |
| cys operon (r > 0.92) | YPO3010-3015 | Cysteine synthesis | - |
| YPO1317-1319 (r > 0.97) | YPO1317-1319 | Sulfur metabolism? | - |
| YPO4109-4111 (r > 0.90) | YPO4109-4111 | Sulfur metabolism? | - |
| Urea uptake and urease activation | |||
| ure operon* (r > 0.96) | YPO2665-2672 | Pathogenicity | ure [58, 59] |
| Stress response and adaptation | |||
| dnaKJ operon (r = 0.97) | YPO0468-0469 | Chaperones, chaperonins, heat shock | dnaKJ [60, 61] |
| hslUV operon (r = 0.97) | YPO0105-0106 | Adaptions and atypical conditions | hslUV [62] |
| katY-cybCB operon* (r > 0.90) | YPO3319-3321 | Detoxification and electron transport | - |
| psp operon (r > 0.90) | YPO2349-2351 | Adaptions and atypical conditions | psp operon [63] |
| Ribosome constituents | |||
| rps-rpm-rpl operon (r > 0.90) | YPO0209-0235 | Ribosomal protein synthesis and modification | rps-rpm-rpl operon [64] |
| Energy metabolism | |||
| sdh-suc operon* (r > 0.92) | YPO1109-1116 | Tricarboxylic acid cycle | sdhCDAB [65] |
| cyo operon (r > 0.94) | YPO3164-3168 | Aerobic respiration | cyoABCDE [55] |
| nap operon (r > 0.94) | YPO3036-3040 | Electron transport | nap operon [66] |
| atp operon (r > 0.93) | YPO4120-4128 | ATP-proton motive force | atpIBEFHAGDC [67] |
| ace operon* (r > 0.90) | YPO3724-3726 | Glyoxylate bypass | aceBAK [68] |
| nuo operon* (r > 0.92) | YPO2543-2555 | Aerobic respiration | nuo operon [69] |
| Degradation and transport/binding of amino acids | |||
| pro operon* (r > 0.92) | YPO2645-2647 | Transport/binding amino acids and amines | proVWX [70] |
| ast operon (r > 0.90) | YPO1962-1966 | Degradation of amino acids | astCADBE [71] |
| gln operon* (r > 0.91) | YPO2512-2514 | Transport/binding amino acids and amines | glnHPQ [72] |
| others | |||
| YPO1994-1996* (r > 0.98) | YPO1994-1996 | Unknown | - |
| YPO0881-0884 (r = 0.99) | YPO0881-0884 | Chemotaxis and mobility? | - |
| YPO1087-1088 (r = 0.99) | YPO1087-1088 | Phage-related functions and prophage | - |
| YPO0623-0628* (r > 0.94) | YPO0623-0628 | Unknown | - |
| mur operon (r > 0.95) | YPO0550-0553 | Murein sacculus and peptidoglycan | - |
| idn operon (r = 0.96) | YPO2539-2540 | Degradation of carbon compounds | - |
| fad operon* (r = 0.95) | YPO3766-3767 | Degradation of small molecule | - |
| glg operon (r > 0.90) | YPO3938-3942 | Synthesis and modification of cytoplasmic polysaccharides | glg operon [73] |
| YPO3838-3839 (r = 0.92) | YPO3838-3839 | Unknown | - |
| YPO0408-0409* (r = 0.97) | YPO0408-0409 | Unknown | - |
| YPO1516-1517 (r = 0.90) | YPO1516-1517 | Unknown | - |
| YPCD1.15c-1.17c (r > 0.98) | YPCD1.15c-1.17c | Unknown | - |
| yscGHIJK operon* (>0.90) | YPCD1.55-1.57 | T3SS constituents | - |
| YPPCP1.08c-1.09c (r = 0.97) | YPPCP1.08c-1.09c | Unknown | - |
'r' represents the correlation coefficient of adjacent genes; '*' represent the defined operon has the similar expression pattern in two other published microarray datasets [7, 21]; '?' inferred functions of uncharacterized genes; '-' means the corresponding operons have not been experimentally validated in other bacteria.