Differential expression: Low temperature [Temp10C.vs.Ctrl]
Differentially expressed genes in cells grown at 10°C relative to 18°C (OD600nm=0.4, TYES at 200 rpm).
List of differentially expressed genomic elements (CDS and newly identified RNA elements).Statistical analysis was performed with the limma package. Genes were considered as differentially expressed with a log2-fold change ⩾ 1 and a false discovery rate ⩽ 0.05.
Reference samples: CS3_a, CS3_c
Test samples: Temp10C_a, Temp10C_c
Locus Tag | Name (v2) | Feature type | Location | Clusters | Base Expr. | Delta Expr. | Annotation | Chromosome order | Clusters order |
---|---|---|---|---|---|---|---|---|---|
THC0290_N_0016 | 3prime | 21441:22155 - | A731 B210 C55 | 7.21 | -1.07 | new transcription segment | 31 | 1600 | |
THC0290_N_0020 | 5prime | 25333:25398 + | A1254 B420 C125 | 4.64 | -1.20 | new transcription segment | 39 | 2378 | |
THC0290_N_0076 | 5prime | 131417:131569 + | A205 B75 C24 | 11.34 | -2.30 | new transcription segment | 177 | 256 | |
THC0290_0102 | CDS | 131570:132853 + | A204 B75 C24 | 12.07 | -2.45 | Protein of unknown function | 178 | 252 | |
THC0290_N_0077 | intra | 132854:133118 + | A205 B75 C24 | 11.08 | -2.92 | new transcription segment | 179 | 257 | |
THC0290_0103 | CDS | 133119:133640 + | A204 B75 C24 | 12.04 | -2.73 | Protein of unknown function precursor | 180 | 254 | |
THC0290_0104 | CDS | 133660:134139 + | A204 B75 C24 | 12.56 | -2.46 | Probable lipoprotein precursor | 181 | 255 | |
THC0290_0105 | CDS | 134151:135113 + | A204 B75 C24 | 11.84 | -2.82 | Protein of unknown function precursor | 182 | 253 | |
THC0290_0106 | CDS | 135128:136084 + | A204 B75 C24 | 12.20 | -2.75 | Protein of unknown function precursor | 183 | 251 | |
THC0290_0173 | CDS | 217635:218969 - | A1083 B365 C107 | 14.04 | -1.17 | Probable cell surface protein (Leucine-rich repeat protein) precursor | 301 | 2069 | |
THC0290_0174 | CDS | 219283:220551 - | A1083 B365 C107 | 13.59 | -1.23 | Probable cell surface protein (Leucine-rich repeat protein) precursor | 302 | 2072 | |
THC0290_0176 | CDS | 221575:222702 - | A1083 B365 C107 | 13.64 | -1.23 | Probable cell surface protein (Leucine-rich repeat protein) precursor | 304 | 2070 | |
THC0290_0178 | CDS | 224965:225888 - | A1083 B365 C107 | 13.41 | -1.18 | Probable cell surface protein (Leucine-rich repeat protein) precursor | 308 | 2067 | |
THC0290_0181 | CDS | 228393:229796 - | A1083 B365 C107 | 12.59 | -1.31 | Probable cell surface protein (Leucine-rich repeat protein) precursor | 311 | 2060 | |
THC0290_N_0142 | repeated_region | 229797:230072 - | A1083 B365 C107 | 10.53 | -1.36 | new transcription segment | 312 | 2062 | |
THC0290_0182 | CDS | 230123:231112 - | A1083 B365 C107 | 10.43 | -1.87 | Probable cell surface protein (Leucine-rich repeat protein) precursor | 313 | 2056 | |
THC0290_0183 | CDS | 231127:232047 - | A1083 B365 C107 | 12.42 | -1.35 | Probable cell surface protein (Leucine-rich repeat protein) precursor | 314 | 2057 | |
THC0290_0186 | CDS | 234136:235122 - | A1088 B365 C107 | 10.22 | -1.21 | Probable cell surface protein (Leucine-rich repeat protein) precursor | 317 | 2085 | |
THC0290_0265 | CDS | 323507:323950 + | A1756 B546 C143 | 5.83 | -1.54 | Hypothetical protein | 451 | 3361 | |
THC0290_N_0207 | 3prime | 334509:334577 - | A298 B110 C31 | 6.81 | 1.93 | new transcription segment | 469 | 383 | |
THC0290_N_0366 | intra | 613818:613961 + | A1818 B557 C145 | 5.68 | -1.34 | new transcription segment | 846 | 3909 | |
THC0290_0681 | CDS | 817138:819144 + | A1674 B543 C143 | 10.46 | 1.59 | Probable TonB-dependent outer membrane receptor precursor | 1148 | 3071 | |
THC0290_0682 | CDS | 819184:819525 + | A1674 B543 C143 | 10.34 | 1.21 | Protein of unknown function | 1149 | 3069 | |
THC0290_0684 | sulP | CDS | 819971:821572 + | A1674 B543 C143 | 12.25 | 1.30 | Probable sulfate permease | 1152 | 3076 |
THC0290_0685 | cynT | CDS | 821595:822230 + | A1674 B543 C143 | 12.52 | 1.14 | Carbonic anhydrase | 1153 | 3077 |
THC0290_0718 | CDS | 855109:855891 + | A557 B183 C44 | 9.41 | -1.01 | Probable ABC-type iron(III)-transport system, ATPase component | 1209 | 813 | |
THC0290_0901 | CDS | 1059740:1062964 + | A1198 B413 C124 | 6.23 | 1.26 | Probable multidrug resistance protein. AcrB/AcrD/AcrF family protein | 1514 | 2245 | |
THC0290_0949 | CDS | 1121975:1122373 - | A1520 B521 C143 | 8.56 | 2.72 | Protein of unknown function | 1601 | 2752 | |
THC0290_1016 | kdpF | CDS | 1196475:1196552 + | A1628 B539 C143 | 4.73 | 1.60 | Potassium-transporting ATPase F subunit | 1712 | 2941 |
THC0290_1017 | kdpA | CDS | 1196669:1198390 + | A1628 B539 C143 | 5.24 | 1.83 | Potassium-transporting ATPase A subunit | 1713 | 2942 |
THC0290_1018 | kdpB | CDS | 1198491:1200524 + | A1628 B539 C143 | 5.42 | 1.37 | Potassium-transporting ATPase B subunit | 1714 | 2943 |
THC0290_1054 | CDS | 1231465:1232691 - | A1765 B546 C143 | 7.97 | -1.06 | Protein of unknown function precursor containing a C-terminal secretion signal | 1769 | 3479 | |
THC0290_1055 | CDS | 1233132:1235285 + | A556 B183 C44 | 10.83 | -1.31 | Probable outer membrane protein precursor | 1770 | 805 | |
THC0290_1203 | CDS | 1386310:1386462 + | A1311 B450 C132 | 6.22 | 1.44 | Conserved exported protein of unknown function | 1963 | 2453 | |
THC0290_1204 | CDS | 1386496:1386726 + | A1768 B546 C143 | 8.39 | 1.13 | Hypothetical protein | 1964 | 3689 | |
THC0290_1280 | CDS | 1477371:1479464 + | A498 B175 C44 | 9.87 | 1.02 | Probable phosphoglycerol transferase | 2083 | 665 | |
THC0290_N_0843 | Rfp58 | indep | 1500231:1500590 + | A1779 B546 C143 | 5.54 | -1.02 | new transcription segment | 2121 | 3811 |
THC0290_1332 | CDS | 1537097:1537567 + | A1763 B546 C143 | 8.91 | 1.37 | Protein of unknown function | 2157 | 3441 | |
THC0290_1335 | CDS | 1539932:1540345 + | A1449 B502 C142 | 9.54 | 1.13 | Probable two-component system response regulatory protein | 2161 | 2640 | |
THC0290_N_0885 | intra | 1606920:1607067 + | A1243 B419 C125 | 5.74 | -1.02 | new transcription segment | 2260 | 2326 | |
THC0290_1543 | CDS | 1797232:1798140 + | A1765 B546 C143 | 9.89 | 1.09 | Probable nucleoside-diphosphate sugar epimerase | 2537 | 3481 | |
THC0290_1634 | CDS | 1896238:1896348 + | A1760 B546 C143 | 9.96 | 1.12 | Hypothetical protein | 2705 | 3372 | |
THC0290_1675 | CDS | 1943090:1944706 - | A1055 B348 C104 | 9.05 | -1.89 | Probable asparagine synthetase [glutamine-hydrolyzing] | 2775 | 2022 | |
THC0290_N_1142 | Rfp75 | indep | 1963759:1963927 - | A1769 B546 C143 | 7.19 | -1.42 | new transcription segment | 2808 | 3743 |
THC0290_1706 | CDS | 1979849:1980568 + | A608 B183 C44 | 9.89 | 1.02 | Hypothetical protein | 2834 | 1263 | |
THC0290_1707 | CDS | 1980570:1981727 + | A532 B180 C44 | 9.80 | 1.01 | Probable type I restriction-modification system, DNA specificity domain protein | 2835 | 724 | |
THC0290_1786 | CDS | 2068911:2069726 + | A1795 B549 C143 | 8.65 | 1.27 | Probable transmembrane protein of unknown function | 2972 | 3869 | |
THC0290_N_1336 | intra | 2301544:2301764 + | A1587 B532 C143 | 10.18 | -1.79 | new transcription segment | 3298 | 2860 | |
THC0290_N_1414 | 5prime | 2473389:2473464 + | A1749 B546 C143 | 9.79 | -1.57 | new transcription segment | 3549 | 3324 | |
THC0290_2156 | CDS | 2490693:2491313 + | A1086 B365 C107 | 10.47 | -1.24 | Protein of unknown function precursor | 3572 | 2077 | |
THC0290_2157 | CDS | 2491341:2491841 + | A483 B172 C44 | 10.28 | -1.30 | Protein of unknown function | 3573 | 640 | |
THC0290_N_1422 | intra | 2491842:2492026 + | A483 B172 C44 | 11.38 | -1.53 | new transcription segment | 3574 | 641 | |
THC0290_N_1443 | 3prime-PT | 2542291:2542585 + | A540 B180 C44 | 8.95 | 1.22 | new transcription segment | 3631 | 752 | |
THC0290_N_1483 | 3prime | 2620163:2620219 - | A299 B110 C31 | 6.87 | 1.28 | new transcription segment | 3737 | 384 |