TABLE 1.
Validation of putative up- and downregulated genes by real-time RT-PCR
| Conditions | Gene | Gene annotation | Locationa | Relative expression
|
|
|---|---|---|---|---|---|
| Real-time RT-PCR | Array (clone) | ||||
| Bacteroid vs free-living | mlr5906 | Nitrogenase Mo-Fe protein alpha chain; NifD | SYM | 360 ± 56 | 698 (RLB09405) |
| mll9123 | Nitrilotriacetate monooxygenase component A | pMLa | 181 ± 28 | 27 (RLB12270) | |
| mlr6282 | Phosphinothricin tripeptide synthetase B | SYM | 116 ± 33 | 185 (RLB21690) | |
| msr5972 | Transposase (IS3 family orfA) | SYM | 26 ± 2 | 98 (RLB21047) | |
| mlr5876 | Cytochrome P450 | SYM | 25 ± 6 | 46 (RLB06802) | |
| mlr5943 | l-2,4-Diaminobutyric acid transaminase | SYM | 21 ± 4 | 223 (RLB13370) | |
| mlr5932 | ACC deaminase | SYM | 10.4 ± 0.3 | 53 (RLB15575) | |
| mll2921 | Flagellar L-ring protein; FlgH | OUT | 0.36 ± 0.10 | 0.02 (RLB24577) | |
| mlr9251 | Conjugal transfer protein | pMLa | 0.085 ± 0.015 | 0.01 (RLB09665) | |
| mll7254 | Glutamine synthetase (GS1) | OUT | 0.077 ± 0.024 | 0.05 (RLB05534) | |
| mlr7226 | Sugar ABC transporter, permease protein | OUT | 0.055 ± 0.008 | 0.043 (RLB23327) | |
| Microaerobic vs aerobic | mll6630 | Cytochrome c oxidase FixN chain | OUT | 86 ± 27 | 182 (RLB22846) |
| mlr6411 | Cytochrome c oxidase FixN chain | SYM | 11 ± 0.7 | 42 (RLB04306) | |
| mll6639 | Aldehyde dehydrogenase | OUT | 19 ± 2.2 | 37 (RLB12389) | |
| mlr6633 | Anaerbic coproporphyrinogen III oxidase | OUT | 83 ± 18 | 22 (RLB22521) | |
| mlr6580 | Serine/threonine kinase | OUT | 2.1 ± 0.2 | 13 (RLB17832) | |
| mll6600 | 5-Aminolevulinic acid synthase | OUT | 9.8 ± 0.3 | 7.7 (RLB08379) | |
| Carbon starvation vs no | mll1644 | Probable sterol methytransferase | OUT | >50b | 11 (RLB06335) |
| starvation | mll0710 | Glycerol-3-phosphate dehydrogenase | OUT | 20 ± 6.5 | 13 (RLB25054) |
| mlr2338 | Hypothetical protein | OUT | 14 ± 2.0 | 9.5 (RLB20249) | |
| mll1629 | Dihydropyrimidinase | OUT | 9.9 ± 1.0 | 6 (RLB06680) | |
| mlr4771 | Secreted sugar-binding protein | OUT | 8.1 ± 0.7 | 4.9 (RLB10318) | |
| mlr2341 | Hypothetical protein | OUT | 7.9 ± 1.3 | 9.5 (RLB20249) | |
| mll3075 | Amino acid/metabolite permease | OUT | 7.8 ± 1.1 | 5.4 (RLB08066) | |
| mll1631 | N-Carbamoyl-beta-alanine amidohydrolase | OUT | 4.8 ± 0.6 | 6 (RLB06680) | |
| mll3076 | Hypothetical protein | OUT | 3.6 ± 0.7 | 5.4 (RLB08066) | |
| mll4697 | Two-compoment system response regulator | OUT | 1.8 ± 0.1 | 2.2 (RLB15814) | |
| mlr1634 | Probable transcriptional regulator | OUT | 1.8 ± 0.3 | 2.7 (RLB17456) | |
| mll4698 | Two-compoment system histidine protein kinase | OUT | 1.8 ± 0.2 | 2.2 (RLB15814) | |
| mll6710 | Transcriptional regulator | OUT | 1.6 ± 0 | 2.9 (RLB23708) | |
a
Locations of replicons: chromosome, pMLa, and pMLb. OUT and SYM indicate outside and inside the symbiosis island on the chromosome at coordinates 4644702 to 5255766 (18).
b
The signal of unstarved cells was very weak.