TABLE 2.
Oligonucleotides and plasmids used in this study.
| Oligonucleotides | Sequence | References |
| CdgC13 | 5′ GCTCATTGCAGGGCGATGAT 3′ | This study |
| CdgC14 | 5′ CCATCTAGATGGTTCTGCTTCCCAACACCG 3′ | This study |
| CdgC17 | 5′ AAGTCTAGAAAGGATTCGGCCTGGGCAAG 3′ | This study |
| CdgC18 | 5′ TCGGGTGCTGTCCCGTCA 3′ | This study |
| Pr100206F | 5′ GGTACCGCTGTCCCCTCTCGCGTT 3′ | This study |
| Pr100206R | 5′ GAATTCCTAAGGGGAGGGGACCACGC 3′ | This study |
| cdgC-F | 5′ TTGAATTCATGCGCGTGCTCATCGCC 3′ | This study |
| cdgC-R | 5′ TCGTCGACCTAAGGGGAGGGGACCACGC 3′ | This study |
| GmF | 5′ TGCCTCGAGGCACCTTGTCGCCTTGCGTA 3′ | This study |
| GmR | 5′ TGACTAGTCCTGGCGGCGTTGTGACAATT 3′ | This study |
| Plasmids | ||
| pGEM-T Easy | Cloning vector ori f1, lacZa, ApR | Promega Incorporated |
| pGEX-4T-1 | Expression vector, tac promoter, GST tag, ApR | Promega Incorporated |
| pLIL-2 | Expression vector derived from pQE31 containing the cdgA gene, CmR, ApR. | Ramírez-Mata et al., 2016 |
| pCDR | Suicide vector. lacZ, traJ, ColE1, mob+, OriT, sacB, TcR. | This study |
| pJB3Tc20 | RK2 OriT, TcR, ApR. | Blatny et al., 1997 |
| pJMS-Km | Suicide vector derived from pSUP202, KmR. | Ramírez-Mata et al., 2016 |
| pJB3-KmR | Plasmid derived from pJB3Tc20, lac promoter and TcR were excised employing SalI enzyme, KmR was cloned into an EcoRV site | This study |
| pBBR1MCS-5 | Plasmid derived from pBBR1MCS, lacZ-α, T7 promoter, GmR. | Kovach et al., 1994 |
| pAZBR-T7mCh | Suicide vector devired of pJMS-Km, mCherry gene, ΩT7 terminator, KmR, TcR. | Cruz-Pérez et al., 2021 |
| pAZBR-T7-Gm | Suicide vector derived of pAZBR-T7mCh, ΩT7 terminator, TcR, GmR | This study |
| pDZ-119 | C-di-GMP biosensor, CmR | Martínez-Méndez et al., 2021 |
| pMP2444 | Wide host range vector containing the eGFP gene expressed under the lac promoter, GmR | ClonTech |
| pMP2449-5 | Plasmid derived from pMP2444 with the eGFP gene replaced by the mCherry gene, GmR | Ramirez-Mata et al., 2018 |
| pMP2450 | Plasmid derived from pMP2444, KmR | This study |
| pGEM-GmR | Derivative from pGEM T-Easy containing the gentamicin resistance gene, ApR, GmR | This study |
| pGEM-FrgA | Plasmid derived from pGEM T-Easy containing an 829 bp fragment corresponding to the upstream sequence of the cdgC gene, ApR | This study |
| pGEM-FrgB | Plasmid derived from pGEM T-Easy containing an 864 bp fragment corresponding to the downstream sequence of the cdgC gene, ApR | This study |
| pGEM-cdgC | Plasmid derived from pGEM T-Easy containing the ORF of cdgC gene, ApR | This study |
| pGEX-cdgC | Plasmid derived from pGEX-4T-1 containing the ORF of cdgC gene, ApR | This study |
| pCDR ΔcdgC | Plasmid derived from pCDR containing the 1,699 bp fragment (AB) in order to allow cdgC deletion by homologous recombination, TcR | This study |
| pJB-cdgC | Plasmid derived from pJB3Tc20-KmR containing the 1,089 bp fragment corresponding to cdgC gene and its native promoter | This study |
| pAZBR-cdgC | Derivative vector of pAZBR-T7-Gm carrying the 1089 bp fragment corresponding to cdgC gene and its native promoter among the chromosomal TWA69690.1 and TWA69689.1 putative proteins from A. baldaniorum Sp245 strain, TcR, GmR | This study |
Ap, Ampicillin; Km, Kanamycin; Tc, Tetracycline; Gm, Gentamycin; Cm, Chloramphenicol.