Table 1.
Summary of deletion strains of ribosomal protein genesa.
| Protein | Gene | Operon | Replaced (bp)b |
Remaining (bp)c |
Plasmidd | Essentialitye |
|---|---|---|---|---|---|---|
| L2 | rplB | S10 | All | None | pCDSSara-L2 | Essential |
| L3 | rplC | S10 | All | None | pCDSSara-L3 | Essential |
| L4 | rplD | S10 | 1-585 | [586-606] | pCDSSara-L4 | Essential |
| L5 | rplE | spc | 130-540 | 1-129 | pCDSSara-L5 | Essential |
| L6 | rplF | spc | All | None | pCDSSara-L6 | Essential |
| L10 | rplJ | rif | All | None | pCDSSara-L10 | Essential |
| L7/L12 | rplL | rif | All | None | pCDSStrc-L12 | Essential |
| L13 | rplM | L13 | 31-429 | 1-30 | pCDSSara-L13 | Essential |
| L14 | rplN | spc | All | None | pCDSSara-L14 | Essential |
| L15 | rplO | spc | 1-424 | [425-435] | pCDSSara-L15 | Nonessential |
| L16 | rplP | S10 | All | None | pCDSSara-L16 | Essential |
| L17 | rplQ | alpha | All | None | pCDSSara-L17 | Essential |
| L18 | rplR | spc | All | None | pCDSSara-L18 | Essential |
| L19 | rplS | S16 | All | None | pCDSSara-L19 | Essential |
| L20 | rplT | L20 | All | None | pCDSSara-L20 | Essential |
| L21 | rplU | L21 | All | None | pCDSSara-L21 | Nonessential |
| L22 | rplV | S10 | All | None | pCDSSara-L22 | Essential |
| L23 | rplW | S10 | 31-303 | 1-30 | pCDSSara-L23 | Essential |
| L24 | rplX | spc | All | None | pCDSSara-L24 | Nonessential |
| L27 | rpmA | L21 | All | None | pCDSSara-L27 | Nonessential |
| L28 | rpmB | L28 | 31-237 | 1-30 | pCDSSara-L28 | Essentialf |
| L29 | rpmC | S10 | All | None | pCDSSara-L29 | Nonessential |
| L30 | rpmD | spc | 1-171 | [172-180] | pCDSSara-L30 | Nonessential |
| L34 | rpmH | L34 | All | None | pCDSSara-L34 | Nonessential |
| S1 | rpsA | S1 | All | None | pCDSSara-S1 | Essential |
| S2 | rpsB | S2 | 31-726 | 1-30 | pCDSSara-S2 | Essential |
| S3 | rpsC | S10 | 31-702 | 1-30 | pCDSSara-S3 | Essential |
| S4 | rpsD | alpha | 1-528 | 529-621 | pCDSSara-S4 | Essential |
| S5 | rpsE | spc | 1-492 | [493-504] | pCDSSara-S5 | Essential |
| S7 | rpsG | str | All | None | pCDSSara-S7 | Essential |
| S8 | rpsH | spc | All | None | pCDSSara-S8 | Essentialf |
| S9 | rpsI | L13 | All | None | pCDSSara-S9 | Nonessential |
| S10 | rpsJ | S10 | 1-192 | 193-312 | pCDSSara-S10 | Essential |
| S11 | rpsK | alpha | All | None | pCDSSara-S11 | Essential |
| S12 | rpsL | str | All | None | pCDSSara-S12 | Essential |
| S13 | rpsM | alpha | All | None | pCDSSara-S13 | Essentialf |
| S14 | rpsN | spc | All | None | pCDSSara-S14 | Essential |
| S16 | rpsP | S16 | All | None | pCDSSara-S16 | Essential |
| S17 | rpsQ | S10 | All | None | pCDSSara-S17 | Nonessential |
| S18 | rpsR | S6 | All | None | pCDSStrc-S18 | Essential |
| S19 | rpsS | S10 | All | None | pCDSSara-S19 | Essential |
Deletion strains of rplA (L1), rplI (L9), rplK (L11), rplY (L25), rpmE (L31), rpmF (L32), rpmG (L33), rpmI (L35), rpmJ (L36), rpsF (S6), rpsO (S15), rpsT (S20), and rpsU (S21) are available from Keio collection 25.
The indicated region were replaced by the chloramphenicol acetyltransferase (CAT) gene as shown in Fig. S1. All strains exhibited chloramphenicol resistance at ≥7 μg/ml. The base-pair number in the gene is indicated.
The regions in brackets indicate non-coding sequences (Fig. S2), and the others indicate open reading frames (Fig. S2c and S2d).
The complementing plasmid carrying the ribosomal protein gene is listed. Gene expression is controlled by either arabinose (pCDSSara) or IPTG (pCDSStrc).
Essentiality of the plasmid gene copy was analyzed by both growth dependence on inducer and dispensability of the plasmid on LB media at 30 °C and 37 °C.