TABLE 1.
Main characteristics of completely sequenced K. pneumoniae plasmids 25-kb or smaller.
| Plasmid name | Size (Kb) | Mobile elements and resistance genes2 | Replication3 | Accession number1/References |
| pKPHS6 | 1.308 | Rep protein | CP003228 | |
| p38547-1.476kb | 1.476 | ColE1-type | CP010388 | |
| pMRSN480738_1.6 | 1.551 | ColE1-type | CP024465 | |
| Unnamed | 1.556 | Rep protein | CP023940 | |
| unnamed5 | 1.916 | Rep protein | CP024520 | |
| pUMNturkey9_1 | 1.933 | ColE1-type | CM003132 | |
| pKp_Goe_917-8 | 1.933 | Rep protein | CP018439 | |
| pMYS | 2.014 | ColE1-type | CP006660 (Hudson et al., 2014) | |
| unnamed4 | 2.155 | ColE1-type | CP023906 | |
| pIGRK | 2.348 | Unknown | AY543071 | |
| pKP13a | 2.459 | ColE1-type | CP003996 (Ramos et al., 2014) | |
| p38547-2.496kb | 2.496 | ColE1-type | CP010389 | |
| pIGMS31 | 2.52 | Unknown | AY543072 | |
| unnamed6 | 2.723 | ColE1-type | CP024495, CP024488 | |
| pMRSN480738_2.8 | 2.78 | ColE1-type | CP024464 | |
| pCAV1042-2781 | 2.781 | ColE1-type | CP018665 | |
| pCAV1596-2927 | 2.927 | Unknown | CP011643 | |
| unnamed10 | 2.936 | ColE1-type | CP024506 | |
| unnamed9 | 3.012 | ColE1-type | CP024505 | |
| pB1020 | 3.174 | ColE1-type | JQ319772 | |
| pKp04a, pKpN06-COL, pCAV1042-3223, pKP13b, unnamed4, unnamed5, unnamed8 | 3.223 | ColE1-type | CP012991, CP014305, CP018666, CP024494, CP024487, CP024514, CP024519, CP024503, CP003994 (Ramos et al., 2014) | |
| unnamed7 | 3.336 | ColE1-type | CP024513 | |
| p187-3, pKPHS5 | 3.353 | ColE1-type | CP025469, CP003227 | |
| unnamed6 | 3.377 | ColE1-type | CP024512 | |
| pKPN7 | 3.478 | ColE1-type | CP000652 | |
| unnamed4, unnamed5 | 3.514 | ColE1-type | CP024493, CP024486, CP024511 | |
| pKp_Goe_641-5 | 3.541 | ColE1-type | CP018739 | |
| pKp_Goe_917-7 | 3.559 | ColE1-type | CP018446 | |
| p169 | 3.679 | ISEcp1/blaCMY–2-like | ColE1-type | FM246880 (Verdet et al., 2009) |
| pB1021 | 3.692 | ColE1-type | JQ319767 | |
| pCAV1344-3741, pCAV1193-3741 | 3.741 | ColE1-type | CP011619, CP013321 (Sheppard et al., 2016) | |
| pKPHS4 | 3.751 | ColE1-type | CP003226 | |
| pKpn23412-4 | 3.777 | ISKpn28 | ColE1-type | CP011316 (Becker et al., 2015) |
| unnamed4 | 3.808 | ColE1-type | CP023915 | |
| unnamed5, unnamed6 | 3.825 | ColE1-type | CP024197, CP024569, CP024527, CP024534, CP024541, CP024555, CP024562, CP024575 | |
| unnamed3 | 4 | ColE1-type | CP023908 | |
| pKp_Goe_641-4 | 4.052 | ColE1-type | CP018740 | |
| unnamed2, unnamed3 | 4.064 | ColE1-type | CP024498, CP024518, CP024502 | |
| pKp_Goe_070-3 | 4.075 | ColE1-type | CP018453 | |
| unnamed3 | 4.163 | ColE1-type | CP023945 | |
| unnamed4 | 4.166 | ColE1-type | CP023930 | |
| pKPN2 | 4.196 | ColE1-type | AF300473 Den’mukhametov et al. (1997) | |
| pKpn114 | 4.211 | ColE1-type | EU932690 | |
| unnamed3 | 4.228 | IS1-like | ColE1-type | CP024485 |
| pKp_Goe_579-5 | 4.249 | ColE1-type | CP018317 | |
| pKPN6 | 4.259 | ColE1-type | CP000651 | |
| pCGH25 | 4.27 | qnrD1 | ColE1-type | JQ776509 (Zhang et al., 2013) |
| pKp_Goe_917-6, unnamed5 | 4.51 | ColE1-type | CP018440, CP024196, CP024568, CP024526, CP024533, CP024540, CP024554, CP024561 | |
| unnamed4 | 4.66 | ColE1-type/Rep protein | CP024195, CP024567, CP024525, CP024532, CP024539, CP024553, CP024560 | |
| _Plasmid_D_Kpneumoniae _MS6671 | 4.715 | ColE1-type | LN824137 | |
| unnamed5 | 4.744 | ColE1-type | CP014300 | |
| pKpn2312-5 | 4.831 | ColE1-type | CP011315 (Becker et al., 2015) | |
| p9701 | 4.84 | ISEcp1:ISKpn26-blaCMY–2-like | ColE1-type | FM246881 (Verdet et al., 2009) |
| pKP13c | 5.065 | IS1R# | Rep protein | CP003995 (Ramos et al., 2014) |
| pB1019 | 5.225 | ColE1-type | JQ319775 | |
| pKp_Goe_917-5 | 5.234 | ColE1-type | CP018444 | |
| pUUH239.1 | 5.247 | ColE1-type | CP002473 (Sandegren et al., 2012) | |
| pKlebB-k17/80 | 5.258 | ColE1-type | AF156893 (Riley et al., 2001) | |
| pKp_Goe_641-3 | 5.259 | ColE1-type | CP018738 | |
| pCAV1042-5566 | 5.566 | ColE1-type | CP018667 | |
| unnamed5, p69-4, p44-4 | 5.596 | ColE1-type | CP023936, CP025460, CP025465 | |
| unnamed3 | 5.783 | Rep protein | CP024492 | |
| unnamed2 | 6.139 | ISEcp1#/blaOXA–232/ereA3# | Rep protein | CP016920 |
| KP-plasmid2, pUCLAOXA232-1, plasmid4 | 6.141 | ISEcp1#/blaOXA–232/ereA3# | ColE1-type | CP012755, CP012562, CP006802 (Doi et al., 2014; Kwon et al., 2016) |
| pOXA-232 | 6.328 | ISEcp1#/blaOXA–232/ereA3#/ISEcp1# | ColE1-type | CM009032 (Mancini et al., 2018) |
| unnamed2 | 6.657 | ColE1-type | CP024491 | |
| pIP843 | 7.086 | ISEcp1/blaCTX–M–17/IS903-C | ColE1-type | AY033516 (Cao et al., 2002) |
| pKP3-A | 7.605 | ISEcp1 plus 1305 bp/blaOXA–181/ereA3# | ColE1-type | JN205800 (Potron et al., 2011) |
| Unnamed | 8.187 | ColE1-type | FJ042668 (Bojer et al., 2010) | |
| pH205 | 8.197 | ISEcp1/blaCMY–36 | ColE1-type | EU331426 (Zioga et al., 2009) |
| tig00003569alt | 8.364 | Tn5403 | ColE1-type | CP021700 |
| p18-43_04 | 9.293 | ColE1-type | CP023557 Osei Sekyere and Amoako (2017) | |
| pIGMS32, pKp_Goe_917-4, pCAV1417-9294, pCAV1217-9294, pEA1509_B | 9.294 | ColE1-type | DQ298019, CP018445, CP018348, CP018672, CP009772 (Conlan et al., 2014) | |
| unnamed4 | 9.326 | ColE1-type | CP024574 | |
| CR14_p5 | 9.456 | Tn2#/IS26/ant(3″)-Ia#/aac(6′)-Ib-T329/Tn3# | Unknown | CP015397 |
| pKPN1482-5 | 9.51 | Tn6901# | ColE1-type | CP020845 (Long et al., 2017) |
| pRYCKPC3.1 | 9.803 | Tn4401#/ISKpn7/ blaKPC–3/ISKpn6/Tn4401# | ColE1-type | GU386376 |
| pMRSN480738_10.0 | 10.046 | ColE1-type | CP024463 | |
| p69-3, p44-3 | 10.06 | ColE1-type | CP025459, CP025464 | |
| unnamed3 | 10.061 | ColE1-type | CP023944 | |
| plasmid 3 | 10.077 | ColE1-type | CP017388 | |
| pKPN1481-5 | 10.373 | Tn2c#/IS26/Tn3#/aac(6′)-Ib-T329/ant(3″)-Ia# | ColE1-type | CP020849 (Long et al., 2017) |
| pNJST258N55 | 10.925 | Tn1/2/3#/blaTEM/blaOXA–9/ant(3″)-Ia/aac(6′)-Ib/Tn1# | ColE1-type | CP006924 (Deleo et al., 2014) |
| NY9_p6 | 11.09 | IS26/Tn3# | ColE1-type | CP015391 |
| pJHCMW1 | 11.354 | Tn3#/aac(6′)-Ib-T329/ant(3″)-Ia/blaOXA–9/Tn3#/blaTEM–1a | ColE1-type | AF479774 (Sarno et al., 2002) |
| unnamed4 | 11.972 | Se.ma.I1 (group II intron; also called Kl.pn.I5) | ColE1-type | CP023932 |
| pBK13043-3 | 11.984 | ant(3″)-Ia#/aac(6′)-Ib-T329/Tn3# | ColE1-type | CP020840 (Long et al., 2017) |
| p2 | 12.207 | Se.ma.I1 (group II intron; also called Kl.pn.I5) | ColE1-type | CP006658 |
| unnamed3 | 12.273 | ISEcp1#/blaOXA–232/ ereA3#/ISEcp1#/blaOXA–232/ereA3# | ColE1-type | CP023924 |
| pKPN1481-4 | 12.376 | IS1R | ColE1-type | CP020850 (Long et al., 2017) |
| p30684_3 | 12.399 | IS1294#/IS5075#/IS1294# | ColE1-type | CP006921 (Deleo et al., 2014) |
| pKPN1482-4 | 12.54 | Tn6901 IR/—/Tn6901 IRL | ColE1-type | CP020846 (Long et al., 2017) |
| pColEST258 | 13.636 | Tn2#/IS26/ant(3″)-Ia#/aac(6′)-Ib-C329/Tn3# | ColE1-type | JN247853 Garcia-Fernandez et al. (2012) |
| p500_1420-13.838kb | 13.838 | Tn2#/IS26/ant(3″)-Ia#/aac(6′)-Ib-C329/Tn3# | ColE1-type | CP011984 (Wright et al., 2014) |
| p34618-13.841kb, pCAV1453-14, tig00000004, pBIC-1c, pKPN-294, pUHKPC07-13.841kb, pUHKPC33-13.841kb | 13.841 | Tn2#/IS26/ant(3″)-Ia#/aac(6′)-Ib-C329/Tn3# | ColE1-type | CP010394, CP018353, CP020112, CP022576, CP008832, CP009873, CP011988, CP011993 (Wright et al., 2014) |
| p4 | 13.848 | IS26/ant(3″)-Ia#/aac(6′)-Ib-T329/Tn3#interTn3#/Tn2#/IS26# | Unknown | CM007853 (Ruppe et al., 2017) |
| p4 | 14.027 | Tn3#/aac(6′)-Ib-T329/ant(3″)-Ia#/IS26/Tn2# | ColE1-type | CP019776 (Ruppe et al., 2017) |
| pNJST258N4 | 14.249 | Tn2c#/Tn1/2/3#/blaTEM–1a | ColE1-type | CP006928 (Deleo et al., 2014) |
| ColE-LS6 | 14.709 | IS26/Tn2#/Tn3#/ant(3″)-Ia#/aac(6′)-Ib-T329 | ColE1-type | JX442973 (Villa et al., 2013) |
| pAAC154-a50 | 15.096 | Tn3#/aac(6′)-Ib-T329/ant(3″)-Ia#/IS26/Tn2# | ColE1-type | CP008828, CP007728 (Snitkin et al., 2012) |
| CN1_p2, pAAC154-a9e | 15.1 | Tn3#/aac(6′)-Ib-T329/ant(3″)-Ia#/IS26/Tn2# | ColE1-type | CP015384, CP009877 (Conlan et al., 2014) |
| pAAC154 | 15.101 | Tn3#/aac(6′)-Ib-T329/ant(3″)-Ia#/IS26/Tn2# | ColE1-type | JF828150 (Warburg et al., 2012) |
| pMNCRE69_1 | 15.27 | IS26/Tn2#/Tn3#/ant(3″)-Ia#/aac(6′)-Ib-T329 | ColE1-type | CP018425 |
| tig00000004, tig00000601_pilon, pKPN-c8b | 15.271 | Tn3#/aac(6′)-Ib-T329/ant(3″)-Ia#/IS26/Tn2# | ColE1-type | CP021543, CP021717, CP021837, CP009778 (Conlan et al., 2014) |
| pMNCRE53_1 | 15.273 | IS26/Tn2#/Tn3#/aac(6′)-Ib-T329/ant(3″)-Ia# | ColE1-type | CP018433 |
| pKp_Goe_795-4 | 16.971 | Unknown | CP018459 | |
| KPN207_p4 | 18.623 | aac(6′)-IbOther#/ant(3″)-Ia#/IS26/Tn2#/Tn3#/aac(6′)-Ib-T329/ant(3″)-Ia#/IS26/Tn2# | ColE1-type | LT216440 |
| pMNCRE78_1 | 18.89 | IS26/Tn2#/Tn3#/aac(6′)-Ib-T329/ant(3″)-Ia#/IS26/Tn2# | ColE1-type | CP018431 |
| pDMC1097-20.222kb4 | 20.222 | Tn1/2/3-like#/IS26/ Tn2#/Tn2#/IS26/Tn1,2,3-like# | ColE1-type | CP011979 (Wright et al., 2014) |
| pKPN1481-3 | 20.38 | ISKpn28 | ColE1-type | CP020852 (Long et al., 2017) |
| pSLMT | 21.138 | ISKpn31#/Tn4401#/ISKpn7/ blaKPC–2/ISKpn6/Tn4401#/ ISKpn31#/Tn5403# | ColE1-type | HQ589350 |
| tig00000005 | 22.062 | IS26#/Tn1/2/3#/ blaTEM–1a/Tn4401#/ ISKpn7/blaKPC–3/ISKpn6/Tn4401# | ColE1-type | CP020075 |
| unitig_5 | 22.632 | ISKpn6#/Tn4401#/Tn2#/IS26/ ant(3″)-Ia#/aac(6′)-Ib-T329/Tn1#/Tn4401#/ISKpn7/ blaKPC–3/ISKpn6# | ColE1-type | CP021756 |
| tig00000005 | 22.633 | Tn1#/Tn4401#/IS Kpn7/blaKPC–3/ISKpn6 /Tn4401#/Tn2#/IS26/ant (3″)-Ia#/aac(6′)-Ib-T329 | ColE1-type | CP021548 |
| p15S | 23.753 | Tn2#/IS26/ant(3″)-Ia#/ aac(6′)-Ib-T329/Tn3#/ Tn4401#/ISKpn7/blaKPC–2/ ISKpn6/Tn4401#/ | ColE1-type | FJ223606 (Gootz et al., 2009) |
| tig00000007_pilon | 24.749 | Tn4401#/ISKpn6/blaKPC–3/ ISKpn7/Tn4401#/Tn2#/IS26/ ant(3″)-Ia#/aac(6′)-Ib-T329/Tn3# | ColE1-type | CP021860 |
1Plasmids were considered identical and listed together if they have the same number of nucleotides and identity >99%. 2The nucleotide sequences were analyzed using the Multiple Antibiotic Resistance Annotator (MARA) and database (Partridge and Tsafnat, 2018). # indicates that an incomplete copy of the feature is present. Annotations of partial features may not distinguish correctly between particular variants. 3The initiation of replication mechanisms were identified by the annotations in GenBank, or homology to the origin of replication regions of pJHCMW1, pKPN2, pKlebB-k17/80, pIP843, pH205, pColEST258, and p15S. Rep protein indicates that an ORF with the characteristics of a replication protein was annotated in GenBank. In one case the annotations included features of ColE1 replication and a replication protein. 4In each of the two inverted repeated copies of the Tn1/2/3# copies in the plasmid pDMC1097-20.222kb there is a fragment of blaTEM–1 (see Figure 2B). 5The nucleotide 329 in the sequence CP006924 in GenBank is shown as “N.”