Research Article
Multidrug-Resistant Hypervirulent Klebsiella pneumoniae Found Persisting Silently in Infant Gut Microbiota
Table 2
Genome assembly data, MLSTs, and drug resistance determinants of the studied K. pneumonia isolates.
| | Sample name | Kleb102 | Kleb22 | Kleb27 | Kleb24 | Kleb28 | Kleb29 | Kleb60 | Kleb85 | Kleb90 | Kleb91 |
| | GenBank Accession ID | VOOJ00000000 | VOOA00000000 | VOOD00000000 | VOOC00000000 | VOOE00000000 | VOOF00000000 | VOOG00000000 | VOOH00000000 | VOOB00000000 | VOOI00000000 | | SRA accession ID | SRR12102917 | SRR12102926 | SRR12102923 | SRR12102924 | SRR12102922 | SRR12102921 | SRR12102920 | SRR12102919 | SRR12102925 | SRR12102918 | | Reads number | 1040088 | 805318 | 1056762 | 856300 | 926382 | 1259976 | 994296 | 1207354 | 1216382 | 1381726 | | Coverage | 58.7x | 45.4x | 59.6x | 48.3x | 52.3x | 71.1x | 56.1x | 68.1x | 68.6x | 78.0x | | Genome assembly length | 5297684 | 5881113 | 5641111 | 5518356 | 5885411 | 5890967 | 5666743 | 5324705 | 5882697 | 5326604 | | Contig number | 106 | 111 | 76 | 94 | 120 | 118 | 91 | 74 | 108 | 77 | | N50 metric | 350001 | 307112 | 322041 | 319410 | 307112 | 307112 | 263911 | 358425 | 307112 | 437151 | | Largest contig length | 1106296 | 770102 | 1334922 | 930837 | 771547 | 799268 | 642551 | 812552 | 799226 | 812552 | | MLST | ST983-1LV | ST23 | ST23 | ST37 | ST23 | ST23 | ST268 | ST45 | ST23 | ST45 | | Yersiniabactin | ybt unknown | ybt 1; ICEKp10 | ybt 1; ICEKp10 | — | ybt 1; ICEKp10 | ybt 1; ICEKp10 | ybt 17; ICEKp10 | — | ybt 1; ICEKp10 | — | | Colibactin | — | clb 2 | clb 2 | — | clb 2 | clb 2 | clb 3 | — | clb 2 | — | | Aerobactin | — | iuc 1 | iuc 1 | — | iuc 1 | iuc 1 | iuc 1 | — | iuc 1 | — | | Salmochelin | — | iro 1 | iro 1 | — | iro 1 | iro 1 | iro 1 | — | iro 1 | — | | rmpA | — | rmpA_2 (KpVP-1), rmpA_2 (KpVP-1) | rmpA_2 (KpVP-1) | — | rmpA_2 (KpVP-1) | rmpA_2 (KpVP-1) | rmpA_2(KpVP-1), rmpA_2(KpVP-1) | — | rmpA_2 (KpVP-1) | — | | rmpA2 | — | rmpA2_8, rmpA2_8 | rmpA2_5, rmpA2_5 | — | rmpA2_8, rmpA2_8 | rmpA2_8, rmpA2_8 | rmpA2_2, rmpA2_2 | — | rmpA2_8, rmpA2_8 | — | | Wzi | wzi39 | wzi1 | wzi1 | wzi123 | wzi1 | wzi1 | wzi95 | wzi101 | wzi1 | wzi101 | | K Locus | KL39 | KL1 | KL1 | KL136 | KL1 | KL1 | KL20 | KL24 | KL1 | KL24 | | O Locus | O3b | O1v2 | O1v2 | O2v2 | O1v2 | O1v2 | O2v1 | O2v1 | O1v2 | O2v1 | | Aminoglycosides | StrB; StrA | StrB; StrA; Aac3-IIa; StrB; StrA | — | StrB; StrA | StrB; StrA; Aac3-IIa | StrB; StrA; Aac3-IIa | StrB; StrA; Aph3-Ia | StrB; StrA | StrB; StrA; Aac3-IIa; StrB; StrA | StrB; StrA | | Fluoroquinolones | — | QnrB1? | — | — | QnrB1? | QnrB1? | — | — | QnrB1? | — | | Macrolides | — | — | — | — | — | — | EreA2 | — | — | — | | Phenicols | CatA1 | CatB4 | — | — | CatB4 | CatB4 | — | CatB4 | CatB4 | CatB4 | | Sulfonamides | SulII | SulII; SulII | — | — | SulII | SulII | SulI; SulII | SulII | SulII; SulII | SulII | | Tetracyclines | TetA | TetA | — | — | TetA | TetA | — | — | TetA | — | | Trimethoprim | — | DfrA14; DfrA14 | — | — | DfrA14 | DfrA14 | DfrA5 | DfrA14 | DfrA14 | DfrA14 | | BLA | SHV-187; AmpH | SHV-190; AmpH; OXA-1 | SHV-190; AmpH | AmpH | SHV-190; AmpH; OXA-1 | SHV-190; AmpH; OXA-1 | AmpH | AmpH; OXA-1 | SHV-190; AmpH; OXA-1 | AmpH; OXA-1 | | ESBL | — | CTX-M-15; CTX-M-15 | — | — | CTX-M-15 | CTX-M-15 | SHV-13; CTX-M-3; CTX-M-3 | CTX-M-15 | CTX-M-15; CTX-M-15 | CTX-M-15 | | BSBL | — | — | — | SHV-77 | — | — | — | — | — | — | | BSBL-inhR | TEM-30 | TEM-30; TEM-30 | — | — | TEM-30 | TEM-30 | — | SHV-26; TEM-30 | TEM-30; TEM-30 | SHV-26; TEM-30 |
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MLST, in silico multilocus sequence type; BLA, β-lactamases; BSBL, broad-spectrum β-lactamases, BSBL-inhR, BSBL with resistance to β-lactamase inhibitors, ESBL, extended-spectrum β-lactamases. Asterisked proteins are ones without exact nucleotide and amino acid match.
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