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Full information on isolate ATCC BAA-2146 (id:1642)

Projects

This isolate is a member of the following projects:

Public isolates
This project contains the isolates that should be publicly available through the public access database.
Bialek et al 2014_EID
167 isolates from Bialek et al. in which the scgMLST-634 scheme was defined (PMID: 25341126)
Isolates Excluded (failed QC)
KlebNET-GSP qc

Provenance/primary metadata

id
1642
isolate
ATCC BAA-2146
sender
Suzanne Bialek, AP-HP
curator
Sebastien Bridel, Institut Pasteur, Paris, France (E-mail: sbridel@pasteur.fr)
update history
92 updates show details
date entered
2013-06-20
datestamp
2022-11-03
taxonomic designation
K. pneumoniae
phylogroup from ST
Kp1 (7 loci)
QC status
0100
isolation year
2010
country
USA
continent
North America
source type
Human
host
Human
source details
Unknown
other source info
Jebrail MJ et al
source lab
Sandia National Laboratories, Livermore, CA, USA
duplicate number
11
accession number
APNN01

Publications (3)

  • Bialek-Davenet S, Criscuolo A, Ailloud F, Passet V, Jones L, Delannoy-Vieillard AS, Garin B, Le Hello S, Arlet G, Nicolas-Chanoine MH, Decré D, Brisse S (2014). Genomic definition of hypervirulent and multidrug-resistant Klebsiella pneumoniae clonal groups. Emerg Infect Dis 20:1812-20
  • Broberg CA, Palacios M, Miller VL (2013). Whole-Genome Draft Sequences of Three Multidrug-Resistant Klebsiella pneumoniae Strains Available from the American Type Culture Collection. Genome Announc 1:
  • Leski T, Vora GJ, Taitt CR (2012). Multidrug resistance determinants from NDM-1-producing Klebsiella pneumoniae in the USA. Int J Antimicrob Agents 40:282-4

Sequence bin

contigs
690
total length
5,644,669 bp
max length
95,372 bp
mean length
8,181 bp
N50
17,409
L50
90
N90
3,776
L90
354
N95
2,166
L95
452
%GC
56.90
Ns
0
gaps
0
loci tagged
3,544

Show sequence bin

Assembly checks

CheckStatusWarn/fail reason
Number of contigstoo many contigs (fail threshold: 501)
Assembly size
Minimum N50N50 too low (warn threshold: 20,000)
%GC

Annotation quality metrics

Scheme completion

SchemeScheme lociDesignated lociAnnotation
ScoreStatus
MLST77100
Ribosomal MLST5353100
scgMLST629_S62960395

Analysis

rMLST species identification

RankTaxonTaxonomySupportMatches
SPECIES Klebsiella pneumoniae Proteobacteria > Gammaproteobacteria > Enterobacterales > Enterobacteriaceae > Klebsiella > Klebsiella pneumoniae 100%

Analysis performed: 2022-11-02

Kleborate

species
Klebsiella pneumoniae
species_match
strong
virulence_score
0
resistance_score
2
num_resistance_classes
8
num_resistance_genes
19
YbST
0
CbST
0
AbST
0
SmST
0
RmST
0
wzi
wzi174
K_locus
KL74
K_type
K74
K_locus_problems
?-
K_locus_confidence
Good
K_locus_identity
98.95%
K_locus_missing_genes
KL74_07_wbaP
O_locus
O3b
O_type
O3b
O_locus_problems
?*
O_locus_confidence
Good
O_locus_identity
91.72%
AGly_acquired
aac(3)-IIa.v1^;aac(6')-Ib-cr.v2;aac(6')-Ib3*?;aac(6')-Ib3*?;aadA2;rmtC;strA.v1^;strB.v1
Flq_acquired
qnrB9.2^
Sul_acquired
sul1;sul1;sul2
Tet_acquired
tet(A).v1
Tmt_acquired
dfrA14.v2*
Bla_acquired
CMY-6;OXA-1;TEM-1D.v1^
Bla_ESBL_acquired
CTX-M-15
Bla_Carb_acquired
NDM-1
Bla_chr
SHV-11.v1^
SHV_mutations
35Q
Omp_mutations
OmpK35-25%
Flq_mutations
GyrA-83I;ParC-80I
truncated_resistance_hits
CatB4.v1?-81%
spurious_resistance_hits
mphA?-0%;mphA?-52%

Analysis performed: 2024-02-09; Kleborate v2.3.2

Schemes and loci

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