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Full information on isolate Kantorowic (id:237)

Provenance/primary metadata

id
237
isolate
Kantorowic
biosample
SAMN01920611
accession number
1291353
clade
P1
species
interrogans
serogroup
Icterohaemorrhagiae
serovar
Icterohaemorrhagiae
sequencing year
2013
world region
South America
country
Brazil
host
dog
sample type
Unknown
source lab
Craig Venter Institute
sender
Julien Guglielmini, Institut Pasteur, France
curator
Vallier SORDOILLET, CNR Leptospirose PASTEUR (E-mail: vallier.sordoillet@pasteur.fr)
update history
1040 updates show details
date entered
2016-12-01
datestamp
2023-02-02

Publications (2)

  • Guglielmini J, Bourhy P, Schiettekatte O, Zinini F, Brisse S, Picardeau M (2019). Genus-wide Leptospira core genome multilocus sequence typing for strain taxonomy and global surveillance. PLoS Negl Trop Dis 13:e0007374
  • Guglielmini J, Bourhy P, Schiettekatte O, Zinini F, Brisse S, Picardeau M (2020). Correction: Genus-wide Leptospira core genome multilocus sequence typing for strain taxonomy and global surveillance. PLoS Negl Trop Dis 14:e0008673

Sequence bin

method
Unknown
contigs
149
total length
4,609,240 bp
max length
154,134 bp
mean length
30,935 bp
N50
48,240
L50
29
N90
16,808
L90
88
N95
10,642
L95
105
%GC
35.03
Ns
0
gaps
0
loci tagged
619

Show sequence bin

Assembly checks

CheckStatusWarn/fail reason
Number of contigs
Assembly size
Minimum N50
%GC

Annotation quality metrics

Scheme completion

SchemeScheme lociDesignated lociAnnotation
ScoreStatus
cgMLST54554299

Analysis

rMLST species identification

RankTaxonTaxonomySupportMatches
SPECIES Leptospira interrogans Spirochaetes > Spirochaetia > Leptospirales > Leptospiraceae > Leptospira > Leptospira interrogans 100%

Analysis performed: 2022-12-05

Similar isolates (determined by classification schemes)

Some groups only contain this isolate. Show single groups

Experimental schemes are subject to change and are not a stable part of the nomenclature.

Classification schemeUnderlying schemeClustering methodMismatch thresholdStatusGroup
Cluster_40_cgMLSTcgMLSTSingle-linkage40experimental6 (146 isolates)
Test-75cgMLSTSingle-linkage75experimental6 (34 isolates)
Test-50cgMLSTSingle-linkage50experimental6 (146 isolates)
Test-110cgMLSTSingle-linkage110experimental6 (36 isolates)
Test-150cgMLSTSingle-linkage150experimental6 (38 isolates)
Test-20cgMLSTSingle-linkage20experimental54 (36 isolates)
Test-200cgMLSTSingle-linkage200experimental6 (38 isolates)
Test-220cgMLSTSingle-linkage220experimental6 (34 isolates)
Test-250cgMLSTSingle-linkage250experimental6 (34 isolates)
Test-30cgMLSTSingle-linkage30experimental51 (145 isolates)
Test-300cgMLSTSingle-linkage300experimental6 (38 isolates)
Test-60cgMLSTSingle-linkage60experimental6 (146 isolates)
Test-80cgMLSTSingle-linkage80experimental6 (146 isolates)
Cluster_40_cgMLSTcgMLSTSingle-linkage40experimental6 (146 isolates)
Test-75cgMLSTSingle-linkage75experimental6 (34 isolates)
Test-50cgMLSTSingle-linkage50experimental6 (146 isolates)
Test-10cgMLSTSingle-linkage10experimental136 (1 isolate)
Test-110cgMLSTSingle-linkage110experimental6 (36 isolates)
Test-150cgMLSTSingle-linkage150experimental6 (38 isolates)
Test-20cgMLSTSingle-linkage20experimental54 (36 isolates)
Test-200cgMLSTSingle-linkage200experimental6 (38 isolates)
Test-220cgMLSTSingle-linkage220experimental6 (34 isolates)
Test-250cgMLSTSingle-linkage250experimental6 (34 isolates)
Test-30cgMLSTSingle-linkage30experimental51 (145 isolates)
Test-300cgMLSTSingle-linkage300experimental6 (38 isolates)
Test-60cgMLSTSingle-linkage60experimental6 (146 isolates)
Test-80cgMLSTSingle-linkage80experimental6 (146 isolates)

Schemes and loci

Navigate and select schemes within tree to display allele designations

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