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Full information on isolate 200801910 (id:85)

Provenance/primary metadata

id
85
isolate
200801910
biosample
SAMN02436417
accession number
1049762
clade
P1
species
borgpetersenii
serogroup
Ballum
serovar
Castellonis
sequencing year
2012
world region
Caribbean
country
Guadeloupe
host
human
sample type
Unknown
source lab
Craig Venter Institute
sender
Julien Guglielmini, Institut Pasteur, France
curator
Jean-François Mariet, Institut Pasteur, Paris, France (E-mail: jean-francois.mariet@pasteur.fr)
update history
1002 updates show details
date entered
2016-12-01
datestamp
2024-04-17

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
27
total length
3,972,543 bp
max length
836,847 bp
mean length
147,132 bp
N50
276,861
L50
4
N90
137,541
L90
11
N95
87,929
L95
13
%GC
40.04
Ns
0
gaps
0
loci tagged
616

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
cgMLST54550592

Analysis

rMLST species identification

RankTaxonTaxonomySupportMatches
SPECIES Leptospira borgpetersenii Spirochaetes > Spirochaetia > Leptospirales > Leptospiraceae > Leptospira > Leptospira borgpetersenii 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-linkage40experimental15 (114 isolates)
Test-75cgMLSTSingle-linkage75experimental15 (4 isolates)
Test-50cgMLSTSingle-linkage50experimental15 (114 isolates)
Test-110cgMLSTSingle-linkage110experimental14 (76 isolates)
Test-150cgMLSTSingle-linkage150experimental13 (76 isolates)
Test-20cgMLSTSingle-linkage20experimental16 (76 isolates)
Test-200cgMLSTSingle-linkage200experimental13 (76 isolates)
Test-220cgMLSTSingle-linkage220experimental13 (4 isolates)
Test-250cgMLSTSingle-linkage250experimental13 (4 isolates)
Test-30cgMLSTSingle-linkage30experimental15 (114 isolates)
Test-300cgMLSTSingle-linkage300experimental8 (135 isolates)
Test-60cgMLSTSingle-linkage60experimental15 (114 isolates)
Test-80cgMLSTSingle-linkage80experimental14 (114 isolates)
Cluster_40_cgMLSTcgMLSTSingle-linkage40experimental15 (114 isolates)
Test-75cgMLSTSingle-linkage75experimental15 (4 isolates)
Test-50cgMLSTSingle-linkage50experimental15 (114 isolates)
Test-10cgMLSTSingle-linkage10experimental57 (1 isolate)
Test-110cgMLSTSingle-linkage110experimental14 (76 isolates)
Test-150cgMLSTSingle-linkage150experimental13 (76 isolates)
Test-20cgMLSTSingle-linkage20experimental16 (76 isolates)
Test-200cgMLSTSingle-linkage200experimental13 (76 isolates)
Test-220cgMLSTSingle-linkage220experimental13 (4 isolates)
Test-250cgMLSTSingle-linkage250experimental13 (4 isolates)
Test-30cgMLSTSingle-linkage30experimental15 (114 isolates)
Test-300cgMLSTSingle-linkage300experimental8 (135 isolates)
Test-60cgMLSTSingle-linkage60experimental15 (114 isolates)
Test-80cgMLSTSingle-linkage80experimental14 (114 isolates)

Schemes and loci

Navigate and select schemes within tree to display allele designations

Tools

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