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Table 2 Characteristics of whole genome datasets of selective B. cereus s.l. strains

From: Antibiotics resistance and toxin profiles of Bacillus cereus-group isolates from fresh vegetables from German retail markets

Characteristic

Bacillus cereus s.l. isolate

B26

G12

MS12

MS17

MS195

MS464a

MS532a

MS735

No. of contigs

67

64

368

48

79

41

75

77

Largest contig

524,166

855,854

262,491

733,489

594,878

746,015

1,014,035

657,340

N50

228,834

193,941

44,422

251,250

146,479

249,433

154,418

201,858

GC-content (mol%)

35.27

35.08

34.73

35.31

34.90

35.27

34.70

34.89

Total length

(bp)

5,439,456

5,686,136

6,345,988

5,472,616

6,018,360

5,170,399

6,113,939

5,964,825

MLST (B. cereus)

ST-352

unknown

ST-15

unknown

ST-278

ST-163

unknown

ST-72

Species (KmerFinder)

Bacillus weihenstephanensis

Bacillus cereus

Bacillus thuringiensis

Bacillus weihenstephanensis

Bacillus toyonensis

Bacillus cereus

Bacillus thuringiensis

Bacillus toyonensis

Antibiotic resistance

phenotypeA

AMP, CTX, AMG, PEN, SXT, GM

AMP, CTX, AMG, PEN, SXT

AMP, CTX, AMG, PEN

AMP, CTX, AMG, PEN, SXT

AMP, CTX, AMG, PEN, ERY,

AMP, CTX, AMG, PEN, SXT, GEN

AMP, CTX, AMG, PEN, TET, GEN, ERY, CHL

AMP, CTX, AMG, PEN, ERY,

Enterotoxin PCR

nhe+, hbl+, cytK, ces−

nhe+, hbl+, cytK+, ces−

nhe-, hbl+, cytK+, ces−

nhe+, hbl−, cytK−, ces−

nhe+, hbl+, cytK, ces−

nhe+, hbl−, cytK−, ces−

nhe+, hbl+, cytK+, ces−

nhe+, hbl+, cytK−, ces−

Enterotoxin serology

Nhe+, Hbl−

Nhe+, Hbl+

Nhe+, Hbl+

Nhe+, Hbl−

Nhe+, Hbl+

Nhe+, Hbl−

Nhe+, Hbl+

Nhe+, Hbl+

Enterotoxin genes identified on genome

nhe and hbl genes

nhe, hbl and cytK genes

nhe, hbl and cytK genes

nhe and hbl genes

nhe and hbl genes

nhe and hbl genes

nhe, hbl and cytK genes

nhe and hbl genes

  1. Species identification was carried out with KmerFinder (PATRIC) which examined the number of co-occurring k-mers (substrings of k nucleotides in genome sequence data) and MLST was done by PATRIC to assign the strains to clonal lineages. AbbreviationsA: amikacin (AMK), ampicillin (AMP), amoxicillin/clavulanic acid (AMG), cefotaxime (CTX), chloramphenicol (CHL), ciprofloxacin (CIP), erythromycin (ERY), gentamicin (GEN), imipenem (IPM), penicillin G (PEN), tetracycline (TET) and trimethoprim-sulfamethoxazole (SXT)