Table 1 Bordetella genomic species defined in this work.

From: A comprehensive resource for Bordetella genomic epidemiology and biodiversity studies

Genomic speciesa

Former denomination

No. of isolates

No. of genomes

Reference strain (BIGSdb ID)

Accession number(s)

Genome status

Original description

Bordetella genomic species 1

Bordetella genogroup 1

6

2

AU9795 (266)

ASM226143v1; GCF_002261435.1; SAMN06767132

7 contigs

Ref. 20

Bordetella genomic species 2

Bordetella genogroup 2

8

2

AU8256 (271)

ASM226134v1; GCF_002261345.1; SAMN06767130

7 contigs

Ref. 20

Bordetella genomic species 4

Bordetella genogroup 4

3

2

AU14378 (287)

ASM226129v1; GCF_002261295.1; SAMN06767136

19 contigs

Ref. 20

Bordetella genomic species 5

Bordetella genogroup 5

2

2

AU14646 (290)

ASM226147v1; GCF_002261475.1; SAMN06767137

13 contigs

Ref. 20

Bordetella genomic species 7

Bordetella genogroup 7

4

3

AU18089 (299)

ASM226126v1; GCF_002261265.1; SAMN06767141

8 contigs

Ref. 20

Bordetella genomic species 8

Bordetella genogroup 8

1

1

AU19157 (302)

ASM211968v1; GCF_002119685.1; SAMN06767142

Complete

Ref. 20

Bordetella genomic species 9

Bordetella genogroup 9

2

2

AU14267 (304)

ASM211974v1; GCF_002119745.1; SAMN06767135

Complete

Ref. 20

Bordetella genomic species 10

Bordetella genogroup 10

2

1

AU16122 (306)

ASM226122v1; GCF_002261225.1; SAMN06767138

5 contigs

Ref. 20

Bordetella genomic species 11

Bordetella genogroup 11

1

1

AU8856 (308)

ASM226121v1; GCF_002261215.1; SAMN06767131

4 contigs

Ref. 20

Bordetella genomic species 12

Bordetella genogroup 12

1

1

AU6712 (309)

ASM226135v1; GCF_002261355.1; SAMN06767128

3 contigs

Ref. 20

Bordetella genomic species 13

Bordetella genogroup 13

1

1

AU7206 (310)

ASM211966v1; GCF_002119665.1; SAMN06767129

Complete

Ref. 20

Bordetella genomic species 18

Bordetella genogroup 8

1

1

AU21707 (303)

ASM226142v1; GCF_002261425.1; SAMN06767143

3 contigs

Ref. 20

Bordetella genomic species 19

Bordetella ansorpii

1

1

H050680373 (2171)

FKIF01; GCA_900078705.1; SAMEA3906486

10 contigs

This study

Bordetella genomic species 20

Bordetella sp.

1

1

FB-8 (1021)

ARNH01; ASM38218v1; DSM24873; GCA_000382185.1; GCF_000382185.1; PRJNA187096; PRJNA200428; SAMN02440498

6 contigs

This study

Bordetella genomic species 21

Bordetella sp.

1

1

H567 (2694)

ASM170429v1; GCF_001704295.1; SAMN03940794

Complete

This study

Bordetella genomic species 22

Bordetella sp.

1

1

N (2693)

ASM143339v1; GCF_001433395.1; SAMN04219331

Complete

This study

Bordetella genomic species 23

Bordetella petrii

1

1

BT-1-9.2 (2697)

ASM1774559v1; GCF_017745595.1; SAMN13166181

68 contigs

This study

Bordetella genomic species 24

Bordetella sp.

1

1

DE0060 (2695)

ASM767996v1; GCF_007679965.1; SAMN11792220

24 contigs

This study

Bordetella genomic species 25

Bordetella petrii

1

1

BOR01 (2696)

ASM1921888v1; GCF_019218885.1; SAMN19994144

29 contigs

This study

Bordetella genomic species 26

Bordetella petrii

1

1

BMC_SI_3 (2698)

ASM1735624v1; GCF_017356245.1; SAMN18228559

14 contigs

This study

BbGS lineage IIb

Bordetella genogroup 6

9 (20)

2 (13)

AU22978 (297)

ASM211970v1; GCF_002119705.1; SAMN06767144

Complete

This study

n/ac

Bordetella genogroup 16

1

0

TRE152202 (402)

n/a

n/a

n/a

n/ac

Bordetella genogroup 17

1

0

AU30427 (383)

n/a

n/a

n/a

  1. aGenomic species numbers were inherited from genogroup numbering (see ref. 20) where possible. Genogroups 3, 14 and 15 belong to the recently defined B. bronchialis, B. sputigena and B. flabilis; therefore, the corresponding numbers were not used for genomic species.
  2. bRepresents a separate B. bronchiseptica clade that may be considered as a genomic species per se.
  3. cNumbers 16 and 17 were not used for genomic species, as genogroups 16 and 17 were defined previously based on single gene sequencing and might corresponds to new genomic species, but no genomic sequence is available yet.
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