Skip to main content

Table 6 Genome characteristics

From: Cytotoxic Escherichia coli strains encoding colibactin and cytotoxic necrotizing factor (CNF) colonize laboratory macaques

Strain/isolate

Source

Genome length (bp)

Contigs

N50

GC content (%)

Protein genes (CDS)

tRNA genes

rRNA genes

Virulence factor genes

Antibiotic resistance genes

GenBank accession

S1 (pks+/cnf1+)

Research rhesus macaque rectal swab

5,070,329

92

268,704

50.49

5022

78

10

astA, celb, cnf1, gad, hlyCABD, iroN, iss, mchB, mchC, mchF, mcmA, pks, vat

–

NHZD00000000

S2 (pks+/cnf1+)

Research rhesus macaque rectal swab

5,070,134

98

268,677

50.49

5017

78

10

astA, celb, cnf1, gad, hlyCABD, iroN, iss, mchB, mchC, mchF, mcmA, pks, vat

–

NHZC00000000

S4 (pks+/cnf1−)

Research rhesus macaque rectal swab

4,843,133

160

65,852

50.72

4721

83

10

celb, gad, iroN, iss, mchB, mchC, mchF, mcmA, pic, pks, vat

–

NHZA00000000

S5 (pks+/cnf1−)

Research rhesus macaque rectal swab

4,899,189

116

127,782

50.54

4791

81

10

celb, gad, iroN, iss, mchB, mchC, mchF, mcmA, pic, pks, vat

–

NHYZ00000000

S3 (pks−/cnf1+)

Research rhesus macaque rectal swab

5,239,168

227

105,395

50.66

5403

80

8

cnf1, hlyCABD, gad, iha, iss, sat

aac(6′)Ib-cr, blaCTX-M-15, blaOXA-1, catB3-like, tet(A)

NHZB00000000

S6 (pks−/cnf1+)

Research rhesus macaque rectal swab

5,345,115

176

178,747

50.53

5502

79

9

cnf1, hlyCABD, gad, iha, iss, sat

aac(6′)Ib-cr, blaCTX-M-15, blaOXA-1, catB3-like, tet(A)

NHYY00000000

S9 (pks−/cnf1+)

Research rhesus macaque rectal swab

5,536,267

173

170,757

50.32

5765

81

9

cnf1, hlyCABD, gad, iha, iss, sat

aac(6′)Ib-cr, blaCTX-M-15, blaOXA-1, catB3-like, tet(A)

NHYV00000000

S10 (pks−/cnf1+)

Research rhesus macaque rectal swab

5,254,454

178

113,006

50.70

5393

80

9

cnf1, hlyCABD, gad, iha, iss, sat

aac(6′)Ib-cr, blaCTX-M-15, blaOXA-1, catB3-like, tet(A)

NHYU00000000

S7 (pks−/cnf1−)

Research rhesus macaque rectal swab

4,840,594

136

147,699

50.76

4807

84

10

gad, iss, lpfA

–

NHYX00000000

S8 (pks−/cnf1−)

Research rhesus macaque rectal swab

4,770,474

119

168,371

50.68

4730

81

11

gad, iss, lpfA

–

NHYW00000000

IHE3034

Human neonatal meningitis

5,108,383

1 (complete genome)

–

50.70

5045

97

22

gad, iroN, iss, pks, sfaS, vat

–

CP001969.1

NC101

Research mouse intestinal commensal, pro-carcinogenic

5,021,144

27

511,891

50.57

4917

72

4

gad, iroN, iss, pks, sfaS, vat

–

AEFA00000000.1

UTI89

Human uropathogenic strain

5,179,971

1 (complete genome)

–

50.60

5040

89

14

cnf1, gad, gad, iroN, iss, senB, sfaS, vat

–

CP000243.1

K-12 substr. DH10B

Human non-pathogenic intestinal commensal

4,686,137

1 (complete genome)

–

50.80

4606

87

14

gad, iss

–

AP012306.1