Table 1 List of mutations derived in the Modern AM1 lineage

META1

611,700

G → A

Intergenic (+342/-18)

META1_0578/META1_0579

Transcriptional accessory protein/hypothetical protein

META1

2,050,899

G → C

S359R (AGG → AGC)

META1_1984

Putative catecholate siderophore receptor fiu precursor (TonB-dependent receptor fiu)

META1

2,511,236

C → T

L8004F (C TC → T TC)

META1_2412

Hypothetical protein

META1

3,795,848

C → T

L264F (C TC → T TC)

aldB

Aldehyde dehydrogenase; chloroacetaldehyde dehydrogenase

META1

4,123,848

C → T

Intergenic (-1754/+2180)

META1_4038/rffH

Fragment of transposase related to IS701 family/glucose-1-phosphate thymidylyltransferase

META1

4,382,526

C → G

T160T (ACC → ACG)

META1_4292

Plasmid replication protein RepA

META1

4,494,119

A → G

N55D (A AC → G AC)

rplJ

50S ribosomal subunit protein L10

META1

4,496,733

A → G

Q521R (CA G → CG G)

rpoB

RNA polymerase, beta subunit

META1

4,498,413

A → G

Q1081R (CA G → CG G)

rpoB

RNA polymerase, beta subunit

META1

4,665,003

C → A

L300M (C TG → A TG)

recG

DNA helicase, ATP-dependent resolution of Holliday junctions, branch migration

META1

5,187,175

G → A

A260T (G CC → A CC)

META1_5044

Putative o-succinylbenzoate--CoA ligase

Chromosome

Position

Mutation

Annotation

Gene/Locus

Description

META1

1,083,921

+1 bp

Intergenic (-299/+188)

META1_1041/META1_1042

Putative CoxB/conserved hypothetical protein

META1

2,012,135

+5 bp

Coding (126-130/228 nt)

META1_1939

Hypothetical protein

META1

5,018,430

Δ1 bp

Intergenic (-120/+218)

META1_4900/META1_4901

Putative hydrolase of beta-lactamase superfamily/conserved hypothetical protein DUF949

META2

821,910

+1 bp

Intergenic (+133/-26)

META2_0863/META2_0864

AAA superfamily ATPase/hypothetical protein

Chromosome

Position

Mutation

Annotation

Gene/Locus

Description

META1

772,350

+1408 bp

Gain ISMex3; coding

META1_0742–META1_0743

META1_0742, META1_0743

META1

929,023

+1390 bp

Gain ISMex14; intergenic

META1_0895-META1_0898

Transposase of ISMex1, IS3 family (ORF 1)/transposase of ISMex14, IS256 family

META1

3,730,805

+1408 bp

Gain ISMex3; coding

META1_3592–META1_CDS3732187D

META1_3592, META1_3593, META1_CDS3732187D

META1

4,143,329

+1620 bp

Gain ISMex4; intergenic

META1_4059-META1_4061

Hypothetical protein/transposase of ISMex4, IS1380 family

META1

4,149,803

+1408 bp

Gain ISMex3; coding

META1_4069

META1_4069

META1

4,702,223

+1620 bp

Gain ISMex4; intergenic

META1_4586-META1_CDS4704205D

Transposase of ISMex4, IS1380 family/hypothetical protein; RMQ08497

META1

4,909,262

+1620 bp

Gain ISMex4; coding

META1_4801-META1_4803

Hypothetical protein///transposase of ISMex4, IS1380 family/conserved hypothetical protein

META2

426,304

+1205 bp

Gain ISMex1; coding

META2_0472-META2_0475

Transposase of ISMex1, IS3 family (ORF 1)/conserved hypothetical protein

META2

1,153,967

+1620 bp

Gain ISMex4; intergenic

META2_1243-META2_1245

Transposase of ISMex10, ISL3 family/transposase of ISMex4, IS1380 family

Size (bp)

Location(s)

Composition

11908

?

Porin protein, transcriptional regulator (AraC) protein, conjugative relaxase domain protein, sodium/hydrogen exchanger, TraG homolog

8419

META1_4345/META2_0137

TonB-dependent receptor/siderophore receptor protein, hypothetical proteins

8000

META1_1083

Sodium/calcium exchanger, hypothetical proteins

5207

META2_0137

Cold shock protein A (cspA), metallophosphoesterase, plasmid stabilization system, addiction module antidote protein, cobyrinic acid ac-diamide synthase, stability/partitioning determinant, hypothetical proteins

2423

p2META_0017

Oxidoreductase molybdopterin binding protein, sulfite:cytochrome c oxidase subunit B, hypothetical proteins

35957

Total bp