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Table 2 Nonsynonymous nucleotide mutations identified between the daptomycin non-susceptible Enterococcus faecium (EFM02) strain and the daptomycin-susceptible Enterococcus faecium (EFM01) strain

From: Emergence of a daptomycin-non-susceptible Enterococcus faecium strain that encodes mutations in DNA repair genes after high-dose daptomycin therapy

Genes

RecJ

MutL

FusA

–

HyuA

DapB

–

ManX

YcaB

EbpR

locus_tag

EFAU085_01331

EFAU085_00136

EFAU085_00055

EFAU085_00149

EFAU085_00226

EFAU085_00409

EFAU085_00744

EFAU085_00813

EFAU085_01095

EFAU085_01417

Predicted gene products

DNA repair protein

DNA mismatch repair protein

Translation elongation factor G

ABC transporter

Hydantoinase/oxoprolinase

Dihydrodipicolinate reductase

Membrane protein

PTS system, Mannose/fructose/sorbose-specific IIAB component

Calcium-translocating P-type ATPase, PMCA-type

M protein trans-acting positive regulator

Predicted amino acid change

Tyr434 Cys

Leu286

Arg626 Cys

Gly190 Asp

Thr570 Ala

Ala190 Val

Phe89 fs

Met1

Ala108 fs

Pro199 Leu

Nucleotide mutation

1301A > G

1876C > T

857T > A

569G > A

1708A > G

569C > T

260delT

1A > G

315delA

596C > T

Previous reports on the same predicted proteins associated with DNSE

   

[2]

   

[2, 5, 21]

  

Genes

GlpQ

–

–

–

PspC

–

AmpC

ytpA

–

locus_tag

EFAU085_01796

EFAU085_01902

EFAU085_01910

EFAU085_0195

EFAU085_02050

EFAU085_02219

EFAU085_02548

EFAU085_02618

EFAU085_02818

Predicted gene products

Glycerophosphodiester phosphodiesterase family protein

Hypothetical protein

Hypothetical protein

HD domain protein

PspC domain protein

Hypothetical protein

Beta-lactamase

Alpha/beta hydrolase family protein

Hypothetical protein

Predicted amino acid change

Ile283Phe

Trp176

Asn125 fs

Trp118

Arg

Lys5 fs

Ser23 fs

Asn265 fs

Glu59Gly

Arg220 fs

Nucleotide mutation

847A > T

527G > A

374delA

352T > C

14delA

68delC

794delA

176A > G

658delA

Previous reports on the same predicted proteins associated with DNSE

   

[ 5], [21]

[ 2], [5]

    
  1. Reference strain: Enterococcus faecium Aus0085 [8]
  2. ABC ATP-binding cassette, A adenine, Ala alanine, Arg arginine, Asn asparagine, Asp aspartic acid, C cytosine, Cys cysteine, del deletion, DNSE daptomycin non-susceptible Enterococcus, fs frameshift, G guanine, Glu glutamic acid, Gly glycine, Ile isoleucine, Leu leucine, Lys lysine, Met methionine, Phe phenylalanine, PMCA plasma membrance Ca2 + ATPase, Pro proline, PTS Phosphotransferase sytem, psPC phage shock protein C, Ser serine, Tyr tyrosine, T thymine, Thr threonine, Trp tryptophan, Val valine