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Table 1 Nucleotide and coding differences identified among the genomes of 86,079/7NS, MS-H and 5 MS-H field isolates

From: Preliminary comparative analysis of the genomes of selected field reisolates of the Mycoplasma synoviae vaccine strain MS-H reveals both stable and unstable mutations after passage in vivo

Nucleotide positiona 86079/7NS MS-Hb MS-H3 b MS-H4 b MS-H5 b 101546b 101731b Protein/region Functional category Amino acid change
14181 G A A A A A A tRNA (Guanine37-N1)
methyltransferase
tRNA metabolism Val→Ile hydrophobic to hydrophobic alkyl to alkyl
36932 A T T T T T T Non-coding region   
61685 G A A A A A A DNA topoisomerase IV
subunit A
Nucleic acid metabolism Glu→Lys
hydrophilic to hydrophilic
acidic to basic
62874 G A A A A A A Exonuclease ABC subunit UvrB Nucleic acid metabolism Gly→Glu
hydrophobic to hydrophilic
alkyl to acidic
67028 G A A A A A A tRNA-Trp tRNA metabolism  
68587 T T T C T T T Hypothetical protein Unknown Synonymous substitution
104704 G A A A A A A Non-coding region   
107765 G A A A A A A ABC transporter protein Transport Ala→Val
hydrophobic to hydrophobic
alkyl to alkyl
122053 C C C C C T C LemA family protein Unknown Synonymous substitution
193771 G A A G G A A GTPase ObgE Environmental sensing Gly→Arg
hydrophobic to hydrophilic
alkyl to basic
194033 C C C C C T T GTPase ObgE Environmental sensing Ala→Val
hydrophobic to hydrophobic
alkyl to alkyl
200404 T T T A T T T Hypothetical protein Unknown Asp→Val
hydrophilic to hydrophobic
acidic to alkyl
201094 G A A A A A A P80-related protein Unknown Pro→Ser
hydrophobic to hydrophilic
alkyl to neutral
203205 C A A A A A A Non-coding region   
242451 G A A A A A A NAD-dependent glyceraldehyde
-3-phosphate dehydrogenase
Glucose metabolism Ala→Val
hydrophobic to hydrophobic
alkyl to alkyl
296526 G A A A A G A NAD-dependent glyceraldehyde
-3-phosphate dehydrogenase
Glucose metabolism Arg→Lys
hydrophilic to hydrophilic
basic to basic
316268 T T T T T T Hypothetical protein Unknown Frame Shift
325032 A Hypothetical protein Unknown Frame Shift
325353 T T T T T T Hypothetical protein Unknown Frame Shift
352952 G A A A A A A VACB-like ribonuclease II Nucleic acid metabolism Ser→Phe
hydrophilic to hydrophobic
neutral to aromatic
389629 G A A A A A A Aspartate-ammonia ligase Amino acid metabolism Ala→Thr
hydrophobic to hydrophilic
alkyl to neutral
397783 T T T T T Peptide ABC transporter
ATP-binding protein (OppF)
Transport Frame Shift
418984 A A A T A A A TatD family
deoxyribonuclease
Nucleic acid metabolism Asp→Val
hydrophilic to hydrophobic
acidic to alkyl
433343 G A A A A A A Alanine tRNA ligase tRNA metabolism Asp→Asn
hydrophilic to hydrophilic
acidic to neural
438657 G A A A A A A Triacylglycerol lipase Lipid metabolism Synonymous substitution
449402 G G G A G G G Cardiolipin synthetase membrane lipid Ala→Thr
hydrophobic to hydrophilic
alkyl to nuetral
449694 G G G G G G A Cardiolipin synthetase membrane lipid Ser→Asn
hydrophilic to hydrophilic
neutral to neutral
457951 G G G G G G A Hypothetical protein Unknown Synonymous substitution
481287 G A A A A A A Haemolysin C
or DUF21 domain-containing protein
Structural Protein Ala→Val
hydrophobic to hydrophobic
alkyl to alkyl
485166 C C C C T C C DHH subfamily Phosphoesterase function Synonymous substitution
498421 T C C C C C C Histidyl-tRNA synthetase tRNA metabolism Thr→Ala
hydrophilic to hydrophobic
neutral to alkyl
502825 AT AT AT AT AT AT Non-coding region   
502827 AT AT AT Non-coding region   
502829 AT Non-coding region   
510721 G G G A G G G Thymidine phosphorylase Pyrimidine metabolism Synonymous substitution
522899 G A A A A A A Hypothetical protein Unknown Gly→Glu
hydrophobic to hydrophilic
alkyl to acidic
553886 C C C C C T C Hypothetical protein Unknown Ala→Thr
hydrophobic to hydrophilic
alkyl to nuetral
563391 G A A A A A A Hexosephosphate transport protein Transport Leu→Phe
hydrophobic to hydrophobic
alkyl to aromatic
567729 C A A A A A A DNA-directed RNA polymerase beta' subunit Nucleic acid metabolism Arg→Ile
hydrophilic hydrophobic
basic to alkyl
572029 T T T T T T C DNA-directed RNA
polymerase subunit beta
Nucleic acid metabolism Glu→Gly
hydrophilic to hydrophobic
acidic to alkyl
584838 G A A A A A A Hypothetical protein Unknown Synonymous substitution
604569 C C C C C A C Hypothetical protein Unknown Asp→Glu
hydrophilic to hydrophilic
acidic acidic
615741 G A A A A A A Potassium uptake protein KtrB Transport His→Tyr
hydrophilic to hydrophilic
basic to neutral
628272 G A A A A A A DNA polymerase III alpha subunit Nucleic acid metabolism Ser→Phe
hydrophilic to hydrophobic
neutral to aromatic
637130 G G G G G A G YbhB/YbcL family Raf kinase
inhibitor-like protein
Protease inhibitor Val→Ile
hydrophobic to hydrophobic
alkyl alkyl
651973 C C C A C C C S1 RNA-binding
domain-containing protein
RNA metabolism Ser→Ile
hydrophilic to hydrophobic
neutral to alkyl
679814 G A A A A A A Cation-transporting P-type ATPase Transport Synonymous substitution
686265 G A A A A A A Non-coding region   
716623 G A A A A A A Hypothetical protein Unknown Ser→Leu
hydrophilic to hydrophobic
neutral to alkyl
737180 G A A A A A A Hypothetical protein Unknown Synonymous substitution
780235 AT AT AT AT AT AT Non-coding region   
780237 AT Non-coding region   
794057 G A A A A A A Uridine monophosphate kinase Central metabolism His→Tyr
hydrophilic to hydrophilic
basic to neutral
  1. * vlhA locus was excluded from SNP analysis
  2. a Nucleotide position corresponding to the MS-H genomic sequence (Genbank accession no. CP021129)
  3. b “—” indicates absence of nucleotide(s)