TABLE 1.

Genotypes and spa types of 42 well-characterized methicillin-resistant S. aureus isolates used in this study

StrainGenBank accession no.aDefined spa lengthbspa typecspa profilecClonal typed,eSources of Australian isolatesh
B827549EF094508134t178407-34-33-13ST∼1-SCCmec-newQHPS
HU25gEF094528182t13808-16-02-25-17-24ST239-SCCmec-IIIA
HDG2gEF094527182t42115-12-16-02-25-17ST239-SCCmec-IIIB
K704540fEF094525206t03715-12-16-02-25-17-24ST∼239-SCCmec-IIIQHPS
K711532f= EF094525206t03715-12-16-02-25-17-24ST∼239-SCCmec-IIIQHPS
AH13f= EF094525206t03715-12-16-02-25-17-24ST239-SCCmec-IIIAAGAR
RDH81f= EF094525206t03715-12-16-02-25-17-24ST239-SCCmec-IIIAAGAR
AH1f= EF094525206t03715-12-16-02-25-17-24ST128-SCCmec-IIIAAGAR
RPAH 18f= EF094525206t03715-12-16-02-25-17-24ST239-SCCmec-IIIAGAR
RPAH15f= EF094525206t03715-12-16-02-25-17-24ST239-SCCmec-IIIAGAR
ANS46g= EF094525206t03715-12-16-02-25-17-24ST239-SCCmec-III
PC8fEF094507206t12707-23-21-16-34-33-13ST1-SCCmec-IVAGAR
FH43f= EF094507206t12707-23-21-16-34-33-13ST∼1-SCCmec-IVAGAR
SJOG 30f= EF094507206t12707-23-21-16-34-33-13ST1-SCCmec-IVAGAR
RPH 85f= EF094507206t12707-23-21-16-34-33-13ST∼1-SCCmec-IVAGAR
SN39f= EF094507206t12707-23-21-16-34-33-13ST∼1-SCCmec-newAGAR
RHH58f= EF094507206t12707-23-21-16-34-33-13ST∼1-SCCmec-IVAGAR
RHH10f= EF094507206t12707-23-21-16-34-33-13ST∼1-SCCmec-IVAGAR
FH53f= EF094507206t12707-23-21-16-34-33-13ST∼1-SCCmec-IAGAR
RPH2fEF094510206t19011-17-34-24-34-22-25ST8-SCCmec-newAGAR
PAH 58fEF094514230t01908-16-02-16-02-25-17-24ST30-SCCmec-IVAGAR
PAH 1f= EF094514230t01908-16-02-16-02-25-17-24ST30-SCCmec-IVAGAR
MW2gEF094526230t12807-23-23-21-16-34-33-13ST1-SCCmec-IV
RBH98fEF094522230t20211-17-23-17-17-16-16-25ST93-SCCmec-IVAGAR
13792-4492f= EF094522230t20211-17-23-17-17-16-16-25ST∼93-SCCmec-IVQHPS
IP01M1081fEF094523230t21604-20-17-20-17-31-16-34ST59-SCCmec-IVQHPS
14176-5710fEF094524230t1959c15-21-12-16-02-25-17-16ST∼239-SCCmec-IIIQHPS
B8-10fEF094509230t71104-21-17-34-24-34-22-25ST∼8-SCCmec-IVQHPS
J710566fEF094516254t06509-02-16-34-13-17-34-16-34ST45-SCCmec-VQHPS
RPH 74fEF094517254t12309-02-16-34-13-16-34-16-34ST45-SCCmec-VAGAR
IP01M2046fEF094519254t1958c08-21-17-13-13-new-34-33-34ST78-SCCmec-IVQHPS
E804531fEF094518278t00226-23-17-34-17-20-17-12-17-16ST5-SCCmec-IVQHPS
CH97f= EF094518278t00226-23-17-34-17-20-17-12-17-16ST73-SCCmec-IVAGAR
BK2464g= EF094518278t00226-23-17-34-17-20-17-12-17-16ST5-SCCmec-II
IMVS 67fEF094511278t00811-19-12-21-17-34-24-34-22-25ST8-SCCmec-VAGAR
COLg= EF094511278t00811-19-12-21-17-34-24-34-22-25ST250-SCCmec-I
DEN2988g= EF094511278t00811-19-12-21-17-34-24-34-22-25ST8-SCCmec-IVA
F829549fEF094521278t18607-12-21-17-13-13-34-34-33-34ST88-SCCmec-IVQHPS
C801535fEF094520278t32507-12-21-17-34-13-34-34-33-34ST88-SCCmec-newQHPS
E822485fEF094515302t01815-12-16-02-16-02-25-17-24-24-24ST36-SCCmec-IIQHPS
CH69fEF094513326t1963c26-23-13-17-31-29-17-25-17-25-16-28ST∼22-SCCmec-IVAGAR
CH16fEF094512422t03226-23-23-13-23-31-29-17-31-29-17-25-17-25-16-28ST22-SCCmec-IVAGAR
  • a The relevant spa sequences have been submitted to GenBank; other strains with identical spa sequences are indicated by “=” and the accession no. for the corresponding submitted GenBank sequence.

  • b Defined spa lengths are the distances from the start and end points, equal to 1156 and 1481 in GenBank sequence J01786, which correlates with the start and end point of the suggested 5′ and 3′ signature sequences (www.spaServer.Ridom.de). The full repetitive region sequence length can be calculated by adding together the lengths of sequences of individual repeats.

  • c After comparison with spa database (www.spaServer.Ridom.de) and GenBank sequences, three new spa types sequences were identified and submitted to the spa database (www.spaServer.Ridom.de). Please refer to the spa database for spa type and profile nomenclature.

  • d ST, MLST; SCCmec, staphylococcal cassette chromosome mec. Information provided by strain donors; ST∼, single nucleotide polymorphism type as described by Huygens et al. (18) using the computer program Minimum SNPs to compare with existing MLST data (17).

  • e Clonal type refers to the combination of ST and SCCmec type.

  • f Thirty-five Australian strains were provided by Philip Giffard, Cooperative Research Centre for Diagnostics, Queensland University of Technology, Brisbane, Australia, and Graeme Nimmo, Queensland Health Pathology Services, Princess Alexandra Hospital, Brisbane, and have been used in several previous studies (17, 18, 40).

  • g Seven isolates were provided by Herminia de Lencastre, Instituto de Tecnologia Química e Biológica, Universidade Nova de Lisboa, Oeiras, Portugal, and have been used in several previous studies (33, 34); spa types identified in this study were identical with those previously reported for these strains (de Lencastre, personal communication).

  • h QHPS, Queensland Health Pathology Service (isolates from various diagnostic laboratories in Queensland); AGAR, Australian Group on Antibiotic Resistance (isolates from a study of community MRSA in Australia) (6).