| Literature DB >> 20350371 |
George R Golding1, Louis Bryden, Paul N Levett, Ryan R McDonald, Alice Wong, John Wylie, Morag R Graham, Shaun Tyler, Gary Van Domselaar, Andrew E Simor, Denise Gravel, Michael R Mulvey.
Abstract
Rates of colonization with livestock-associated methicillin-resistant Staphylococcus aureus (MRSA) sequence type 398 have been high for pigs and pig farmers in Canada, but prevalence rates for the general human population are unknown. In this study, 5 LA-MRSA isolates, 4 of which were obtained from skin and soft tissue infections, were identified from 3,687 tested MRSA isolates from persons in Manitoba and Saskatchewan, Canada. Further molecular characterization determined that these isolates all contained staphylococcal cassette chromosome (SCC) mecV, were negative for Panton-Valentine leukocidin, and were closely related by macrorestriction analysis with the restriction enzyme Cfr91. The complete DNA sequence of the SCCmec region from the isolate showed a novel subtype of SCCmecV harboring clustered regularly interspaced short palindromic repeats and associated genes. Although prevalence of livestock-associated MRSA seems to be low for the general population in Canada, recent emergence of infections resulting from this strain is of public health concern.Entities:
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Year: 2010 PMID: 20350371 PMCID: PMC3321955 DOI: 10.3201/eid1604.091435
Source DB: PubMed Journal: Emerg Infect Dis ISSN: 1080-6040 Impact factor: 6.883
Characteristics of methicillin-resistant Staphylococcus aureus sequence type 398 novel staphylococcal cassette chromosome mecV subtype isolates, Canada*
| Isolate | Collection date | Patient age, y/sex | Region and province | Specimen collection site | |
|---|---|---|---|---|---|
| 07 BA 06477 | 2007 Feb 27 | 26/F | Saskatoon, SK | Nasal screen | t034 |
| 08 BA 02176 | 2008 Jan 15 | 71/F | Sunrise, SK | Leg swab | t034 |
| 08 BA 08100 | 2008 Mar 4 | 51/M | Five Hills, SK | Left shin open abrasion | t1250 |
| 08 BA 13895 | 2008 Apr 25 | 79/M | Kelsey Trail, SK | Left hip swab | T034 |
| 08 BA 22334 | 2008 Jul 9 | 70/M | Prince Albert Parkland, SK | Right leg swab | T034 |
| T40929 | 2007 Dec 11 | 59/M | Durham, ON | Nasal and tracheostomy screen | T034 |
*All isolates were Panton-Valentine leukocidin negative. SK, Saskatchewan; ON, Ontario.
Antimicrobial drug susceptibility of the clinical isolates of methicillin-resistant Staphylococcus aureus sequence type 398, Canada, 2008*
| Drug | Susceptibility, μg/mL | |||||
|---|---|---|---|---|---|---|
| 07 BA 06477 | 08 BA 02176 | 08 BA 08100 | 08 BA 13895 | 08 BA 22334 | T40929 | |
| Clindamycin | ||||||
| Vancomycin | 0.5 | 0.5 | 0.5 | 0.5 | 0.5 | 0.5 |
| Erythromycin | 0.5 | 0.5 | 0.5 | 0.5 | 0.5 | 0.5 |
| SXT | ||||||
| Synercid | 0.5 | 1 | ||||
| Nitrofurantoin | ||||||
| Tetracycline | >16 | >16 | >16 | ≤2 | >16 | >16 |
| Ciprofloxacin | 0.5 | 0.25 | 0.5 | 0.25 | 0.5 | 0.5 |
| Rifampin | ||||||
| Fusidic acid | 0.25 | 0.12 | 0.25 | 0.12 | 0.12 | 0.12 |
| Linezolid | 2 | 2 | 2 | 1 | 0.5 | 0.5 |
| Gentamicin | 1 | 1 | 1 | 1 | ≤0.5 | 1 |
| Mupirocin | 0.5 | 0.25 | 0.25 | |||
*SXT, sulfamethoxazole/trimethoprim.
Figure 1Geographic distribution of 5 livestock-associated methicillin-resistant Staphylococcus aureus isolates (stars) from humans, Saskatchewan, January 2007–October 2008.
Figure 2A) Pulsed-field gel electrophoresis (PFGE) of Cfr91-digested livestock-associated methicillin-resistant Staphylococcus aureus (MRSA). Lanes 1, 6, and 9, universal standard Salmonella Braenderup H9812; Lane 2, 08 BA 02176; Lane 3, 08 BA 13895; Lane 4, 07 BA 06477; Lane 5, T40929; Lane 7, 08 BA 08100; Lane 8, 07 BA 22334. B) PFGE dendrogram comparing the Cfr91 fingerprint patterns of 6 livestock-associated MRSA isolates from humans in Canada with the SmaI fingerprints of other human epidemic strains of MRSA circulating in Canada.
Figure 3Schematic of the novel staphylococcal cassette chromosome (SCC) mecV subtype and DNA sequence of the clustered regularly interspaced short palindromic repeat (CRISPR) array identified in Staphylococcus aureus isolate 08 BA 02176. Red and green arrows represent mec and ccr complexes, respectively. Blue arrows represent 3 open reading frames (ORFs) in the J3 region sharing sequence identity with chromosomal genes of S. epidermidis RP62A. Orange boxes indicate confirmed and questionable CRISPRs. Black arrows represent CRISPR-associated genes. Location of primer sets used for coverage of this SCCmec element are numbered 1–11 (Table 4) and illustrated as solid lines. Shown below the schematic is the DNA sequence of the confirmed 1,107-bp CRISPR array in the J1 region, which provides the 36-bp direct repeat consensus (boldface) and the variable 15 spacer sequences.
Open reading frames of the novel staphylococcal cassette chromosome mecV subtype in methicillin-resistant Staphylococcus aureus isolate 08 BA 02176, from woman in Canada, 2008*
| ORF | Location, bp† | Predicted gene size, bp | Gene‡ | Product description | Amino acid identity, %§ | GenBank accession no. |
|---|---|---|---|---|---|---|
| Sk01 | 1–480 | 480 |
| Conserved hypothetical protein | 100 | gb|ACC96139.1| |
| Sk02 | 609–1595 | 987 | None | ADP-ribosylglycohydrolase | 99 | gb|AAW53059.1| |
| Sk03 | 1614–2948 | 1335 | None | Permease for cytosine/purines; uracil; thiamine; allantoin | 98 | gb|AAW53058.1| |
| Sk04 | 2999–3883 | 885 | None | Ribokinase | 98 | gb|AAW53057.1| |
| Sk05 | (4013–4687) | 675 |
| Transposase for IS431 | 100 | dbj|BAD24823.1| |
| Sk06 | 4945–5112 | 168 | None | HMG-CoA synthase truncation | 100 | ref|YP_184940.1| |
| Sk07 | 6029–6772 | 744 |
| Glycerophosphoryl diester phosphodiesterase | 100 | ref|NP_370563.1| |
| Sk08 | 6869–7297 | 429 |
| Hypothetical protein | 100 | ref|YP_184943.1| |
| Sk09 | (7343–9349) | 2007 |
| Penicillin-binding protein 2′ | 100 | dbj|BAG06200.1| |
| Sk10 | 9449–9559 | Unknown | ψ | Truncated signal transducer protein MecR1 | 100 | ref|YP_252007.1| |
| Sk11 | 9597–9740 | 144 | ψ | Partial transposase for insertion sequence–like element IS431mec | 100 | dbj|BAH57698.1| |
| Sk12 | (10331–10759) | 429 | None | Hypothetical protein | 100 | dbj|BAD24829.1| |
| Sk13 | 10840–11769 | 930 | None | Hypothetical protein | 100 | gb|ACL99839.1| |
| Sk14 | 11931–13919 | 1989 | None | Hypothetical protein | 100 | gb|ACL99840.1| |
| Sk15 | 14114–15223 | 1110 | None | Hypothetical protein | 100 | gb|ACL99841.1| |
| Sk16 | 15584–17200 | 1617 | None | Hypothetical protein | 100 | gb|ACL99843.1| |
| Sk17 | 17425–19104 | 1680 |
| Cassette chromosome recombinase C | 100 | gb|ACL99844.1| |
| Sk18 | 19193–19531 | 339 | None | Hypothetical protein | 100 | gb|ACL99845.1| |
| Sk19 | 19625–19936 | 312 | None | Hypothetical protein | 100 | gb|ACL99846.1| |
| Sk20 | 19951–20454 | 504 | None | Hypothetical protein | 100 | gb|ACL99847.1| |
| Sk21 | 20469–20690 | 222 | None | Hypothetical protein | 100 | gb|ACL99848.1| |
| Sk22 | (20853–21256) | 403 | ψ | Truncated | 92 | dbj|BAG71456.1| |
| Sk23 | 22888–23793 | 906 |
| CRISPR–associated Cas1 family protein | 91 | gb|AAW53332.1| |
| Sk24 | 23793–24098 | 306 |
| CRISPR-associated protein Cas2 | 87 | gb|AAW53331.1| |
| Sk25 | 24112–26385 | 2274 |
| CRISPR-associated protein; Csm1 family | 92 | gb|AAW53330.1| |
| Sk26 | 26388–26813 | 426 |
| CRISPR-system related protein | 94 | gb|AAW53329.1| |
| Sk27 | 26815–27459 | 645 |
| CRISPR-associated RAMP protein | 96 | gb|AAW53328.1| |
| Sk28 | 27530–28378 | 849 |
| CRISPR-associated RAMP protein | 91 | gb|AAW53327.1| |
| Sk29 | 28381–29403 | 1023 |
| CRISPR-associated Csm5 family protein | 92 | gb|AAW53326.1| |
| Sk30 | 29403–30671 | 1269 |
| CRISPR-associated protein (Cas_Csm6) | 73 | gb|AAW53325.1| |
| Sk31 | 30668–31402 | 735 |
| CRISPR-associated protein C | 86 | gb|AAW53324.1| |
*ORF, open reading frame; CRISPR, clustered regularly interspaced short palindromic repeats. †Parentheses indicate complement sequences. ‡None indicates no name given. §Comparisons of translated query versus protein databases was determined by using BLASTX 2.2.21 (www.ncbi.nlm.nih.gov/blast/Blast.cgi).
Primers used for coverage of the novel SCCmecV subtype in methicillin-resistant Staphylococcus aureus isolates, Canada, 2007–2008*
| Primer set | Primer name | Primer 5′ → 3′ | Expected amplicon size, bp | Reference position | SCC | |||||
|---|---|---|---|---|---|---|---|---|---|---|
| 08 BA 02176 | T 49209 | 07 BA 06477 | 08 BA 13895 | 08 BA 08100 | 08 BA 22334 | |||||
| 1 | OrfX Adpr1 | CATTTAAGATTATGCGTGGAG CATCTGTAAACTGTCCTTTGG | 347 | 443–789 | + | – | + | + | – | + |
| 2 | RibB2 MecaA1 | TTGTATATGGGGAAACGAAG TGCCAAAATCTCAGGTAAAG | 3623 | 3793–7415 | + | – | + | + | – | + |
| 3 | MecB1 HypA1 | CTTCACCATTATCGCTTTTAG ACCATTTTTCCCTGGATTAC | 1842 | 9172–11013 | + | + | + | + | + | + |
| 4 | Hyp3A1 Hyp1B1 | CTTCCACGTATTGGTCTAGC AAGTGAACGCGAAAGATATAG | 2671 | 11636–14306 | + | + | + | + | + | + |
| 5 | Hyp3B1 CcrCA2 | GCTAGACCAATACGTGGAAG TTTTACCTGAAATGCCTGAG | 3301 | 14287–17587 | + | + | + | + | + | + |
| 6 | CcrCB1 Hyp6A1 | ATGAAATGGATAGCGAAATG TTGAGTAAGTAGCGGTGTTG | 1330 | 18695–20024 | + | + | + | + | + | + |
| 7 | Hyp6B1 Crspr1A1 | TGAGCAAGTGATGGAAATG CTTTGAATCCTTTGAAGACG | 2835 | 20331–23165 | + | – | + | + | – | + |
| 8 | Crspr1B1 Crspr3A1 | AAAAAGTGGTGAGGTTACTTG CTCGTCTATCAATACCACTCG | 711 | 23675–24385 | + | – | + | + | – | + |
| 9 | Crspr3B1 Crspr7A1 | AACAGATGAACACGGAAAAG TTGGTGGGTATCTCAAAAAG | 2417 | 26166–28582 | + | – | + | + | – | + |
| 10 | Crspr7B1 Hyp11A1 | GCCTTCTAACGTACCAGTTG TTGCTTCAATGGACTATAAGC | 1511 | 29289–30820 | + | – | + | + | – | + |
| 11 | Hyp11B1 Hyp12A1 | TTAGGCATGGGGAAATATAG GTCGCAATGTTTTGAAGTG | 1622 | 31373– | + | – | + | + | – | + |
*SCCmec, staphylococcal cassette chromosome mecV subtype; +, positive; –, negative. Testing by PCR.