Advanced Techniques in Diagnostic Microbiology

146 F. Wu and P. Della-Latta
TABLE 9.1. Commonly typed organisms by PFGE method.
Approximate no.
Recommended Restriction of restriction Fragment
Organism lysis enzyme enzyme fragments size range (kb)
Gram-positive bacteria
Enterococcus spp. LZ, LS, PK SmaI 15–20 5–400
Clostridium difficile LZ, PK SmaI, SacII 10–15 10–900
Clostridium perfringens LZ, PK SmaI, SacII 10, 12 15–1640
Staphylococcus aureus LZ, LS, PK SmaI, CspI 10–15, 15–20 10–700, 30–500
Staphylococcus LZ, LS, PK SmaI 15–20 5–400
(coagulase negative)
Streptococcus spp. LZ, ML SmaI 15–20 5–500
(group A and B)
Streptococcus LZ, ML ApaI, SmaI 10–19 20–300, 20–250
pneumoniae
Gram-negative bacteria
Acinetobacter PK SmaI 20–25 5–300
calcoaceticus
Acinetobacter PK SmaI, ApaI 20–40, 20–30 5–300, 10–300
baumannii
Bacteriodes spp. PK NotI 8–10 200–1200
Bordetella pertussis PK XbaI 20–30 20–700
Borrelia burgdorferi LZ, PK SmaI 10–30 10–300
Burkholderia cepacia PK SpeI 20–25 40–700
Campylobacter jejuni PK SmaI 8–10 40–400
Campylobacter fetus PK SmaI, SalI 10–15 40–400, 40–300
Chlamydia trachomatis PK Sse83871 17 9–220
Coxiella burnetii PK NotI 19 10–293
Enterobacter spp. PK XbaI 15–20 10–700
Escherichia coli PK XbaI, NotI, SfiI 15–20, 12–15 10–500, 10–1000
15–20 10–700
Haemophilus PK SmaI, RsrII 10–12 10–500
influenzae
Klebsiella spp. PK XbaI 15–20 10–700
Legionella pneumophilia PK SfiI, NotI 10–15, 5–10 50–700, 50–2000
Mycobacterium spp. LZ, PK AseI 12–20 10–700
Neisseria gonorrhoeae LZ, PK SpeI 12–17 10–500
Neisseria meningitidis LZ, PK NotI, BglII 20–30 5–200
Proteus mirabilis PK SfiI, NotI 7–10, 6–10 50–700, 75–700
Pseudomonas aeruginosa PK SpeI, XbaI 20–25, 40–50 10–700, 10–300
Salmonella spp. PK NotI 40–50 5–400
Shigella spp. PK XbaI, SfiI 15–23, 15–20 10–700
Vibrio cholerae LZ, PK NotI 20–30 10–400
Stenotrophomonas PK XbaI 15–20 10–700
maltophilia
Yersinia pestis PK XbaI 15–20 10–700
Yeast
Candida albicans LC, PK BssH II 25–35 10–700
Candida glabrata LC, PK SfiI, BssH II 25–35 300–800,100–600
Candida guillermondi LC, PK SfiI, BssH II 25–40 300–800,100–600
Candida lusitaniae LC, PK NotI, BssH II 25–40 100–600
Candida parapsilosis LC, PK BssH II 25–40 10–700
LS, lysostaphin; LZ, lysozyme; LC, lyticase; ML, mutanolysin; PK, proteinase K.