The phylogenetic relationships of non-typable Haemophilus influenzae (NTHi) strains prospectively isolated from healthy children and children with acute otitis media (AOM) were analysed using multilocus sequence typing (MLST). A total of 165 NTHi isolates were collected over a 3.5 year time frame during 2006 through 2009. The strains were tested for b-lactamase production; 28.5 % were positive. Seventy different NTHi sequence types (STs) were identified of which 29 (41.4 %) were novel. NTHi strains did not show any phylogenetic grouping or clustering among asymptomatic colonizing strains or strains that caused AOM, or based on b-lactamase enzyme production. Evaluation of triplets and other siblings over time demonstrated relatively frequent genetic exchanges in NTHi isolates in vivo in a short time frame and subsequent transfer among children in a family. Comparison of the MLST STs isolated at different time points showed that in~85 % of the nasopharynx (NP) colonizations, NTHi strains cleared from the host within 3 months, that sequential colonization in the same child involved different strains in all cases except one, and that NP and middle ear isolates were identical STs in 84 % of cases. In this first study of its type to our knowledge, we could not identify predominant MLST types among strains colonizing the NP versus those causing AOM or expressing a b-lactamase enzyme conferring penicillin resistance in children.
INTRODUCTIONNon-typable Haemophilus influenzae (NTHi) is an important human-specific pathogen colonizing the nasopharynx (NP) of the upper respiratory tract (Faden et al., 1995; Murphy et al., 2009). NTHi strains are rarely associated with invasive disease in children, but they are associated with respiratory tract infections in both children and adults (Murphy, 2003;Kyd & Cripps, 1999). NP colonization with NTHi is an important risk factor for developing disease (Faden et al., 1997). Children frequently NP-colonized by NTHi are more likely to develop acute otitis media (AOM) than less frequently colonized children (Faden et al., 1997; Harabuchi et al., 1994). Simultaneous detection of multiple isolates of NTHi from the same sample has been reported among aboriginal children with otitis media (Smith-Vaughan et al., 1996), among otitis-prone children in day care centres (St Sauver et al., 2000) and in cystic fibrosis patients (Bandi et al., 2001; Murphy et al., 1999), which may result from inadequate clearance of colonizing bacteria, exposure to multiple circulating strains or in vivo genetic recombinations in a specific host. It is not known whether NTHi isolates that express b-lactamases (responsible for resistance to b-lactam antibiotics such as penicillins, cephamycins and carbapenems) are phylogenetically related. Various studies of Streptococcus pneumoniae have shown phylogenetic relationships among antibiotic-resistant strains (Beall et al., 2006;Hanage et al., 2009;Porat et al., 2004;Xu et al., 2009). In this study, we explored whether or not NTHi shows genetic relatedness in relation...