The purpose of this study was to describe the population structure of group B streptococci (GBS) isolated from infected and colonized neonates during a prospective active-surveillance study of early-onset disease in six centers in the United States from July 1995 to June 1999 and to examine its relationship to bovine strains of GBS. The phylogenetic lineage of each GBS isolate was determined by multilocus sequence typing, and isolates were clustered into clonal complexes (CCs) using the eBURST software program. A total of 899 neonatal GBS isolates were studied, of which 129 were associated with invasive disease. Serotype Ia, Ib, and V isolates were highly clonal, with 92% to 96% of serotype Ia, Ib, and V isolates being confined to single clonal clusters. In contrast, serotype II and III isolates were each comprised of two major clones, with 39% of serotype II and 41% of serotype III isolates in CC 17 and 41% of serotype II and 54% of serotype III isolates in CC 19. Further analysis demonstrates that the CC 17 serotype II and III GBS are closely related to a previously described "ancestral" lineage of bovine GBS. While 120 (93%) of invasive GBS were confined to the same lineages that colonized neonates, 9 (7%) of the invasive GBS isolates were from rare lineages that comprised only 2.7% of colonizing lineages. These results are consistent with those for other geographic regions that demonstrate the highly clonal nature of GBS infecting and colonizing human neonates.Streptococcus agalactiae (group B streptococci [GBS]), a primary cause of bovine mastitis, emerged in the 1960s as a significant human pathogen that causes neonatal sepsis and meningitis (1). Despite a recent decline in incidence, GBS remains a leading cause of neonatal mortality and morbidity in the United States (2,7,29,30). GBS colonizes the genitourinary and gastrointestinal tracts of about a third of healthy adult women (24). Neonatal disease results from transmission of the organism from the pregnant mother to the neonate. Heavy colonization of the neonate and maternal chorioamnionitis are known risk factors for neonatal infection (10,20).GBS can be divided into nine serotypes based on the immunologic reactivity of the capsular polysaccharide. The structure of GBS capsular polysaccharide is determined by genes in the cps locus which encode enzymes responsible for the synthesis of the polysaccharides (8,34,35). Investigators using a variety of techniques have demonstrated that the population of GBS that colonizes and infects humans is comprised of a relatively small number of lineages (4, 12-16, 23, 26, 28, 31, 32). Each serotype is usually distributed among several different lineages, and each lineage may contain several different serotypes, indicating that serotype alone is not a sufficient marker to identify a phylogenetic lineage and suggesting that serotype switching occurs within lineages, presumably by horizontal transfer of cps genes (4,16,23).Multilocus sequence typing (MLST) has become the standard method for determining the population s...