Serpulina hyodysenteriae, the etiologic agent of swine dysentery, contains complex periplasmic flagella which are composed of multiple class A and class B polypeptides. To examine the role these proteins play in flagellar synthesis, structure, and function and to develop strains which may provide insight into the importance of motility in the etiology of this pathogen, we constructed specific periplasmic flagellar mutations in S. hyodysenteriae B204. The cloned flaA1 and flaB1 genes were disrupted by replacement of internal fragments with chloramphenicol and/or kanamycin gene cassettes. Following delivery of these suicide plasmids into S. hyodysenteriae, homologous recombination and allelic exchange at the targeted chromosomal flaA1 and flaB1 genes was verified by PCR, sequence, and Southern analysis. The utility of a chloramphenicol resistance gene cassette for targeted gene disruption was demonstrated and found more amenable than kanamycin as a selective marker in S. hyodysenteriae. Immunoblots of cell lysates of the flagellar mutants with antiserum raised against purified FlaA or FlaB confirmed the absence of the corresponding sheath or core protein. Both mutations selectively abolished expression of the targeted gene without affecting synthesis of the other flagellar polypeptide. flaA1 and flaB1 mutant strains exhibited altered motility in vitro and were less efficient in movement through a liquid medium. Paradoxically, isogenic strains containing specifically disrupted flaA1 or flaB1 alleles were capable of assembling periplasmic flagella that were morphologically normal as evidenced by electron microscopy. This is the first report of specific inactivation of a motility-associated gene in spirochetes.Spirochetes are a widely diverse group of bacteria, many of which cause a variety of medically significant diseases, including syphilis, Lyme disease, leptospirosis, and swine dysentery. The spirochetes are genetically more diverse than the members of the family Enterobacteriaceae, as their GϩC content ranges from 25 to 65% (7), yet they have a common helical morphology (6,19,27). Analysis of 16S rRNA gene sequences from Serpulina hyodysenteriae revealed a common ancestry between this bacterium and other members of the Spirochaetales order and recently has led to its reclassification from the genus Treponema to the genus Serpulina (55, 56).S. hyodysenteriae, an anaerobic spirochete that preferentially colonizes the colonic mucosal surface (29), causes a highly contagious diarrheal disease of growing and finishing swine (16,17). Outbreaks of swine dysentery result in decreased feed efficiency, slower weight gain, and dehydration. Left untreated, outbreaks often result in significant herd morbidity and mortality (18).The causative agent is long, slender, and helical and, like gram-negative bacteria, possesses a cytoplasmic membrane, peptidoglycan, and an outer membrane. Limited knowledge about the genetics or molecular biology of S. hyodysenteriae has been obtained, and no systems of natural genetic exchange betw...