Ehrlichia ruminantium, an obligate intracellular bacterium transmitted by ticks of the genus Amblyomma, causes heartwater disease in ruminants. The gene coding for the major antigenic protein MAP1 is part of a multigene family consisting of a cluster containing 16 paralogs. In the search for differentially regulated genes between E. ruminantium grown in endothelial and tick cell lines that could be used in vaccine development and to determine if differences in the map1 gene cluster exist between different isolates of E. ruminantium, we analyzed the map1 gene cluster of the Senegal and Gardel isolates of E. ruminantium. Both isolates contained the same number of genes, and the same organization as found in the genome sequence of the Welgevonden isolate (H. Van Heerden, N. E. Collins, K. A. Brayton, C. Rademeyer, and B. A. Allsopp, Gene 330:159-168, 2004). However, comparison of two subpopulations of the Gardel isolate maintained in different laboratories demonstrated that recombination between map1-3 and map1-2 had occurred in one subpopulation with deletion of one entire gene. Reverse transcription-PCR on E. ruminantium derived mRNA from infected cells using gene-specific primers revealed that all 16 map1 paralogs were transcribed in endothelial cells. In one vector (Amblyomma variegatum) and several nonvector tick cell lines infected with E. ruminantium, transcripts were found for between 4 and 11 paralogs. In all these cases the transcript for the map1-1 gene was detected and was predominant. Our results indicate that the map1 gene cluster is relatively conserved but can be subject to recombination, and differences in the transcription of map1 multigenes in host and vector cell environments exist.Ehrlichia ruminantium (formerly Cowdria ruminantium [12]) is the causative agent of heartwater, a rickettsial disease transmitted by ticks of the genus Amblyomma which causes major economic losses in wild and domestic ruminants. The disease is endemic in sub-Saharan Africa and also is present on some Caribbean islands (33), where it poses a risk of spreading to the American mainland. Feeding ticks transmit E. ruminantium to vertebrate hosts in their saliva and/or by gut regurgitation (8,19). Phylogenetic studies have revealed a close relationship between E. ruminantium, Ehrlichia canis, and Ehrlichia chaffeensis (30,39).In infections with these ehrlichial agents, the serological response is mainly directed against outer-membrane proteins of approximately 30 kDa. The genes coding for these proteins have been designated the major antigenic protein 1 (map1) in E. ruminantium (32,40), the outer membrane protein p28 (omp-1) in E. chaffeensis, and the p30 outer membrane protein (p30) in E. canis (27,28,30,35,36,42,43). The OMP-1 and P30 protein families are each encoded by a multigene family consisting of 22 genes arranged in a cluster between a hypothetical transcriptional regulator (upstream) and the secA gene (downstream). The 5Ј end of the cluster contains paralogs with short intergenic spaces, whereas the paralogs at t...