66 10.56 8.76 82.42 86.21 86.24 86.19 Rl 3841 1.52 1.01 2.39 1.45 86.56 86.97 86.83 CIAT652 6.91 5.95 6.21 3.69 2.09 98.57 98.65 CFN42 6.87 6.45 7.87 4.23 3.35 88.41 98.83 Ch24-10 6.03 6.18 5.79 3.33 2.34 90.62 82.97 ANI values in bold numbers. Species and replicons compared: CCGE502, R. grahamii CCGE502 (pRgrCCGE502a); CCGE501, R. mesoamericanum CCGE501 (pRmeCCGE501c); RAD001 STM3625, R. mesoamericanum STM3625 (pRmeSTM3625
2); CIAT 899, R. tropici CIAT 899 (pRtrCIAT899b); Rl 3841, Rhizobium leguminosarum sv. viciae 3841 (pRL10); CIAT652, R. phaseoli CIAT652 (pRphCIAT652b); CFN42, R. etli CFN42 (pRetCFN42d); Ch24-10, R. phaseoli Ch24-10 (pRphCh2410c). Phylogenetic analysis of RepB proteins of R. grahamii CCGE502 Rhizobial plasmids have repABC operons involved in their replication and maintenance. RepA and RepB are proteins that participate in active plasmid segregation and RepC is the replication initiator protein . Additional repC gene copies have been found separated from repAB and may have different
SCH727965 mouse evolutionary origins . pRgrCCGE502a has one independent repC gene copy located at the nodulation cluster. Four repB gene copies were found, one encoded in the genomic island of CCGE502 chromosome, two in pRgrCCGE502b and one in pRgrCCGE502a (Figure 3). Megaplasmid RepB proteins from R. grahamii and R. mesoamericanum were closely related (Figure 3, filled and empty circles) as well as those of the symbiotic plasmids respectively (Figure 3, stars). RepB of R. etli pRetCFN42a (YP_471770.1) was related to the corresponding sequences from the symbiotic plasmids in the “grahamii” group (Figure 3, stars). In the symbiotic plasmids, repABC operons were located next to Mating Pair Formation (Mpf) and DNA transfer and replication (Dtr) system genes. Figure 3 Maximum likelihood phylogeny of RepB proteins. LG + I + G + F was used as model of amino acid substitution. Labels indicate the replicon and the GenBank accession numbers. Squares indicate proteins with genes
found in symbiotic plasmids, circles indicate RepB of R. grahamii and R. mesoamericanum megaplasmids: filled circles specify proteins encoded by genes organized in a repABC operon and empty circles specify RepB proteins encoded in a repAB operon. Stars indicate proteins of R. grahamii and R. mesoamericanum Tenofovir nmr encoded in symbiotic plasmids, together with RepB of pRetCFN42a. The arrow indicates the chromosomal RepB. Numbers close to tree nodes indicate branch support evaluated by the Shimodaira–Hasegawa-like approximate likelihood-ratio test (only values higher than 50% are shown). Scale bar, 0.2 amino acid substitutions per site. The presence of a repB gene localized in the chromosome may be considered as further evidence that this region originated from a plasmid (Figure 3, arrow). It grouped with the corresponding genes from pRL7 of R. leguminosarum sv. viciae and from pRmeSTM3625 3 of R. mesoamericanum STM3625.