@ARTICLE{TreeBASE2Ref22610,
author = {Marķa Julia Althabegoiti and Ernesto Ormeno-Orrillo and Luis Lozano and Gonzalo Torres Tejerizo and Marco A Rogel and Esperanza Martinez-Romero},
title = {Characterization of Rhizobium grahamii extrachromosomal replicons and their transfer among rhizobia},
year = {2013},
keywords = {Genome sequence, quorum sensing, symbiotic plasmid, conjugative transfer},
doi = {},
url = {http://},
pmid = {},
journal = {BMC Microbiology},
volume = {},
number = {},
pages = {},
abstract = {Background. Rhizobium grahamii belongs to a new phylogenetic group of rhizobia together with Rhizobium mesoamericanum and other species. R. grahamii has a broad-host-range that includes Leucaena leucocephala and Phaseolus vulgaris, although it is a poor competitor for P. vulgaris nodulation in the presence of Rhizobium etli or Rhizobium phaseoli strains. This work analyzed the genome sequence and transfer properties of R. grahamii plasmids.
Results. Genome sequence was obtained from R. grahamii CCGE502 type strain isolated from Dalea leporina in Mexico. The CCGE502 genome comprises one chromosome and two extrachromosomal replicons (ERs), pRgrCCGE502a and pRgrCCGE502b. Additionally, a plasmid integrated in the CCGE502 chromosome was found. The genomic comparison of ERs from this group showed that gene content is more variable than average nucleotide identity (ANI). Well conserved nod and nif genes were found in R. grahamii and R. mesoamericanum with some differences. R. phaseoli Ch24-10 genes expressed in bacterial cells in roots were found to be conserved in pRgrCCGE502b. Regarding conjugative transfer we were unable to transfer the R. grahamii CCGE502 symbiotic plasmid and its megaplasmid to other rhizobial hosts but we could transfer the symbiotic plasmid to Agrobacterium tumefaciens with transfer dependent on homoserine lactones.
Conclusion. Variable degrees of nucleotide identity and gene content conservation were found among the different R. grahamii CCGE502 replicons in comparison to R. mesoamericanum genomes. The extrachromosomal replicons from R. grahamii were more similar to those found in phylogenetically related Rhizobium species. However, limited similarities of R. grahamii CCGE502 symbiotic plasmid and megaplasmid were observed in other more distant Rhizobium species. Interestingly, the set of conserved genes in R. grahamii comprises some of those that are highly expressed in R. phaseoli on plant roots, suggesting that they play an important role in root colonization.
}
}
Taxa for Study 14994
Citation title:
"Characterization of Rhizobium grahamii extrachromosomal replicons and their transfer among rhizobia".
Study name:
"Characterization of Rhizobium grahamii extrachromosomal replicons and their transfer among rhizobia".
This study is part of submission 14994
(Status: Published).
Taxa
ID |
Taxon Label |
NCBI taxid |
uBIO namebankID |
1314196 |
Rhizobium etli CFN 42 pRetCFN42a YP_471770 |
29449
|
3865954
|
1314183 |
Rhizobium etli CFN 42 pRetCFN42b YP_471933 |
29449
|
3865954
|
1314186 |
Rhizobium etli CFN 42 pRetCFN42c YP_472165 |
29449
|
3865954
|
1314207 |
Rhizobium etli CFN 42 pRetCFN42d NP_660041 |
29449
|
3865954
|
1314201 |
Rhizobium etli CFN 42 pRetCFN42e YP_472620 |
|
|
1314206 |
Rhizobium etli CFN 42 pRetCFN42f YP_472831 |
29449
|
3865954
|
1314198 |
Rhizobium etli CFN 42 pRetCFN42f YP_473187 |
29449
|
3865954
|
1314195 |
Rhizobium grahamii CCGE 502 pRgrCCGE502_Ch EPE96923 |
|
|
1314194 |
Rhizobium grahamii CCGE 502 pRgrCCGE502a EPE93859 |
|
|
1314197 |
Rhizobium grahamii CCGE 502 pRgrCCGE502b EPE94573 |
|
|
1314205 |
Rhizobium grahamii CCGE 502 pRgrCCGE502b EPE94986 |
|
|
1314191 |
Rhizobium leguminosarum bv. viciae 3841 pRL10 YP_770305 |
384
|
3865962
|
1314182 |
Rhizobium leguminosarum bv. viciae 3841 pRL11 YP_771035 |
384
|
3865962
|
1314188 |
Rhizobium leguminosarum bv. viciae 3841 pRL12 YP_764519 |
384
|
3865962
|
1314185 |
Rhizobium leguminosarum bv. viciae 3841 pRL7 YP_770826 |
384
|
3865962
|
1314178 |
Rhizobium leguminosarum bv. viciae 3841 pRL8 YP_770903 |
384
|
3865962
|
1314203 |
Rhizobium leguminosarum bv. viciae 3841 pRL9 YP_765300 |
384
|
3865962
|
1314204 |
Rhizobium mesoamericanum pRmeCCGE501 KF866304 |
|
|
1314180 |
Rhizobium mesoamericanum pRmeCCGE501 KF866305 |
|
|
1314193 |
Rhizobium mesoamericanum pRmeCCGE501c KF866303 |
|
|
1314187 |
Rhizobium mesoamericanum pRmeCCGE501d KF866301 |
|
|
1314181 |
Rhizobium mesoamericanum pRmeCCGE501d KF866302 |
|
|
1314192 |
Rhizobium mesoamericanum pRmeSTM3625_1 WP_007537658 |
|
|
1314190 |
Rhizobium mesoamericanum pRmeSTM3625_1 WP_007537813 |
|
|
1314184 |
Rhizobium mesoamericanum pRmeSTM3625_2 WP_007539588 |
|
|
1314202 |
Rhizobium mesoamericanum pRmeSTM3625_3 WP_007538604 |
|
|
1314189 |
Rhizobium tropici CIAT 899 pRtrCIAT899a YP_007335860 |
398
|
2558221
|
1314179 |
Rhizobium tropici CIAT 899 pRtrCIAT899b YP_007336360 |
398
|
2558221
|
1314208 |
Rhizobium tropici CIAT 899 pRtrCIAT899c YP_007338265 |
398
|
2558221
|
1314199 |
Sinorhizobium fredii GR64 pSfrGR64a YP_004716838 |
380
|
2558567
|
1314177 |
Sinorhizobium fredii HH103 pSfrHH103c YP_005191303 |
380
|
2558567
|
1314200 |
Sinorhizobium meliloti 1021 pSymA NP_436539 |
382
|
2558570
|