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Volumn 17, Issue 1, 2007, Pages 7-15

Genome characteristics of facultatively symbiotic Frankia sp. strains reflect host range and host plant biogeography

(40)  Normand, Philippe a   Lapierre, Pascal b   Tisa, Louis S c   Gogarten, Johann Peter b   Alloisio, Nicole a   Bagnarol, Emilie a   Bassi, Carla A b   Berry, Alison M d   Bickhart, Derek M b   Choisne, Nathalie e,f   Couloux, Arnaud f   Cournoyer, Benoit a   Cruveiller, Stephane f   Daubin, Vincent a   Demange, Nadia f   Francino, Maria Pilar g   Goltsman, Eugene g   Huang, Ying b   Kopp, Olga R h   Labarre, Laurent f   more..


Author keywords

[No Author keywords available]

Indexed keywords

RNA 16S;

EID: 33845974881     PISSN: 10889051     EISSN: 15495469     Source Type: Journal    
DOI: 10.1101/gr.5798407     Document Type: Article
Times cited : (301)

References (50)
  • 1
    • 0032442799 scopus 로고    scopus 로고
    • An ordinal classification for the families of flowering plants
    • The Angiosperm Phylogeny Group APG
    • The Angiosperm Phylogeny Group (APG). 1998. An ordinal classification for the families of flowering plants. Ann. Mo. Bot. Gard. 85: 531-553.
    • (1998) Ann. Mo. Bot. Gard , vol.85 , pp. 531-553
  • 2
    • 0025778670 scopus 로고
    • Construction and properties of a family of pACYC184-derived cloning vectors compatible with pBR322 and its derivatives
    • Bartolome, B., Jubete, Y., Martinez, E., and de la Cruz, F. 1991. Construction and properties of a family of pACYC184-derived cloning vectors compatible with pBR322 and its derivatives. Gene 102: 75-78.
    • (1991) Gene , vol.102 , pp. 75-78
    • Bartolome, B.1    Jubete, Y.2    Martinez, E.3    de la Cruz, F.4
  • 3
    • 9444254183 scopus 로고    scopus 로고
    • The evolution of chronic infection strategies in the α-proteobacteria
    • Batut, J., Andersson, S.G., and O'Callaghan, D. 2004. The evolution of chronic infection strategies in the α-proteobacteria. Nat. Rev. Microbiol. 2: 933-945.
    • (2004) Nat. Rev. Microbiol , vol.2 , pp. 933-945
    • Batut, J.1    Andersson, S.G.2    O'Callaghan, D.3
  • 4
    • 17044434888 scopus 로고    scopus 로고
    • Actinorhizal symbioses: Diversity and biogeography
    • ed. M. Gillings, BIOS Scientific Publishers Ltd, Oxford
    • Benson, D.R., Vanden Heuvel, B.D., and Potter, D. 2004. Actinorhizal symbioses: Diversity and biogeography. In Plant microbiology (ed. M. Gillings). BIOS Scientific Publishers Ltd., Oxford.
    • (2004) Plant microbiology
    • Benson, D.R.1    Vanden Heuvel, B.D.2    Potter, D.3
  • 6
    • 0001192844 scopus 로고
    • Cytochemistry of the wall of infected Casuarina actinorhizae
    • Berg, R.H. and McDowell, L. 1988. Cytochemistry of the wall of infected Casuarina actinorhizae. Can. J. Bot. 66: 2038-2047.
    • (1988) Can. J. Bot , vol.66 , pp. 2038-2047
    • Berg, R.H.1    McDowell, L.2
  • 8
    • 0021634306 scopus 로고
    • Miocene casuarinacean fossils from Southland and Central Otago, New Zealand
    • Campbell, J.D. and Holden, A.M. 1984. Miocene casuarinacean fossils from Southland and Central Otago, New Zealand. N.Z. J. Bot. 22: 159-167.
    • (1984) N.Z. J. Bot , vol.22 , pp. 159-167
    • Campbell, J.D.1    Holden, A.M.2
  • 9
    • 0142056169 scopus 로고    scopus 로고
    • An applications-focused review of comparative genomics tools: Capabilities, limitations and future challenges
    • Chain, P., Kurtz, S., Ohlebusch, E., and Slezak, T. 2003. An applications-focused review of comparative genomics tools: Capabilities, limitations and future challenges. Brief. Bioinform. 4: 105-123.
    • (2003) Brief. Bioinform , vol.4 , pp. 105-123
    • Chain, P.1    Kurtz, S.2    Ohlebusch, E.3    Slezak, T.4
  • 10
    • 0026655262 scopus 로고
    • Identification of a nodD-like gene in Frankia by direct complementation of a Rhizobium nodD-mutant
    • Chen, L.-M., Cui, Y., Qin, M., Wang, Y., Bai, X., and Ma, Q. 1991. Identification of a nodD-like gene in Frankia by direct complementation of a Rhizobium nodD-mutant. Mol. Gen. Genet. 233: 311-314.
    • (1991) Mol. Gen. Genet , vol.233 , pp. 311-314
    • Chen, L.-M.1    Cui, Y.2    Qin, M.3    Wang, Y.4    Bai, X.5    Ma, Q.6
  • 11
    • 0034801924 scopus 로고    scopus 로고
    • Ralstonia taiwanensis sp. nov., isolated from root nodules of Mimosa species and sputum of a cystic fibrosis patient
    • Chen, W.M., Laevens, S., Lee, T.M., Coenye, T., De Vos, P., Mergeay, M., and Vandamme, P. 2001. Ralstonia taiwanensis sp. nov., isolated from root nodules of Mimosa species and sputum of a cystic fibrosis patient. Int. J. Syst. Evol. Microbiol. 51: 1729-1735.
    • (2001) Int. J. Syst. Evol. Microbiol , vol.51 , pp. 1729-1735
    • Chen, W.M.1    Laevens, S.2    Lee, T.M.3    Coenye, T.4    De Vos, P.5    Mergeay, M.6    Vandamme, P.7
  • 12
    • 1642506138 scopus 로고    scopus 로고
    • Assessing the phylogeny of Frankia-actinorhizal plant nitrogen-fixing root nodule symbioses with Frankia 16S rRNA and glutamine synthetase gene sequences
    • Clawson, M.L., Bourret, A., and Benson, D.R. 2004. Assessing the phylogeny of Frankia-actinorhizal plant nitrogen-fixing root nodule symbioses with Frankia 16S rRNA and glutamine synthetase gene sequences. Mol. Phylogenet. Evol. 31: 131-138.
    • (2004) Mol. Phylogenet. Evol , vol.31 , pp. 131-138
    • Clawson, M.L.1    Bourret, A.2    Benson, D.R.3
  • 13
    • 0002448244 scopus 로고
    • Early fossil history and evolution of the Betulaceae
    • eds. P.R. Crane and S. Blackmore, pp, Clarendon Press, Oxford
    • Crane, P.R. 1989. Early fossil history and evolution of the Betulaceae. In Evolution, systematics, and fossil history of the Hamamelidae (eds. P.R. Crane and S. Blackmore), pp. 87-116. Clarendon Press, Oxford.
    • (1989) Evolution, systematics, and fossil history of the Hamamelidae , pp. 87-116
    • Crane, P.R.1
  • 14
    • 28044436397 scopus 로고    scopus 로고
    • Accelerated evolution associated with genome reduction in a free-living prokaryote
    • Dufresne, A., Garczarek, L., and Partensky, F. 2005. Accelerated evolution associated with genome reduction in a free-living prokaryote. Genome Biol. 6: R14.
    • (2005) Genome Biol , vol.6
    • Dufresne, A.1    Garczarek, L.2    Partensky, F.3
  • 15
    • 0031978181 scopus 로고    scopus 로고
    • Base-calling of automated sequencer traces using phred. II. Error probabilities
    • Ewing, B. and Green, P. 1998. Base-calling of automated sequencer traces using phred. II. Error probabilities. Genome Res. 8: 186-194.
    • (1998) Genome Res , vol.8 , pp. 186-194
    • Ewing, B.1    Green, P.2
  • 16
    • 0031955518 scopus 로고    scopus 로고
    • Base-calling of automated sequencer traces using phred. I. Accuracy assessment
    • Ewing, B., Hillier, L., Wendl, M.C., and Green, P. 1998. Base-calling of automated sequencer traces using phred. I. Accuracy assessment. Genome Res. 8: 175-185.
    • (1998) Genome Res , vol.8 , pp. 175-185
    • Ewing, B.1    Hillier, L.2    Wendl, M.C.3    Green, P.4
  • 17
    • 20044369186 scopus 로고    scopus 로고
    • An adaptive radiation model for the origin of new gene functions
    • Francino, M.P. 2005. An adaptive radiation model for the origin of new gene functions. Nat. Genet. 37: 573-577.
    • (2005) Nat. Genet , vol.37 , pp. 573-577
    • Francino, M.P.1
  • 18
  • 20
    • 0031955116 scopus 로고    scopus 로고
    • Consed: A graphical tool for sequence finishing
    • Gordon, D., Abajian, C., and Green, P. 1998. Consed: A graphical tool for sequence finishing. Genome Res. 8: 195-202.
    • (1998) Genome Res , vol.8 , pp. 195-202
    • Gordon, D.1    Abajian, C.2    Green, P.3
  • 22
    • 0019296687 scopus 로고
    • A simple method for estimating evolutionary rates of base substitutions through comparative studies of nucleotide sequences
    • Kimura, M. 1980. A simple method for estimating evolutionary rates of base substitutions through comparative studies of nucleotide sequences. J. Mol. Evol. 16: 111-120.
    • (1980) J. Mol. Evol , vol.16 , pp. 111-120
    • Kimura, M.1
  • 23
    • 14044262978 scopus 로고    scopus 로고
    • Genomic insights that advance the species definition for prokaryotes
    • Konstantinidis, K.T. and Tiedje, J.M. 2005. Genomic insights that advance the species definition for prokaryotes. Proc. Natl. Acad. Sci. 102: 2567-2572.
    • (2005) Proc. Natl. Acad. Sci , vol.102 , pp. 2567-2572
    • Konstantinidis, K.T.1    Tiedje, J.M.2
  • 24
    • 0002506986 scopus 로고
    • Isolation and use of Frankia strains in actinorhizae formation
    • eds. A.H. Gibson and W.E. Newton, pp, Australian Academy of Sciences, Canberra
    • Lalonde, M., Calvert, H.E., and Pine, S. 1981. Isolation and use of Frankia strains in actinorhizae formation. In Current perspectives in nitrogen fixation (eds. A.H. Gibson and W.E. Newton), pp. 296-299. Australian Academy of Sciences, Canberra.
    • (1981) Current perspectives in nitrogen fixation , pp. 296-299
    • Lalonde, M.1    Calvert, H.E.2    Pine, S.3
  • 25
    • 1542548246 scopus 로고    scopus 로고
    • An improved method for plant BAC library construction
    • Luo, M. and Wing, R.A. 2003. An improved method for plant BAC library construction. Methods Mol. Biol. 236: 3-20.
    • (2003) Methods Mol. Biol , vol.236 , pp. 3-20
    • Luo, M.1    Wing, R.A.2
  • 26
    • 0032809163 scopus 로고    scopus 로고
    • Phylogenetic pattern, diversity, and diversification of eudicots
    • Magallon, S., Crane, P.R., and Herendeen, P.S. 1999. Phylogenetic pattern, diversity, and diversification of eudicots. Ann. Mo. Bot. Gard. 86: 297-372.
    • (1999) Ann. Mo. Bot. Gard , vol.86 , pp. 297-372
    • Magallon, S.1    Crane, P.R.2    Herendeen, P.S.3
  • 28
    • 0035479142 scopus 로고    scopus 로고
    • Deletional bias and the evolution of bacterial genomes
    • Mira, A., Ochman, H., and Moran, N.A. 2001. Deletional bias and the evolution of bacterial genomes. Trends Genet. 17: 589-596.
    • (2001) Trends Genet , vol.17 , pp. 589-596
    • Mira, A.1    Ochman, H.2    Moran, N.A.3
  • 29
    • 0242386452 scopus 로고    scopus 로고
    • Tracing the evolution of gene loss in obligate bacterial symbionts
    • Moran, N.A. 2003. Tracing the evolution of gene loss in obligate bacterial symbionts. Curr. Opin. Microbiol. 6: 512-518.
    • (2003) Curr. Opin. Microbiol , vol.6 , pp. 512-518
    • Moran, N.A.1
  • 30
    • 0035927646 scopus 로고    scopus 로고
    • Nodulation of legumes by members of the β-subclass of Proteobacteria
    • Moulin, L., Munive, A., Dreyfus, B., and Boivin-Masson, C. 2001. Nodulation of legumes by members of the β-subclass of Proteobacteria. Nature 411: 948-950.
    • (2001) Nature , vol.411 , pp. 948-950
    • Moulin, L.1    Munive, A.2    Dreyfus, B.3    Boivin-Masson, C.4
  • 31
    • 10744219797 scopus 로고    scopus 로고
    • Phylogenetic analyses of symbiotic nodulation genes support vertical and lateral gene co-transfer within the Bradyrhizobium genus
    • Moulin, L., Bena, G., Boivin-Masson, C., and Stepkowski, T. 2004. Phylogenetic analyses of symbiotic nodulation genes support vertical and lateral gene co-transfer within the Bradyrhizobium genus. Mol. Phylogenet. Evol. 30: 720-732.
    • (2004) Mol. Phylogenet. Evol , vol.30 , pp. 720-732
    • Moulin, L.1    Bena, G.2    Boivin-Masson, C.3    Stepkowski, T.4
  • 32
    • 33846004115 scopus 로고    scopus 로고
    • Evolution and diversity of Frankia
    • ed. K. Pawlowski, Springer Verlag, London in press
    • Normand, P. and Fernandez, M.P. 2007. Evolution and diversity of Frankia. In Actinorhizal symbioses (ed. K. Pawlowski). Springer Verlag, London (in press).
    • (2007) Actinorhizal symbioses
    • Normand, P.1    Fernandez, M.P.2
  • 33
    • 0000614499 scopus 로고
    • Evaluation of Frankia strains isolated from provenances of two Alnus species
    • Normand, P. and Lalonde, M. 1982. Evaluation of Frankia strains isolated from provenances of two Alnus species. Can. J. Microbiol. 28: 1133-1142.
    • (1982) Can. J. Microbiol , vol.28 , pp. 1133-1142
    • Normand, P.1    Lalonde, M.2
  • 35
    • 0035843908 scopus 로고    scopus 로고
    • Genes lost and genes found: Evolution of bacterial pathogenesis and symbiosis
    • Ochman, H. and Moran, N.A. 2001. Genes lost and genes found: Evolution of bacterial pathogenesis and symbiosis. Science 292: 1096-1099.
    • (2001) Science , vol.292 , pp. 1096-1099
    • Ochman, H.1    Moran, N.A.2
  • 37
    • 0023375195 scopus 로고
    • The neighbor-joining method: A new method for reconstructing phylogenetic trees
    • Saitou, N. and Nei, M. 1987. The neighbor-joining method: A new method for reconstructing phylogenetic trees. Mol. Biol. Evol. 4: 406-425.
    • (1987) Mol. Biol. Evol , vol.4 , pp. 406-425
    • Saitou, N.1    Nei, M.2
  • 38
    • 0028936403 scopus 로고
    • Specificity and effectivity in nodulation by Frankia on southern hemisphere actinorhiza
    • Sellstedt, A. 1995. Specificity and effectivity in nodulation by Frankia on southern hemisphere actinorhiza. FEMS Microbiol. Lett. 125: 231-236.
    • (1995) FEMS Microbiol. Lett , vol.125 , pp. 231-236
    • Sellstedt, A.1
  • 39
    • 0037559227 scopus 로고
    • Ecological and economic significance of the non-legume symbiosis
    • eds. W.E. Newton and C.J. Nyman, pp, Washington University Press, Pullman, Washington, D.C
    • Silvester, W.B. 1976. Ecological and economic significance of the non-legume symbiosis. In Proceedings of the First International Symposium on Nitrogen Fixation (eds. W.E. Newton and C.J. Nyman), pp. 489-506. Washington University Press, Pullman, Washington, D.C.
    • (1976) Proceedings of the First International Symposium on Nitrogen Fixation , pp. 489-506
    • Silvester, W.B.1
  • 40
    • 0001754110 scopus 로고
    • Dinitrogen fixation by plant associations excluding legumes
    • eds. R.W.F. Hardy and A.H. Gibson, pp, John Wiley and Sons, New York
    • Silvester, W.B. 1977. Dinitrogen fixation by plant associations excluding legumes. In A Treatise on dinitrogen fixation (eds. R.W.F. Hardy and A.H. Gibson), pp. 141-190. John Wiley and Sons, New York.
    • (1977) A Treatise on dinitrogen fixation , pp. 141-190
    • Silvester, W.B.1
  • 42
    • 0028923809 scopus 로고
    • Chloroplast gene sequence data suggest a single origin of the predisposition for symbiotic nitrogen fixation in angiosperms
    • Soltis, D.E., Soltis, P.S., Morgan, D.R., Swensen, S.M., Mullin, B.C., Dowd, J.M., and Martin, P.G. 1995. Chloroplast gene sequence data suggest a single origin of the predisposition for symbiotic nitrogen fixation in angiosperms. Proc. Natl. Acad. Sci. 92: 2647-2651.
    • (1995) Proc. Natl. Acad. Sci , vol.92 , pp. 2647-2651
    • Soltis, D.E.1    Soltis, P.S.2    Morgan, D.R.3    Swensen, S.M.4    Mullin, B.C.5    Dowd, J.M.6    Martin, P.G.7
  • 43
    • 0030301523 scopus 로고    scopus 로고
    • The evolution of actinorhizal symbioses: Evidence for multiple origins of the symbiotic association
    • Swensen, S.M. 1996. The evolution of actinorhizal symbioses: Evidence for multiple origins of the symbiotic association. Am. J. Bot. 83: 1503-1512.
    • (1996) Am. J. Bot , vol.83 , pp. 1503-1512
    • Swensen, S.M.1
  • 44
    • 0031574072 scopus 로고    scopus 로고
    • The CLUSTAL_X windows interface: Flexible strategies for multiple sequence alignment aided by quality analysis tools
    • Thompson, J.D., Gibson, T.J., Plewniak, F., Jeanmougin, F., and Higgins, D.G. 1997. The CLUSTAL_X windows interface: Flexible strategies for multiple sequence alignment aided by quality analysis tools. Nucleic Acids Res. 25: 4876-4882.
    • (1997) Nucleic Acids Res , vol.25 , pp. 4876-4882
    • Thompson, J.D.1    Gibson, T.J.2    Plewniak, F.3    Jeanmougin, F.4    Higgins, D.G.5
  • 46
    • 17044381687 scopus 로고    scopus 로고
    • Low genetic diversity among Frankia spp. strains nodulating sympatric populations of actinorhizal species of Rosaceae, Ceanothus (Rhamnaceae) and Datisca glomerata (Datiscaceae) west of the Sierra Nevada (California)
    • Vanden Heuvel, B.D., Benson, D.R., Bortiri, E., and Potter, D. 2004. Low genetic diversity among Frankia spp. strains nodulating sympatric populations of actinorhizal species of Rosaceae, Ceanothus (Rhamnaceae) and Datisca glomerata (Datiscaceae) west of the Sierra Nevada (California). Can. J. Microbiol. 50: 989-1000.
    • (2004) Can. J. Microbiol , vol.50 , pp. 989-1000
    • Vanden Heuvel, B.D.1    Benson, D.R.2    Bortiri, E.3    Potter, D.4
  • 48
    • 0003109559 scopus 로고    scopus 로고
    • Diversity and phylogeny of rhizobia
    • Young, J.P. and Haukka, K.E. 1996. Diversity and phylogeny of rhizobia. New Phytol. 133: 87-94.
    • (1996) New Phytol , vol.133 , pp. 87-94
    • Young, J.P.1    Haukka, K.E.2
  • 49
    • 0002462056 scopus 로고
    • A comparison of cultural characteristics and infectivity of Frankia isolates from root nodules of Casuarina species
    • Zhang, Z., Lopez, M.F., and Torrey, J.G. 1984. A comparison of cultural characteristics and infectivity of Frankia isolates from root nodules of Casuarina species. Plant Soil 78: 79-90.
    • (1984) Plant Soil , vol.78 , pp. 79-90
    • Zhang, Z.1    Lopez, M.F.2    Torrey, J.G.3
  • 50
    • 0030897388 scopus 로고    scopus 로고
    • The capacity of Jamaican mine spoils, agricultural and forest soils to nodulate Myrica cerifera, Leucaena leucocephala and Casuarina cunninghamiana
    • Zimpfer, J.F., Smyth, C.A., and Dawson, J.O. 1997. The capacity of Jamaican mine spoils, agricultural and forest soils to nodulate Myrica cerifera, Leucaena leucocephala and Casuarina cunninghamiana. Physiol. Plant. 99: 664-672.
    • (1997) Physiol. Plant , vol.99 , pp. 664-672
    • Zimpfer, J.F.1    Smyth, C.A.2    Dawson, J.O.3


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