Phylogeny of nodulation genes and symbiotic properties of Genista tinctoria bradyrhizobia

Archives of Microbiology

Volumn 186, Issue 2, 2006, Pages 87-97

  Kalita, Michał ^a   Stępkowski, Tomasz ^b   Łotocka, Barbara ^c   Małek, Wanda ^a  

^a MARIA CURIE SK ODOWSKA UNIVERSITY   (Poland)

^b INSTITUTE OF BIOORGANIC CHEMISTRY   (Poland)

^c WARSAW UNIVERSITY OF LIFE SCIENCES   (Poland)

Author keywords

Genista tinctoria bradyrhizobia; Nodule structure; Phylogeny of symbiotic genes; Symbiotic properties

Indexed keywords

APICAL MERISTEM; ARTICLE; BACTERIAL STRAIN; BRADYRHIZOBIUM; CONTROLLED STUDY; GENE CLUSTER; GENE LOCUS; GENISTA; INOCULATION; LUPIN; MOLECULAR EVOLUTION; MOLECULAR PHYLOGENY; NODULATION; NONHUMAN; NUCLEOTIDE SEQUENCE; PRIORITY JOURNAL; RHIZOBIACEAE; SEQUENCE HOMOLOGY; SYMBIOSIS; WEED;

BRADYRHIZOBIACEAE; BRADYRHIZOBIUM SP.; CHAMAECYTISUS; CYTISUS SCOPARIUS; GENISTA TINCTORIA; GENISTEAE; LUPINUS; LUPINUS LUTEUS; RHIZOBIUM;

EID: 33746429449     PISSN: 03028933     EISSN: None     Source Type: Journal    
DOI: 10.1007/s00203-006-0124-6     Document Type: Article

References (41)

1. Atkinson EM, Palcic MM, Hindsgaul O, Long SR (1994) Biosynthesis of Rhizobium lipooligosaccharide Nod factors: NodA is required for an N-acyltransferase activity. Proc Natl Acad Sci USA 91:8418-8422
2. Broughton WJ, Jabbouri S, Perret X (2000) Keys to symbiotic harmony. J Bacteriol 182:6541-6552
3. Crespi M, Gálvez S (2000) Molecular mechanisms in root nodule development. J Plant Growth Regul 19:155-166
4. Dénarié J, Debellé F, Promé J-C (1996) Rhizobium lipo-chitooligosaccharide nodulation factors: signaling molecules mediating recognition and morphogenesis. Annu Rev Biochem 65:503-535
5. Franssen HJ, Vijn I, Yang WC, Bisseling T (1992) Developmental aspects of the Rhizobium-legame symbiosis. Plant Mol Biol 19:89-107
6. Golinowski W, Kopcińska J, Borucki W (1987) The morphogenesis of lupine root nodules during infection by Rhizobium lupini. Acta Soc Bot Pol 56:687-703
7. Göttfert M, Röthlisberger S, Kundig Ch, Beck Ch, Marty R, Hennecke H (2001) Potential symbiosis-specific genes uncovered by sequencing a 410-kilobase DNA region of the Bradyrhizobium japonicum chromosome. J Bacteriol 183:1405-1412
8. Hirsch AM, Lum MR, Downie JA (2001) What makes the rhizobia-legume symbiosis so special? Plant Physiol 127:1484-1492
9. Hoagland DR, Arnon DI (1950) The water culture for growing plants without soil. California Agricultural Experimental Station, Davis
10. Jarabo-Lorenzo A, Pérez-Galdona R, Donate-Correa J, Rivas R, Veĺazquez E, Hernández M, Temprano F, Martínez-Molina E, Ruiz-Argueso T (2003) Genetic diversity of bradyrhizobial populations from diverse geographic origins that nodulate Lupinus spp. and Ornithopus spp. Syst Appl Microbiol 26:611-623
11. Jordan DC, Grinyer J (1965) Electron microscopy of the bacteroids and root nodules of Lupinus luteus. Can J Microbiol 11:721-725
12. Kalita M, Małek W (2004) Phenotypic and genomic characteristics of rhizobia isolated from Genista tinctoria root nodules. Syst Appl Microbiol 27:705-715
13. Kaneko T, Nakamura Y, Sato S, Minamisawa K, Uchiumi T, Sasamoto S, Watanabe A, Idesawa K, Iriguchi M, Kawashima K, Kohara M, Matsumoto M, Shimpo S, Tsuruoka H, Wada T, Yamada M, Tabata S (2002) Complete genomic sequence of nitrogen-fixing symbiotic bacterium Bradyrhizobium japonicum USDA110. DNA Res 9:189-197
14. Laguerre G, Nour SM, Macheret V, Sanjuan J, Drouin P, Amarger N (2001) Classification of rhizobia based on nodC and nifH analysis reveals a close phylogenetic relationship among Phaseolus vulgaris symbionts. Microbiology 147:981-993
15. Lopez-Lara IM, Blok-Tip L, Quinto C, Garcia ML, Stacey G, Bloemberg G, Lamers GE, Lugtenberg J, Thomas-Oates JE, Spaink HP (1996) NodZ of Bradyrhizobium extends the nodulation host range of Rhizobium by adding a fucosyl residue to nodulation signals. Mol Microbiol 21:397-408
16. Łotocka B, Kopcińska J, Golinowski W (1997) Morphogenesis of root nodules in white clover. I. Effective root nodules induced by the wild type of Rhizobium leguminosarum biovar. trifolii. Acta Soc Bot Pol 66:273-292
17. Łotocka B, Kopcińska J, Górecka M, Golinowski W (2000) Formation and abortion of root nodule primordia in Lupinus luteus L. Acta Biol Crac Ser Bot 42:87-102
18. Moulin L, Béna G, Boivin-Masson C, Stȩpkowski T (2004) Phylogenetic analyses of symbiotic nodulation genes support vertical gene co-transfer within the Bradyrhizobium genus. Mol Phylogenet Evol 30:720-732
19. Newcomb W (1981) Nodule morphogenesis and differentiation. Int Rev Cytol Suppl 13:246-298
20. Page RDM (1996) TREEVIEW: an application to display phylogenetic trees on personal computers. Comput Appl Biosci 12:357-358
21. Perret X, Staehelin C, Broughton WJ (2000) Molecular basis of symbiotic promiscuity. Mol Biol Rev 64:180-201
22. Pitcher DG, Saunders N, Owen RJ (1989) Rapid extraction of bacterial genomic DNA with guanidium thiocyanate. Lett Appl Microbiol 8:151-156
23. Pueppke SG, Broughton WJ (1999) Rhizobium sp. strain NGR234 and R. fredii USDA257 share exceptionally broad, nested host ranges. Mol Plant Microbe Interact 12:293-318
24. van Rhijn P, Vanderleyden J (1995) The Rhizobium-plant symbiosis. Microbiol Rev 59:124-142
25. Sajnaga E, Małek W, Łotocka B, Stȩpkowski T, Legocki A (2001) The root-nodule symbiosis between Sarothamnus scoparius L. and its microsymbionts. Antonie van Leeuwenhoek 79:385-391
26. Schlaman HRM, Phillips DA, Kondorosi A (1998) Genetic organization and transcriptional regulation of rhizobial nodulation genes. In: Spaink HP, Kondorosi A, Hookaas PJJ (eds) The Rhizobiaceae. Kluwer Academic, Dordrecht, pp 347-350
27. Semino CE, Robbins PW (1995) Synthesis of "Nod"-like chitin oligosaccharides by the Xenopus developmental protein DG42. Proc Natl Acad Sci USA 92:3498-3501
28. Spaink HP, Wijfjes AHM, van der Drift KMG, Haverkamp J, Thomas-Oates JE, Lugtenberg BJJ (1994) Structural identification of metabolites produced by the NodB and NodC proteins of Rhizobium leguminosarum. Mol Microbiol 13:821-831
29. Stȩpkowski T, Czaplińska M, Miedzińska K, Moulin L (2003a) The variable part of the dnaK gene as an alternative marker for phylogenetic studies of rhizobia and related alpha Proteobacteria. Syst Appl Microbiol 26:483-494
30. Stȩpkowski T, Świderska A, Miedzińska K, Czaplińska M, Świderski M, Biesiadka J, Legocki A (2003b) Low sequence similarity and gene content of symbiotic clusters of Bradyrhizobium sp. WM9 (Lupinus) indicate early divergence of "lupin" lineage in the genus Bradyrhizobium. Antonie van Leeuwenhoek 84:115-124
31. Stȩpkowski T, Moulin L, Krzyżańska A, McInnes A, Law IJ, Howieson J (2005) European origin of Bradyrhizobium populations infecting lupins and serradella in soils of Western Australia and South Africa. Appl Environ Microbiol 71:7041-7052
32. Suominen L, Roos Ch, Lortet G, Paulin L, Lindstrom K (2001) Identification and structure of the Rhizobium galegae common nodulation genes: evidence for horizontal gene transfer. Mol Biol Evol 18:907-916
33. Thompson JD, Higgins DG, Gibson TJ (1994) CLUSTAL W: improving the sensitivity of progressive multiple sequence alignment through sequence weighting, position-specific gap penalties and weight matrix choice. Nucleic Acid Res 22:4673-4680
34. Turner GL, Gibson AH (1980) Measurement of nitrogen fixation by indirect means. In: Bergerson FJ (ed) Methods for evaluating biological nitrogen fixation. Wiley, New York, pp 111-138
35. Ueda T, Suga Y, Yahiro N, Matsuguchi T (1995) Phylogeny of Sym plasmids of rhizobia by PCR-based sequencing of a nodC fragment. J Bacteriol 177:468-542
36. Vasse JM, de Billy F, Camut S, Truchet G (1990) Correlation between ultrastructural differentiation of bacteroids and nitrogen fixation in alfalfa nodules. J Bacteriol 172:4295-4306
37. Vinuesa P, León-Barrios M, Silva C, Willems A, Jarabo-Lorenzo A, Pérez-Galdona R, Werner D, Martínez-Romero E (2005a) Bradyrhizobium canariense sp. nov., an acid-tolerant endosymbiont that nodulates endemic genistoid legumes (Papilionoideae: Genisteae) from the Canary Islands, along with Bradyrhizobium japonicum bv. Genistearum, Bradyrhizobium genospecies α and Bradyrhizobium genospecies β. Int J Syst Evol Microbiol 55:569-575
38. Vinuesa P, Silva C, Werner D, Martínez-Romero E (2005b) Population genetics and phylogenetic inference in bacterial molecular systematics: the role of migration and recombination in Bradyrhizobium species cohesion and delineation. Mol Phylogenet Evol 34:29-54
39. Wdowiak S, Małek W (2000) Numerical analysis of Astragalus cicer microsymbionts. Curr Microbiol. 41:142-148
40. Young JPW, Haukka KE (1996) Diversity and phylogeny of rhizobia. New Phytol 133:87-94
41. Young JM, Kuykendall LD, Martinez-Romero E, Kerr A, Sawada H (2001) A revision of Rhizobium Frank 1889, with an amended description of the genus, and the inclusion of all species of Agrobacterium Conn 1942 and Allorhizobium undicola de Lajudie et al. 1998 as new combinations: Rhizobium radiobacter, R. rhizogenes, R. rubi, R. undicola and R. vitis. Int J Syst Evol Microbiol 51:89-103