Fast-growing Rhizobia Research Articles

Water-Soluble Humic Materials Modulating Metabolism and Triggering Stress Defense in Sinorhizobium fredii.

ABSTRACTBacteria have evolved a series of mechanisms to maintain their survival and reproduction in changeable and stressful environments. In-depth understanding of these mechanisms can allow for better developing and utilizing of bacteria with various biological functions. In this study, we found that water-soluble humic materials (WSHM), a well-known environment-friendly plant growth biostimulant, significantly promoted the free-living growth and survival of Sinorhizobium fredii CCBAU45436 in a bell-shaped, dose-dependent manner, along with more-efficient carbon source consumption and relief of medium acidification. By using RNA-Seq analysis, a total of 1,136 genes significantly up-/downregulated by external addition of WSHM were identified under test conditions. These differentially expressed genes (DEGs) were enriched in functional categories related to carbon/nitrogen metabolism, cellular stress response, and genetic information processing. Further protein-protein interaction (PPI) network analysis and reverse genetic engineering indicated that WSHM might reprogram the transcriptome through inhibiting the expression of key hub gene rsh, which encodes a bifunctional enzyme catalyzing synthesis and hydrolysis of the “magic spot” (p)ppGpp. In addition, the root colonization and viability in soil of S. fredii CCBAU45436 were increased by WSHM. These findings provide us with new insights into how WSHM benefit bacterial adaptations and demonstrate great application value to be a unique inoculant additive.IMPORTANCE Sinorhizobium fredii CCBAU45436 is a highly effective, fast-growing rhizobium that can establish symbiosis with multiple soybean cultivars. However, it is difficult to maintain the high-density effective viable cells in the rhizobial inoculant for the stressful conditions during production, storage, transport, and application. Here, we showed that WSHM greatly increased the viable cells of S. fredii CCBAU45436 in culture, modulating metabolism and triggering stress defense. The root colonization and viability in soil of S. fredii CCBAU45436 were also increased by WSHM. Our results shed new insights into the effects of WSHM on bacteria and the importance of metabolism and stress defense during the bacteria’s whole life. In addition, the functional mechanism of WSHM may provide candidate genes for improving environmental adaptability and application potential of bacteria through genetic engineering.

Nodulation Potential and Phenotypic Diversity of Rhizobia Nodulating Cowpea Isolated from Major Growing Areas of Ethiopia

Rhizobia are specific to a particular legume and need to be characterized by different methods. In Ethiopia, very few efforts have been made to evaluate the phenotypic characteristics and diversity of cowpea nodulating rhizobia. This study aimed to assess the nodulation potential and phenotypic diversity of rhizobia nodulating cowpea isolated from major growing areas of Ethiopia. Thirty soil samples were collected from different cowpea growing areas of Ethiopia of which 28 (93.3%) samples induced nodulation in the greenhouse. A total of 28 isolates obtained from nodulated plants were evaluated using presumptive tests and subjected to different phenotypic characteristics. On YEMA containing CR, the isolates produced colony colors that were whitish to pale pink. All isolates showed no growth on peptone glucose agar and the isolates were capable to grow on ketolactose medium but did not turn the media color to yellow. All the isolates were also confirmed to be gram-negative, rod-shaped, and non-spore-forming. The colony texture study revealed that 78.57% of the isolates had large mucoid colony whereas 21.43% of the isolates exhibited large watery colony texture with diameters ranging between 1 and 5mm. Depending on the colony color on YEMA containing bromothymol blue, 22 (78.57%) isolates were slow-growing whereas 6 (21.43%) isolates were fast-growing rhizobia. The cluster analysis based on phenotypic characteristics revealed a grouping of the isolates into two clusters at a similarity level of 75% and six further sub-clusters at a similarity level of about 91% indicating that there are variations and diversity among the isolates. Overall, this study revealed great variations among the cowpea nodulating rhizobial isolates and suggests that the soils of Ethiopia harbor populations of phenotypically diverse isolates. A further test to confirm these findings using genetic characterization and inclusion of reference strain is highly recommended.

Whole-Genome Sequencing of Bradyrhizobium diazoefficiens 113-2 and Comparative Genomic Analysis Provide Molecular Insights Into Species Specificity and Host Specificity.

In the present study, we sequenced the complete genome of Bradyrhizobium diazoefficiens 113-2. The genomic characteristics of six selected rhizobial strains (two fast-growing rhizobia, two medium-slow-growing rhizobia and two slow-growing rhizobia) with four different legume hosts were analyzed by comparative genomic analysis. Genomes of B. diazoefficiens 113-2 and B. diazoefficiens USDA110 were found to share a large synteny blocks and a high ANI value, supporting 113-2 as a strain of B. diazoefficiens. 5,455 singletons and 11,656 clusters were identified among the six rhizobia genomes, and most of the pair-wise comparisons clusters were shared by the two genomes of strains in the same genus. Similar genus-specific gene numbers in the assigned COG functional terms were present in the two strains of the same genus, while the numbers were decreased with the increase of growth rate in most of the COG terms. KEGG pathway analysis of B. diazoefficiens 113-2 suggested that the rhizobial genes in ABC transporters and Two-Component system were mainly species-specific. Besides, the candidate genes related to secretion system and surface polysaccharides biosynthesis in the genomes of the six strains were explored and compared. 39 nodulation gene families, 12 nif gene families and 10 fix gene families in the genomes of these six strains were identified, and gene classes in most of gene families and the types and total gene numbers of gene families were substantially different among these six genomes. We also performed synteny analyses for above-mentioned nod, nif, and fix gene groupings, and selected NodW, NolK, NoeJ, NifB, FixK, and FixJ gene families to perform phylogeny analyses. Our results provided valuable molecular insights into species specificity and host specificity. The genetic information responsible for host specificity will play important roles in expanding the host range of rhizobia among legumes, which might provide new clues for the understanding of the genetic determinants of non-legume-rhizobium symbiosis.

Phylogenetic diversity analysis reveals Bradyrhizobium yuanmingense and Ensifer aridi as major symbionts of mung bean (Vigna radiata L.) in Pakistan.

The present study was carried out to evaluate the diversity of rhizobia associated with nodules of mung bean in Pakistan, because this information is necessary for inoculum development. Based on sequence analysis of 16S rRNA gene of thirty-one bacteria, 11 were assigned to genus Bradyrhizobium, 17 to Ensifer, and 3 to Rhizobium. Phylogenetic analyses on the basis of 16S-23S ITS region, atpD, recA, nifH, and nodA of representative strains revealed that B. yuanmingense is the predominant species distributed throughout different mung bean-growing areas. Among the fast-growing rhizobia, Ensifer aridi was predominant in Faisalabad, Layyah, and Rawalpindi, while E. meliloti in Thal desert. Sequence variations and phylogeny of nifH and nodA genes suggested that these genes might have been co-evolved with the housekeeping genes and maintained by vertical gene transfer in rhizobia detected in the present study. Host infectivity assay revealed the successful nodulation of host by rhizobia related to genera Bradyrhizobium, Ensifer and Rhizobium. Among all, Bradyrhizobium and Ensifer spp. inoculation exhibited a significantly higher number of nodules (11-34 nodules plant-1) and nitrogenase activity (nodule ARA 60-110μmolg-1h-1). Contrary to the previous studies, our data reveal that B. yuanmingense and E. aridi are predominant species forming effective nodules in mung bean in Pakistan. Furthermore, to the best of our knowledge, this is the first report showing the effective symbiosis of E. aridi, E. meliloti, and Rhizobium pusense with mung bean. The diversity of rhizobia in different habitats revealed in the present study will contribute towards designing site-specific inocula for mung bean.

Molecular Characteristics of Rhizobia Isolated from Arachis hypogaea Grown under Stress Environment

The phenotypic and genotypic characterization of eight rhizobial isolates obtained from Arachis hypogaea nodules grown under stress environment was performed. Isolates were screened for their ability to tolerate different abiotic stresses (high temperature (60° C), salinity (1–5% (w/v) NaCl), and pH (1–12). The genomic analysis of 16S rRNA and housekeeping genes (atpD, recA, and glnII) demonstrated that native groundnut rhizobia from these stress soils are representatives of fast growers and phylogenetically related to Rhizobium sp. The phenotypic characterization (generation time, carbon source utilization) also revealed the isolates as fast-growing rhizobia. All the isolates can tolerate NaCl up to 3% and were able to grow between 20 and 37 °C with a pH between 5 to 10, indicating that the isolates were alkali and salt-tolerant. The tested isolates effectively utilize mono and disaccharides as carbon source. Out of eight, three rhizobial isolates (BN-20, BN-23, and BN-50) were able to nodulate their host plant, exhibiting their potential to be used as native groundnut rhizobial inoculum. The plant growth promoting characterization of all isolates revealed their effectiveness to solubilize inorganic phosphate (56–290 µg mL−1), synthesize indole acetic acid (IAA) (24–71 µg mL−1), and amplification of nitrogen fixing nifH gene, exploring their ability to be used as groundnut biofertilizer to enhance yield and N2-fixation for the resource poor farmers of rainfed Pothwar region.

Phenotypic and Genotypic Characterization of Microsymbionts of Acacia Species Plants Grown in South-Western Saudi Arabia

Acacias are generally the most dominant tree species in Saudi Arabia and elsewhere in the Arabian Peninsula. In Saudi Arabia, the genetic diversity of rhizobia associated with these legumes has not been examined. The taxonomic diversity of bacteria from root nodules of acacia species growing in south-western regions of Saudi Arabia was investigated. Seventy-five bacterial strains were isolated from root nodules of five acacia species found in the study area. The bacteria were characterized for phenotypic properties and genomic diversity by rep-PCR. Nineteen representative strains from each rep-PCR pattern were further characterized by the sequence analysis of their 16S rRNA gene. The majority of the isolates were fast-growing rhizobia (90%), tolerated 3% NaCl (60%), and grew at temperatures up to 40 °C (68%). On the basis of 16S rRNA gene sequences, the isolates were classified to four known genera of nodule bacteria: Ensifer (28%), Mesorhizobium (28%), Rhizobium (25%), and Bradyrhizobium (10%). The genus Bradyrhizobium bacteria were identified only among Acacia negrii and A. asak isolates. This study is the first report on phenotypic and genomic characterization of acacia nodule symbionts deriving from Saudi Arabia. Acacia species formed symbiosis with diverse rhizobia inhabiting Saudi Arabia soil. Furthermore, non-nodulating endophytic bacteria were also described.

Classical Soybean (Glycine max (L.) Merr) Symbionts, Sinorhizobium fredii USDA191 and Bradyrhizobium diazoefficiens USDA110, Reveal Contrasting Symbiotic Phenotype on Pigeon Pea (Cajanus cajan (L.) Millsp).

Pigeon pea (Cajanus cajan (L.) Millspaugh) is cultivated widely in semiarid agricultural regions in over 90 countries around the world. This important legume can enter into symbiotic associations with a wide range of rhizobia including Bradyrhizobium and fast-growing rhizobia. In comparison with other major legumes such as soybean and common bean, only limited information is available on the symbiotic interaction of pigeon pea with rhizobia. In this study, we investigated the ability of two classical soybean symbionts—S. fredii USDA191 and B. diazoefficiens USDA110—and their type 3 secretion system (T3SS) mutants, to nodulate pigeon pea. Both S. fredii USDA191 and a T3SS mutant S. fredii RCB26 formed nitrogen-fixing nodules on pigeon pea. Inoculation of pigeon pea roots with B. diazoefficiens USDA110 and B. diazoefficiens Δ136 (a T3SS mutant) resulted in the formation of Fix− and Fix+ nodules, respectively. Light and transmission electron microscopy of Fix- nodules initiated by B. diazoefficiens USDA110 revealed the complete absence of rhizobia within these nodules. In contrast, Fix+ nodules formed by B. diazoefficiens Δ136 revealed a central region that was completely filled with rhizobia. Ultrastructural investigation revealed the presence of numerous bacteroids surrounded by peribacteroid membranes in the infected cells. Analysis of nodule proteins by one- and two-dimensional gel electrophoresis revealed that leghemoglobin was absent in B. diazoefficiens USDA110 nodules, while it was abundantly present in B. diazoefficiens Δ136 nodules. Results of competitive nodulation assays indicated that B. diazoefficiens Δ136 had greater competitiveness for nodulation on pigeon pea than did the wild type strain. Our results suggest that this T3SS mutant of B. diazoefficiens, due to its greater competitiveness and ability to form Fix+ nodules, could be exploited as a potential inoculant to boost pigeon pea productivity.

Nodulation and Symbiotic Nitrogen Fixation in the Biofuel Legume Tree Pongamia pinnata

The legume tree Pongamia pinnata (also called Millettia pinnata) is a non-food crop that can grow on marginal land not destined for the cultivation of food crops. It is an important candidate for the production of biofuel (bio-oil, biodiesel and aviation biofuel) from its oil-rich seeds. An important trait is its ability to grow in marginal, nitrogen-limited soils. This growth ability is attributed to the nitrogen-fixation activity of root nodules. Cutting both cotyledons in halves had little effect on shoot dry weight, nodule number and weight per plant at 8 weeks. These parameters were reduced when both cotyledons were removed; plants were visibly yellow. Surprisingly when no nutrients were supplied and with both cotyledons intact, plants grew as well as those with nutrients. To isolate rhizobial inoculants from soil, samples were collected from Meandu Mine, a coal-mining site near Kingaroy, Queensland (Australia), where pongamia is currently grown to rehabilitate the soil. Pongamia nodules were also collected from Mt. Coot-tha Botanic Gardens (Brisbane), where pongamia was introduced decades ago. Established ‘Baiting technique’ and ‘One-drop-one-nodule technique’ were applied to isolate potential rhizobia from the soil samples and nodules. All isolates were screened and characterised for symbiotic effectiveness and nitrogenase activity. A total of 21 putative rhizobial samples were isolated – five from soil samples and 16 from pongamia nodules. Out of these iso lates, seven were slow-growers while 14 were fast-growers. These isolates were coded as PR-UQ. Among the isolates, the fast-growers PR-UQ-03 and PR-UQ-05 were considered as the superior strains compared to the slow-growers PR-UQ-01 and PR-UQ-04, which were more effective than the rest of the isolates. The new isolates enhanced nodule number, shoot length and total plant dry weight and resulted in better plant growth than the available Bradyrhizobium japonicum strains CB1809, USDA110 and CB564. Acetylene reduction assay (short term) and Nitrogen Difference Analysis (long term) further confirmed that pongamia fixed more nitrogen upon inoculation with these rhizobia. Based on 16S rDNA sequence analysis, PR-UQ-01 and PR-UQ-04 are closely related to Bradyrhizobium elkanii and Bradyrhizobium pachyrizi, while PR-UQ-03 and PR-UQ-05 are both related to Rhizobium mesoamericanum. Cotyledons supply the seedling with nutrients for a considerable period of early seedling growth. The newly isolated, fast-growing rhizobia PR-UQ-03 and PR-UQ-05 and the slow-growing PR-UQ-01 and PR-UQ-04 are related to Rhizobium and Bradyrhizobium species and aid in the nodulation, nitrogen fixation and seedling/sapling growth of Pongamia pinnata.

Forms of natural selection controlling the genomic evolution in nodule bacteria

The role of different forms of natural selection in the evolution of genomes in root nodule bacteria (rhizobia) is analyzed for the first time. In these nitrogen-fixing symbionts of leguminous plants, two types of genome organization are revealed: (i) unitary type, where over 95% of genetic information is encoded by chromosomes (5.3–5.5 Mb in Azorhizobium, 7.0–7.8 Mb in Mesorhizobium, 7.3–10.1 Mb in Bradyrhizobium); (ii) multipartite type, where up to 50% of genetic information is allocated to plasmids or chromids which may exceed 2 Mb in size and usually control the symbiotic properties (pSyms) in fast-growing rhizobia (Rhizobium, Sinorhizobium, Neorhizobium). Emergence of fast-growing species with narrow host ranges are correlated to the extension of extrachromosomal parts of genomes, including the increase in pSyms sizes (in Sinorhizobium). An important role in this evolution is implemented by diversifying selection since the genomic diversity evolved in rhizobia owing to symbiotic interactions with highly divergent legumes. However, analysis of polymorphism in nod genes (encoding synthesis of lipo-chitooligosaccharide signaling Nod factors) suggests that the impacts of diversifying selection are restricted to the bacterial divergence for host specificity and do not influence the overall genome organization. Since the extension of rhizobia genome diversity results from the horizontal sym gene transfer occurring with low frequencies, we suggest that this extension is due to the frequency-dependent selection anchoring the rare genotypes in bacterial populations. It is implemented during the rhizobia competition for nodulation encoded by the functionally diverse cmp genes. Their location in different parts of bacterial genomes may be considered as an important factor of their adaptive diversification implemented in the host-associated microbial communities.

Nodulation and Symbiotic Nitrogen Fixation in the Biofuel Legume Tree Pongamia pinnata

The legume tree Pongamia pinnata (also called Millettia pinnata) is a non-food crop that can grow on marginal land not destined for the cultivation of food crops. It is an important candidate for the production of biofuel (bio-oil, biodiesel and aviation biofuel) from its oil-rich seeds. An important trait is its ability to grow in marginal, nitrogen-limited soils. This growth ability is attributed to the nitrogen-fixation activity of root nodules. Cutting both cotyledons in halves had little effect on shoot dry weight, nodule number and weight per plant at 8 weeks. These parameters were reduced when both cotyledons were removed; plants were visibly yellow. Surprisingly when no nutrients were supplied and with both cotyledons intact, plants grew as well as those with nutrients. To isolate rhizobial inoculants from soil, samples were collected from Meandu Mine, a coal-mining site near Kingaroy, Queensland (Australia), where pongamia is currently grown to rehabilitate the soil. Pongamia nodules were also collected from Mt. Coot-tha Botanic Gardens (Brisbane), where pongamia was introduced decades ago. Established ‘Baiting technique’ and ‘One-drop-one-nodule technique’ were applied to isolate potential rhizobia from the soil samples and nodules. All isolates were screened and characterised for symbiotic effectiveness and nitrogenase activity. A total of 21 putative rhizobial samples were isolated – five from soil samples and 16 from pongamia nodules. Out of these iso lates, seven were slow-growers while 14 were fast-growers. These isolates were coded as PR-UQ. Among the isolates, the fast-growers PR-UQ-03 and PR-UQ-05 were considered as the superior strains compared to the slow-growers PR-UQ-01 and PR-UQ-04, which were more effective than the rest of the isolates. The new isolates enhanced nodule number, shoot length and total plant dry weight and resulted in better plant growth than the available Bradyrhizobium japonicum strains CB1809, USDA110 and CB564. Acetylene reduction assay (short term) and Nitrogen Difference Analysis (long term) further confirmed that pongamia fixed more nitrogen upon inoculation with these rhizobia. Based on 16S rDNA sequence analysis, PR-UQ-01 and PR-UQ-04 are closely related to Bradyrhizobium elkanii and Bradyrhizobium pachyrizi, while PR-UQ-03 and PR-UQ-05 are both related to Rhizobium mesoamericanum. Cotyledons supply the seedling with nutrients for a considerable period of early seedling growth. The newly isolated, fast-growing rhizobia PR-UQ-03 and PR-UQ-05 and the slow-growing PR-UQ-01 and PR-UQ-04 are related to Rhizobium and Bradyrhizobium species and aid in the nodulation, nitrogen fixation and seedling/sapling growth of Pongamia pinnata.

Homospermidine synthase contributes to salt tolerance in free-living Rhizobium tropici and in symbiosis with Phaseolus vulgaris

Background and aims Homospermidine is known to be the most abundant polyamine in root nodules of Phaseolus vulgaris induced by Rhizobium tropici. In addition, homospermidine is involved in the stress tolerance of fast-growing rhizobia and in the bacteroid protection from environmental changes. For that reason, in this work, we have investigated the role of the rhizobial homospermidine synthase in the response of P. vulgaris root nodules to salinity.

Diversity of root nodule bacteria from leguminous crops

In the present study, a total of 353 nodule-associated bacteria were isolated from 220 legume plant samples belonging to Cicer arietinum (85), Glycine max (74), Vigna radiata (21) and Cajanus cajan (40). A total of 224 bacteria were identified as fast-growing Rhizobium spp. on the basis of differential staining (Gram staining and carbol fuchsin staining) and biochemical tests. All the isolates were tested for indole acetic acid production (IAA), phosphate solubilization and siderophore production on plate assay. To examine the effect of volatile organic metabolites (VOM) and water soluble soil components (WSSC) on nodule bacteria, culture conditions were optimized by observing the effects of various parameters such as pH, salt content and temperatures on the growth of bacteria. Selected rhizobia were subjected to random amplified polymorphic DNA (RAPD) and amplified ribosomal DNA restriction analysis (ARDRA) analysis to identify their species. On the basis of RAPD and ARDRA, 10 isolates were identified as Rhizobium meliloti. In this study, Rhizobium GO4, G16, G20, G77, S43, S81, M07, M37, A15 and A55 were observed as the best candidates among the tested bacteria and can be further used as potent bioinoculants.

Studies on allelopathic effect of artemisinin on rhizobium

Two strains of bean rhizobia, Rhizobium vigna 01 (slow-growing Rhizobium) and Rh. vigna 03 (fast-growing Rhizobium), were adopted to study allelopathic effect of artemisinin on the rhizobia. The results showed a significant inhibition of the reproduction and growth of rhizobium by artemisinin. After about 8 hours by adding 40 mg x L(-1) artemisinin into the culture medium, the number of rhizobia was less than half of those in normal culture. The utilization of sucrose and glucose by rhizobia decreased significantly as the concentration of artemisinin increased in the culture medium, which could be one of the main reasons for the inhibition of reproduction and growth of rhizobia by artemisinin. In addition, the activities of extracellular protease and acid phosphatase released from rhizobia decreased significantly as the concentrations of artemisinin increased. Artemisinin refluxed from Artemisia annua could thus inhibit the formation of root nodules and interfered with energy supply and reception between bacteroid and host cells. y = e(-ax) + b reflected the relationships between nitrogenase activities (y) and concentrations of artemisinin (x). In the culture medium with 48 mg x L(-1) of artemisinin, nitrogenase activities were about zero, resulting in the inactivation of nitrogenase in nodules formed. In general, artemisin in A. annua grown soils may inhibit the reproduction and growth of rhizobia, nodule formation and nitrogen biofixation, leading to less nitrogen supply, poor growth and development, and low yields of beans.

Distinct Cell Surface Appendages Produced by Sinorhizobium fredii USDA257 and S. fredii USDA191, Cultivar-Specific and Nonspecific Symbionts of Soybean

Sinorhizobium fredii USDA257 and S. fredii USDA191 are fast-growing rhizobia that form nitrogen-fixing nodules on soybean roots. In contrast to USDA191, USDA257 exhibits cultivar specificity and can form nodules only on primitive soybean cultivars. In response to flavonoids released from soybean roots, these two rhizobia secrete nodulation outer proteins (Nop) to the extracellular milieu through a type III secretion system. In spite of the fact that Nops are known to regulate legume nodulation in a host-specific manner, very little is known about the differences in the compositions of Nops and surface appendages elaborated by USDA191 and USDA257. In this study we compared the Nop profiles of USDA191 and USDA257 by one-dimensional (1D) and 2D gel electrophoresis and identified several of these proteins by matrix-assisted laser desorption ionization-time of flight mass spectrometry (MALDI-TOF MS) and liquid chromatography-tandem MS (LC-MS/MS). Examination of the surface appendages elaborated by these two strains of soybean symbionts by transmission electron microscopy revealed distinct differences in their morphologies. Even though the flagella produced by USDA191 and USDA257 were similar in their morphologies, they differed in their flagellin composition. USDA257 pili resembled long thin filaments, while USDA191 pili were short, rod shaped, and much thinner than the flagella. 2D gel electrophoresis of pilus-like appendages of USDA191 and USDA257 followed by mass spectrometry resulted in the identification of several of the Nops along with some proteins previously undetected in these strains. Some of the newly identified proteins show homology to putative zinc protease and a LabA-like protein from Bradyrhizobium sp. ORS278, fimbrial type 4 assembly proteins from Ralstonia solanacearum, and the type III effector Hrp-dependent protein from Rhizobium leguminosarum bv. trifolii.

Legume-nodulating bacteria (LNB) from three pasture legumes (Vicia sativa, Trigonella maritima and Hedysarum spinosissimum) in Tunisia

Sixty-one bacterial isolates were recovered from surface-sterilized root nodules of Vicia sativa, Trigonella maritima and Hedysarum spinosissimum plants growing in two arid Tunisian soils. The natural nodulation resource of these legumes, prospected from the two sites, was investigated. The occurrence of nodulation and the morphology of the nodules were observed. The isolates were examined by phenotypic characterization and 16S rDNA analysis. Among the 61 isolates that were screened, the majority (92%) were fast-growing rhizobia. Twenty-eight strains tolerated high concentration of salt (3% NaCl) and grew at temperatures up to 40°C. PCR restriction fragment length polymorphism (PCR-RFLP) and 16S rRNA gene sequencing revealed that the majority of the isolates belonged to the genera Rhizobium (54%) and Sinorhizobium (42%). Five H. spinosissimum isolates failed to nodulate their host plant, and were affiliated to Pseudomonas and Kocuria genera. This study is the first report that describes bacteria of genus Kocuria occupying root nodules of legumes to the best of our knowledge.

Characterization of indigenous rhizobia from Caatinga

The aim of this study was to characterize rhizobial isolates from Cratylia mollis Mart. ex Benth, Calliandra depauperata Benth. and Mimosa tenuiflora (Willd.) Poir. by means of rhizobial colonies morphology and restriction analysis of the 16S ribosomal gene (16S rDNA-ARDRA). Nodules were collected in the field and from plants cultivated in a greenhouse experiment using Caatinga soil samples. Sixty seven isolates were described by morphological analysis. Forty seven representative isolates were used for ARDRA analysis using seven restriction enzymes. We observed high diversity of both slow and fast-growing rhizobia that formed three morpho-physiological clusters. A few fast-growing isolates formed a group of strains of the Bradyrhizobium type; however, most of them diverged from the B. japonicum and B. elkanii species. Cratylia mollis nodule isolates were the most diverse, while all Mimosa tenuiflora isolates displayed fast growth with no pH change and were clustered into groups bearing 100% similarity, according to ARDRA results.

Variability in Symbiotic Effectiveness of Native Rhizobia in Acid Stress

In vitro experiments had been conducted to assess the effect of pH on different native isolates of Rhizobium from the lower Brahmaputra valley region of Assam, India. The growth rate of all the Rhizobium isolates were compared growing at three different pH levels viz. 4.5, 5.5 and 6.5. All the slow-growing Rhizobium isolates (AR1, BR5, BR8, BR12, GR13, AR10, BR13, GM16, GR21) were showed better growth at all the pH levels, whereas three fast-growing Rhizobium isolates (PR7, PR12 and PR16) failed to grow at pH 4.5 and 5.5 and could show growth only at pH 6.5. Experiments were also conducted in vitro to determine the symbiotic effectiveness of all the Rhizobium isolates with test legume, green gram (Phaseolus aureus Roxb.) at three different pH levels for 42 days and significant differences were observed on nodulation, nodule dry weight and nitrogenase activity. The acid-tolerant isolates could be used as bioinoculant for enhancement of growth of leguminous plants in the acid soils.

Characterization of indigenous rhizobia from caatinga

The aim of this study was to characterize rhizobial isolates from Cratylia mollis Mart. ex Benth, Calliandra depauperata Benth. and Mimosa tenuiflora (Willd.) Poir. by means of rhizobial colonies morphology and restriction analysis of the 16S ribosomal gene (16S rDNA-ARDRA). Nodules were collected in the field and from plants cultivated in a greenhouse experiment using Caatinga soil samples. Sixty seven isolates were described by morphological analysis. Forty seven representative isolates were used for ARDRA analysis using seven restriction enzymes. We observed high diversity of both slow and fast-growing rhizobia that formed three morpho-physiological clusters. A few fast-growing isolates formed a group of strains of the Bradyrhizobium type; however, most of them diverged from the B. japonicum and B. elkanii species. Cratylia mollis nodule isolates were the most diverse, while all Mimosa tenuiflora isolates displayed fast growth with no pH change and were clustered into groups bearing 100% similarity, according to ARDRA results.

Genetic characterization of fast-growing rhizobia able to nodulateProsopis albain North Spain

Prosopis is a Mimosaceae legume tree indigenous to South America and not naturalized in Europe. In this work 18 rhizobial strains nodulating Prosopis alba roots were isolated from a soil in North Spain that belong to eight different randomly amplified polymorphic DNA groups phylogenetically related to Sinorhizobium medicae, Sinorhizobium meliloti and Rhizobium giardinii according to their intergenic spacer and 16S rRNA gene sequences. The nodC genes of isolates close to S. medicae and S. meliloti were identical to those of S. medicae USDA 1,037(T) and S. meliloti LMG 6,133(T) and accordingly all these strains were able to nodulate both alfalfa and Prosopis. These nodC genes were phylogenetically divergent from those of the isolates close to R. giardinii that were identical to that of R. giardinii H152(T) and therefore all these strains formed nodules in common beans and Prosopis. The nodC genes of the strains isolated in Spain were phylogenetically divergent from that carried by Mesorhizobium chacoense Pr-5(T) and Sinorhizobium arboris LMG 1,4919(T) nodulating Prosopis in America and Africa, respectively. Therefore, Prosopis is a promiscuous host which can establish symbiosis with strains carrying very divergent nodC genes and this promiscuity may be an important advantage for this legume tree to be used in reforestation.

Investigations of Rhizobium biofilm formation

The development of nitrogen-fixing nodules of the Rhizobium-legume symbiosis, especially the early stages of root hair deformation and curling, infection thread formation, and nodule initiation, has been well studied from a genetic standpoint. In contrast, the factors important for the colonization of surfaces by rhizobia, including roots-an important prerequisite for nodule formation-have not been as thoroughly investigated. We developed conditions for analyzing the ability of two fast-growing rhizobia, Sinorhizobium meliloti and Rhizobium leguminosarum bv. viciae, to produce biofilms on abiotic surfaces such as glass, plastic microtiter plates, sand and soil as a prelude to characterizing the genes important for aggregation and attachment. Factors involved in adherence to abiotic surfaces are likely to be used in rhizobial attachment to legume root cells. In this report, we show that S. meliloti exopolysaccharide-deficient mutants as well as exopolysaccharide overproducers exhibit reduced biofilm phenotypes that show parallels with their nodulation abilities. We also investigated two flagella-less S. meliloti mutants and found them to have reduced biofilming capabilities. To investigate whether there was a symbiotic phenotype, we tested one of the Fla- mutants on two different S. meliloti hosts, alfalfa and white sweetclover, and found that nodule formation was significantly delayed on the latter.