Proteomic analysis of free-living Bradyrhizobium diazoefficiens: highlighting potential determinants of a successful symbiosis

Gomes, Douglas Fabiano; Batista, Jesiane Stefânia da Silva; Rolla, Amanda Alves Paiva; Silva, Luciano; Bloch, Carlos; Galli-Terasawa, Lygia Vitória; Hungría, Mariangela

doi:10.1186/1471-2164-15-643

Cited by 22 publications

(18 citation statements)

References 127 publications

(163 reference statements)

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“…Total RNA was extracted using Trizol® reagent (Life Technologies) as previously described [ 66 ]. The total concentrations were estimated in a NanoDrop ND 1000 spectrophotometer (NanoDrop-Technologies, Inc., City etc.…”

Section: Methodsmentioning

confidence: 99%

Regulatory nodD1 and nodD2 genes of Rhizobium tropici strain CIAT 899 and their roles in the early stages of molecular signaling and host-legume nodulation

et al. 2015

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BackgroundNodulation and symbiotic nitrogen fixation are mediated by several genes, both of the host legume and of the bacterium. The rhizobial regulatory nodD gene plays a critical role, orchestrating the transcription of the other nodulation genes. Rhizobium tropici strain CIAT 899 is an effective symbiont of several legumes—with an emphasis on common bean (Phaseolus vulgaris)—and is unusual in carrying multiple copies of nodD, the roles of which remain to be elucidated.ResultsPhenotypes, Nod factors and gene expression of nodD1 and nodD2 mutants of CIAT 899 were compared with those of the wild type strain, both in the presence and in the absence of the nod-gene-inducing molecules apigenin and salt (NaCl). Differences between the wild type and mutants were observed in swimming motility and IAA (indole acetic acid) synthesis. In the presence of both apigenin and salt, large numbers of Nod factors were detected in CIAT 899, with fewer detected in the mutants. nodC expression was lower in both mutants; differences in nodD1 and nodD2 expression were observed between the wild type and the mutants, with variation according to the inducing molecule, and with a major role of apigenin with nodD1 and of salt with nodD2. In the nodD1 mutant, nodulation was markedly reduced in common bean and abolished in leucaena (Leucaena leucocephala) and siratro (Macroptilium atropurpureum), whereas a mutation in nodD2 reduced nodulation in common bean, but not in the other two legumes.ConclusionOur proposed model considers that full nodulation of common bean by R. tropici requires both nodD1 and nodD2, whereas, in other legume species that might represent the original host, nodD1 plays the major role. In general, nodD2 is an activator of nod-gene transcription, but, in specific conditions, it can slightly repress nodD1. nodD1 and nodD2 play other roles beyond nodulation, such as swimming motility and IAA synthesis.Electronic supplementary materialThe online version of this article (doi:10.1186/s12864-015-1458-8) contains supplementary material, which is available to authorized users.

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Section: Methodsmentioning

confidence: 99%

Regulatory nodD1 and nodD2 genes of Rhizobium tropici strain CIAT 899 and their roles in the early stages of molecular signaling and host-legume nodulation

et al. 2015

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“…Total RNA was extracted using Trizol® reagent (Invitrogen/Life Technologies) as previously described [ 47 ]. The total RNA concentration was estimated in a NanoDrop ND 1000 spectrophotometer (NanoDrop-Technologies, Inc.) and the integrity was assessed by gel electrophoresis.…”

Section: Methodsmentioning

confidence: 99%

NrcR, a New Transcriptional Regulator of Rhizobium tropici CIAT 899 Involved in the Legume Root-Nodule Symbiosis

et al. 2016

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The establishment of nitrogen-fixing rhizobium-legume symbioses requires a highly complex cascade of events. In this molecular dialogue the bacterial NodD transcriptional regulators in conjunction with plant inducers, mostly flavonoids, are responsible for the biosynthesis and secretion of Nod factors which are key molecules for successful nodulation. Other transcriptional regulators related to the symbiotic process have been identified in rhizobial genomes, including negative regulators such as NolR. Rhizobium tropici CIAT 899 is an important symbiont of common bean (Phaseolus vulgaris L.), and its genome encompasses intriguing features such as five copies of nodD genes, as well as other possible transcriptional regulators including the NolR protein. Here we describe and characterize a new regulatory gene located in the non-symbiotic plasmid pRtrCIAT899c, that shows homology (46% identity) with the nolR gene located in the chromosome of CIAT 899. The mutation of this gene, named nrcR (nolR-like plasmid c Regulator), enhanced motility and exopolysaccharide production in comparison to the wild-type strain. Interestingly, the number and decoration of Nod Factors produced by this mutant were higher than those detected in the wild-type strain, especially under salinity stress. The nrcR mutant showed delayed nodulation and reduced competitiveness with P. vulgaris, and reduction in nodule number and shoot dry weight in both P. vulgaris and Leucaena leucocephala. Moreover, the mutant exhibited reduced capacity to induce the nodC gene in comparison to the wild-type CIAT 899. The finding of a new nod-gene regulator located in a non-symbiotic plasmid may reveal the existence of even more complex mechanisms of regulation of nodulation genes in R. tropici CIAT 899 that may be applicable to other rhizobial species.

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“…This interpretation is essential to develop biotechnological approaches for optimizing plant acclimatisation techniques and to enhance the microbial activity of soil for assuagement in crops [ 62 ]. Gomes et al [ 63 ] observed a promotion in the growth of the host due to elevated photosynthetic proteins, transport proteins and chaperones such as GroEL and DnaK during temperature stress, drought and metal toxicity. Recent researches have shown that changes in plant morphology, physiology, transporter action, exudation profiles of roots and vicissitudes might trigger the plant to employ microbes with stress-reducing abilities and potentially enhancing the crop under stress conditions.…”

Section: Plant-microbe Beneficial Interactionmentioning

confidence: 99%

Deciphering the Omics of Plant-Microbe Interaction: Perspectives and New Insights

Sharma

Sudheer

Usmani

et al. 2020

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: Plants do not grow in isolation, rather they are also hosts to a variety of microbes in their natural environments. While, few thrive in the plants for their sole benefit, others may have a direct bearing on plants in a symbiotic manner. Unravelling plant-microbe interactions is a crucial component to recognize the beneficial and detrimental impact of microbes on plants. Also, by affecting the environment around plants, microbes may indirectly influence the plants. The progress in sequencing technologies in the genomics era and several omics tool has grown in biological science. Studying the complex nature of plant-microbe interactions can offer several strategies to increase productivity of plants in an environmentally friendly manner by providing better insights. This review brings forward the recent works performed in building omics strategies that decipher the interactions between plantmicrobiome. At the same time, this study further explores other associated mutually beneficial aspects of plant-microbe interactions such as plant growth promotion, nitrogen fixation, stress suppressions in crops and bioremediation. This work also provides a better intelligence about metabolic interactions between the microbe and the plant through omics approaches. The review explores advances in the study of Arabidopsis as an important avenue to serve as a baseline tool to create models that help in scrutinizing various factors that contribute to the elaborate relationship between the plant and microbes. Causal relationships between plants and microbes can be established through systematic gnotobiotic experimental studies to test hypotheses on biologically derived interactions. This review will bring forth recent advances in the study of plant-microbe interactions keeping in view the advantages of these interactions in improving nutrient uptake and plant health.

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Proteomic analysis of free-living Bradyrhizobium diazoefficiens: highlighting potential determinants of a successful symbiosis

Cited by 22 publications

References 127 publications

Regulatory nodD1 and nodD2 genes of Rhizobium tropici strain CIAT 899 and their roles in the early stages of molecular signaling and host-legume nodulation

Regulatory nodD1 and nodD2 genes of Rhizobium tropici strain CIAT 899 and their roles in the early stages of molecular signaling and host-legume nodulation

NrcR, a New Transcriptional Regulator of Rhizobium tropici CIAT 899 Involved in the Legume Root-Nodule Symbiosis

Deciphering the Omics of Plant-Microbe Interaction: Perspectives and New Insights

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