Extra-slow-growing Tardiphaga strains isolated from nodules of Vavilovia formosa (Stev.) Fed.

Safronova, Vera I.; Kuznetsova, I. G.; Sazanova, Anna L; Kimeklis, Anastasiia K.; Belimov, Andrey A.; Andronov, E. E.; Пинаев, А. Г.; Pukhaev, Andrey R.; Popov, K. P.; Akopian, Janna; Willems, Anne; Тихонович, И. А.

doi:10.1007/s00203-015-1122-3

Cited by 16 publications

(6 citation statements)

References 28 publications

Supporting

Mentioning

Contrasting

Unclassified

Order By: Relevance

“…In previous culture-based studies on soybean, it was shown that the lack of Nitrobacter may be due to either their slow growth as chemoorganotrophs or lack of NO 2 in the growth medium required for growth as chemolithotrophs. Similarly, Tardiphaga species have a growth rate of up to a 10-day doubling time in culture (63). Our study, along with other culture-independent studies, reports the presence of Nitrobacter and Tardiphaga within root nodules of soybean (34) and alfalfa plants (14,66).…”

Section: Resultssupporting

confidence: 77%

See 1 more Smart Citation

Soybean Root Nodule and Rhizosphere Microbiome: Distribution of Rhizobial and Nonrhizobial Endophytes

Mayhood

Mirza

2021

Appl Environ Microbiol

View full text Add to dashboard Cite

Soybean root nodules are known to contain a high diversity of both rhizobial and non-rhizobial endophytes (NREs). Nevertheless, the variation of these bacteria among different root nodules within single plants has not been reported. So far, it is unclear whether the selection of NREs among different root nodules within single plants is a random process or is strictly controlled by the host plant toward a few specific NREs based on their beneficial influence on plant growth. Secondly, it is also unknown if the relative frequency of NREs within different root nodules is consistent or it varies based on the location or size of a root nodule. We assessed the microbiomes of 193 individual soybean root nodules from nine plants using high-throughput DNA sequencing. Bradyrhizobium japonicum strains occurred in high abundance in all root nodules despite the presence of other soybean-compatible rhizobia such as Ensifer, Mesorhizobium, and other species of genus Bradyrhizobium in soil. Nitrobacter and Tardiphaga were the two non-rhizobial genera that were uniformly detected within almost all root nodules, though they were in low abundance. DNA sequences related to previously frequently reported other NREs such as Bacillus, Pseudomonas, Flavobacterium, and Variovorax species were detected within a few nodules. Unlike Bradyrhizobium, the low abundance and inconsistent occurrence of previously reported NREs among different root nodules within single plants suggest that these microbes are not being preferentially selected as endophytes by host plants, and most likely play a limited part in plant growth as endophytes. IMPORTANCE Soybean (Glycine max L.) is a valuable food crop that also contributes significantly toward soil nitrogen by developing a symbiotic association with nitrogen-fixing rhizobia. Bacterial endophytes (both rhizobial and non-rhizobial) are considered to be critical for the growth and resilience of the legume host. In the past, several studies have suggested that the selection of bacterial endophytes within root nodules can be influenced by factors, such as soil pH, nutrient availability, host plant genotype, and bacterial diversity in soil. However, the influence of size or location of root nodules on the selection of bacterial endophytes within soybean root is unknown. It is also unclear whether the selection of non-rhizobial endophytes within different root nodules of a single plant is a random process or is strictly regulated by the host. This information can be useful in identifying potential bacterial species for developing bioinoculants that can enhance plant growth and soil nitrogen.

show abstract

Section: Resultssupporting

confidence: 77%

“…are genetically similar to the Bradyrhizobium spp. ( 61) and reported to have nodM and nodT genes (63), which are involved in signaling to the host plant and root nodule formation (64). Moreover, Tardiphaga isolates have been reported to have a role in the N cycle by carrying out dissimilatory nitrate reduction under anaerobic conditions (65).…”

Section: Resultsmentioning

confidence: 99%

Soybean Root Nodule and Rhizosphere Microbiome: Distribution of Rhizobial and Nonrhizobial Endophytes

Mayhood

Mirza

2021

Appl Environ Microbiol

View full text Add to dashboard Cite

show abstract

“…The genetic basis for the low specificity of these isolates may be the similarity of their nod genes with representatives of different rhizobial families: Rhizobiaceae, Phyllobacteriaceae and Bradyrhizobiaceae . This data are in agreement with previous reports suggesting that symbiotic systems of relict plants can be formed with different rhizobial strains belonging to various taxonomic groups (Safronova et al, 2014, 2015a,b, 2017b).…”

Section: Resultssupporting

confidence: 93%

“…The species Vavilovia formosa growing in Western Asia and Caucasus mountains as well as Oxytropis triphylla, O. popoviana, O. tragacanthoides, Hedysarum zundukii, Astragalus chorinensis , and Glycyrrhiza uralensis originated from Baikal Lake region are known as Miocene-Pliocene relics (Malyschev, 2006; Sinjushin et al, 2009; Turuta et al, 2015). Information about strains isolated from root nodules of these plant species was recently published (Safronova et al, 2014, 2015a,b, 2017a,b). It was shown that these isolates belonged to different families of rhizobia ( Rhizobiaceae , Phyllobacteriaceae , and Bradyrhizobiaceae ) and new species Bosea vaviloviae and Phyllobacterium zundukense were described (Safronova et al, 2015a, 2018b).…”

Section: Introductionmentioning

confidence: 99%

Two Broad Host Range Rhizobial Strains Isolated From Relict Legumes Have Various Complementary Effects on Symbiotic Parameters of Co-inoculated Plants

et al. 2019

View full text Add to dashboard Cite

Two bacterial strains Ach-343 and Opo-235 were isolated, respectively from nodules of Miocene-Pliocene relict legumes Astragalus chorinensis Bunge and Oxytropis popoviana Peschkova originated from Buryatia (Baikal Lake region, Russia). For identification of these strains the sequencing of 16S rRNA (rrs) gene was used. Strain Opo-235 belonged to the species Mesorhizobium japonicum, while the strain Ach-343 was identified as M. kowhaii (100 and 99.9% rrs similarity with the type strains MAFF 303099T and ICMP 19512T, respectively). Symbiotic genes of these strains as well as some genes that promote plant growth (acdS, gibberellin- and auxin-synthesis related genes) were searched throughout the whole genome sequences. The sets of plant growth-promoting genes found were almost identical in both strains, whereas the sets of symbiotic genes were different and complemented each other with several nod, nif, and fix genes. Effects of mono- and co-inoculation of Astragalus sericeocanus, Oxytropis caespitosa, Glycyrrhiza uralensis, Medicago sativa, and Trifolium pratense plants with the strains M. kowhaii Ach-343 and M. japonicum Opo-235 expressing fluorescent proteins mCherry (red) and EGFP (green) were studied in the gnotobiotic plant nodulation assay. It was shown that both strains had a wide range of host specificity, including species of different legume genera from two tribes (Galegeae and Trifolieae). The effects of co-microsymbionts on plants depended on the plant species and varied from decrease, no effect, to increase in the number of nodules, nitrogen-fixing activity and plant biomass. One of the reasons for this phenomenon may be the discovered complementarity in co-microsymbionts of symbiotic genes responsible for the specific modification of Nod-factors and nitrogenase activity. Localization and co-localization of the strains in nodules was confirmed by the confocal microscopy. Analysis of histological and ultrastructural organization of A. chorinensis and O. popoviana root nodules was performed. It can be concluded that the strains M. kowhaii Ach-343 and M. japonicum Opo-235 demonstrate lack of high symbiotic specificity that is characteristic for primitive legume-rhizobia systems. Further study of the root nodule bacteria having complementary sets of symbiotic genes will contribute to clarify the evolutionary paths of legume-rhizobia relationships and the mechanisms of effective integration between partners.

show abstract

“…GFAT controls the flow of glucose and limits the speed of the hexosamine biosynthetic pathway, thus controlling the formation of the final product [ 66 ]. The glucosamine-fructose-6-phosphate aminotransferase is encoded by nodM , an important nodulation gene with a role in the biosynthesis and secretion of Nod factors [ 67 ]. An experiment with mutant strains in the nodM and nodN genes of Rhizobium leguminosarum inoculated in hairy vetch [ Vicia hirsuta (L.) Gray] resulted in an average reduction of 30% in the number of nodules; however, no differences were observed in the formation of curled root hairs or infection threads, and the nodules formed fixed normal amounts of nitrogen [ 68 ].…”

Section: Discussionmentioning

confidence: 99%

Genetic variation in symbiotic islands of natural variant strains of soybean Bradyrhizobium japonicum and Bradyrhizobium diazoefficiens differing in competitiveness and in the efficiency of nitrogen fixation

et al. 2022

View full text Add to dashboard Cite

Soybean is the most important legume cropped worldwide and can highly benefit from the biological nitrogen fixation (BNF) process. Brazil is recognized for its leadership in the use of inoculants and two strains, Bradyrhizobium japonicum CPAC 15 (=SEMIA 5079) and Bradyrhizobium diazoefficiens CPAC 7 (=SEMIA 5080) compose the majority of the 70 million doses of soybean inoculants commercialized yearly in the country. We studied a collection of natural variants of these two strains, differing in properties of competitiveness and efficiency of BNF. We sequenced the genomes of the parental strain SEMIA 566 of B. japonicum , of three natural variants of this strain (S 204, S 340 and S 370), and compared with another variant of this group, strain CPAC 15. We also sequenced the genome of the parental strain SEMIA 586 of B. diazoefficiens , of three natural variants of this strain (CPAC 390, CPAC 392 and CPAC 394) and compared with the genome of another natural variant, strain CPAC 7. As the main genes responsible for nodulation (nod, noe, nol) and BNF (nif, fix) in soybean Bradyrhizobium are located in symbiotic islands, our objective was to identify genetic variations located in this region, including single nucleotide polymorphisms (SNPs) and insertions and deletions (indels), that could be potentially related to their different symbiotic phenotypes. We detected 44 genetic variations in the B. japonicum strains and three in B. diazoefficiens . As the B. japonicum strains have gone through a longer period of adaptation to the soil, the higher number of genetic variations could be explained by survival strategies under the harsh environmental conditions of the Brazilian Cerrado biome. Genetic variations were detected in genes enconding proteins such as a dephospho-CoA kinase, related to the CoA biosynthesis; a glucosamine-fructose-6-phosphate aminotransferase, key regulator of the hexosamine biosynthetic pathway; a LysR family transcriptional regulator related to nodulation genes; and NifE and NifS proteins, directly related to the BNF process. We suggest potential genetic variations related to differences in the symbiotic phenotypes.

show abstract

Extra-slow-growing Tardiphaga strains isolated from nodules of Vavilovia formosa (Stev.) Fed.

Cited by 16 publications

References 28 publications

Soybean Root Nodule and Rhizosphere Microbiome: Distribution of Rhizobial and Nonrhizobial Endophytes

Soybean Root Nodule and Rhizosphere Microbiome: Distribution of Rhizobial and Nonrhizobial Endophytes

Two Broad Host Range Rhizobial Strains Isolated From Relict Legumes Have Various Complementary Effects on Symbiotic Parameters of Co-inoculated Plants

Genetic variation in symbiotic islands of natural variant strains of soybean Bradyrhizobium japonicum and Bradyrhizobium diazoefficiens differing in competitiveness and in the efficiency of nitrogen fixation

Contact Info

Product

Resources

About