Nitrogen-Fixing Symbiotic Paraburkholderia Species: Current Knowledge and Future Perspectives

Bellés-Sancho, Paula; Beukes, Chrizelle W.; James, Euan K.; Pessi, Gabriella

doi:10.3390/nitrogen4010010

Cited by 13 publications

(7 citation statements)

References 197 publications

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“…africana owing to their capacity to nodulate Papilionoideae legumes from South Africa and New Zealand ( Paulitsch et al, 2020b ), leading to their classification into the sv. Papilionideae ( Bellés-Sancho et al, 2023 ). The studies that described these strains as new species also mentioned high 16S rRNA gene and ANI identity values ( Sheu et al, 2015 ; Beukes et al., 2019 ).…”

Section: Resultsmentioning

confidence: 99%

Genome-based taxonomy of Burkholderia sensu lato: Distinguishing closely related species

Bach,

Volpiano,

Sant’Anna

et al. 2023

Genet. Mol. Biol.

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The taxonomy of Burkholderia sensu lato (s.l.) has been revisited using genome-based tools, which have helped differentiate closely related species. Many species from this group are indistinguishable through phenotypic traits and 16S rRNA gene sequence analysis. Furthermore, they also exhibit whole-genome Average Nucleotide Identity (ANI) values in the twilight zone for species circumscription (95-96%), which may impair their correct classification. In this work, we provided an updated Burkholderia s.l. taxonomy focusing on closely related species and give other recommendations for those developing genome-based taxonomy studies. We showed that a combination of ANI and digital DNA-DNA hybridization (dDDH) applying the universal cutoff values of 95% and 70%, respectively, successfully discriminates Burkholderia s.l. species. Using genome metrics with this pragmatic criterion, we demonstrated that i) Paraburkholderia insulsa should be considered a later heterotypic synonym of Paraburkholderia fungorum; ii) Paraburkholderia steynii differs from P. terrae by harboring symbiotic genes; iii) some Paraburkholderia are indeed different species based on dDDH values, albeit sharing ANI values close to 95%; iv) some Burkholderia s.l. indeed represent new species from the genomic viewpoint; iv) some genome sequences should be evaluated with care due to quality concerns.

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Section: Resultsmentioning

confidence: 99%

Genome-based taxonomy of Burkholderia sensu lato: Distinguishing closely related species

Bach,

Volpiano,

Sant’Anna

et al. 2023

Genet. Mol. Biol.

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“…According to Ano and Ubochi (2007), the most abundant bacteria in soils belong to the Paenibacillus, Lysinibacillus, Pseudomonas, Paraburkholderia, Bradyrhizobium, and Rhizobium genera. These genera have plant growth promoting traits and play a role in N-cycling, N-xing, and P-solubilization (Sitaram, 2015;Jaiswal et al, 2021;Favero et al, 2022;Bellѐs-Sancho et al, 2023;Pantoja-Guerra et al, 2023). Thus, the presence of bacteria belonging to the Pseudomonas, Paraburkholderia, and Bradyrhizobium genera in E. villosus rhizosphere and non-rhizosphere soils may be attributed to the abundance of these genera on soils and their plant growth promoting traits.…”

Section: Discussionmentioning

confidence: 99%

Encephalartos villosus associated bacterial communities and extracellular enzymes improve soil nutrition in rhizosphere soils in forest ecosystem soils

Motsomane

Suinyuy

Magadlela

2023

Preprint

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Purpose Cycads are the only known gymnosperms associated with nitrogen-fixing bacteria housed in coralloid roots. Plant-associated bacteria, soil bacteria, and extracellular enzymes play a significant role in nutrient cycling. This study isolated and identified culturable bacteria in Encephalartos villosus coralloid roots, rhizosphere, and non-rhizosphere soils and investigated the role of soil bacteria and associated enzyme activities on soil nutrition in forest ecosystem soils in Rhebu and Oceanview, Eastern Cape, South Africa. Methods Encephalartos villosus coralloid roots were collected from mature cycad individuals for bacterial extraction and identification. Soil samples from E. villosus rhizosphere and non-rhizosphere soils were collected for bacterial identification, extracellular enzyme activity analysis, and soil characteristics (nutrient concentrations, pH, total cation, and exchange acidity). Results The bacteria isolated from the coralloid roots of E. villosus growing in Rhebu and Oceanview belonged to the Bacillus, Enterobacter, Peribacillus, Lysinibacillus, Stenotrophomonas, Rhizobium, and Paenibacillus genera. The Pseudomonas, Paraburkholderia, Burkholderia, Variovorax, Caballeronia, Stenotrophomonas, Novosphingobium, Caulobacter, Olivibacter, Cupriavidus, Arthrobacter, Gottfrieder, Dyella, Lysobacter, Xanthomonas, Neobacillus, Bradyrhizobium, Rhizobium, Enisfer, Chitinophaga, Paenarthrobacter, and Paenibacillus genera were isolated from rhizosphere and non-rhizosphere soils in Rhebu and Ocean View farm. There were no significant differences in the concentrations of soil macronutrients (N, P, K), alkaline and acid phosphatase, glucosaminidase, and nitrate reductase activity of E. villosus rhizosphere and non-rhizosphere soils in both localities, this may be attributed to dung and urine deposited by grazing cattle. Conclusion Our results show that soil bacterial communities with nutrient cycling and fixing functions may be linked to nutrient bioavailability contributing to nutrient enrichments in E. villosus rhizosphere soils.

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“…Similar phenomena have subsequently been reported in the rhizobia of many leguminous plants. For example, Paraburkholderia phymatum STM815 can nodulate a broad range of legumes, including the agriculturally important Phaseolus vulgaris (common bean) (Bellés-Sancho et al 2023 ). P. phymatum harbors two T6SSs (T6SS-b and T6SS-3) in its genome.…”

Section: T6ss Confers Resistance To Biotic Stressesmentioning

confidence: 99%

The role of the type VI secretion system in the stress resistance of plant-associated bacteria

Yin,

Cheng,

Lin

2024

Stress Biology

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The type VI secretion system (T6SS) is a powerful bacterial molecular weapon that can inject effector proteins into prokaryotic or eukaryotic cells, thereby participating in the competition between bacteria and improving bacterial environmental adaptability. Although most current studies of the T6SS have focused on animal bacteria, this system is also significant for the adaptation of plant-associated bacteria. This paper briefly introduces the structure and biological functions of the T6SS. We summarize the role of plant-associated bacterial T6SS in adaptability to host plants and the external environment, including resistance to biotic stresses such as host defenses and competition from other bacteria. We review the role of the T6SS in response to abiotic factors such as acid stress, oxidation stress, and osmotic stress. This review provides an important reference for exploring the functions of the T6SS in plant-associated bacteria. In addition, characterizing these anti-stress functions of the T6SS may provide new pathways toward eliminating plant pathogens and controlling agricultural losses.

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Nitrogen-Fixing Symbiotic Paraburkholderia Species: Current Knowledge and Future Perspectives

Cited by 13 publications

References 197 publications

Genome-based taxonomy of Burkholderia sensu lato: Distinguishing closely related species

Genome-based taxonomy of Burkholderia sensu lato: Distinguishing closely related species

Encephalartos villosus associated bacterial communities and extracellular enzymes improve soil nutrition in rhizosphere soils in forest ecosystem soils

The role of the type VI secretion system in the stress resistance of plant-associated bacteria

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