The Family Rhizobiaceae

Alves, Lúcia Maria Carareto; Souza, Jackson Antônio Marcondes de; Varani, Alessandro de Mello; Lemos, Eliana Gertrudes de Macedo

doi:10.1007/978-3-642-30197-1_297

Cited by 52 publications

(26 citation statements)

References 143 publications

(172 reference statements)

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“…Interestingly, sphingolipids are more commonly studied in host-associated microbiomes and have been implicated in the development of metabolic disorders ( 66 , 67 ). One trait associated with multiple-resilient bacterial families, including Acetobacteraceae , Rhizobiaceae , Oxalobacteraceae , and Rhodospirillaceae , was broad antibiotic/antimicrobial resistance ( 68 – 71 ). Rhizobiaceae and Oxalobacteracea are known to produce exopolysaccharides (EPS), which is a mechanism shown to protect bacteria from various factors, including predation and the effects of antibiotics ( 69 , 70 ).…”

Section: Discussionmentioning

confidence: 99%

“…One trait associated with multiple-resilient bacterial families, including Acetobacteraceae , Rhizobiaceae , Oxalobacteraceae , and Rhodospirillaceae , was broad antibiotic/antimicrobial resistance ( 68 – 71 ). Rhizobiaceae and Oxalobacteracea are known to produce exopolysaccharides (EPS), which is a mechanism shown to protect bacteria from various factors, including predation and the effects of antibiotics ( 69 , 70 ). Acetobacteraceae are also known to metabolize diverse substrates, which may confer a competitive advantage ( 68 , 72 ).…”

Section: Discussionmentioning

confidence: 99%

See 1 more Smart Citation

Biotic Interactions Are More Important than Propagule Pressure in Microbial Community Invasions

Albright

Sevanto

Gallegos‐Graves

et al. 2020

mBio

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Microbial probiotics are intended to improve functions in diverse ecosystems, yet probiotics often fail to establish in a preexisting microbiome. This is a species invasion problem. The relative importance of the two major factors controlling establishment in this context—propagule pressure (inoculation dose and frequency) and biotic interactions (composition of introduced and resident communities)—is unknown. We tested the effect of these factors in driving microbial composition and functioning following 12 microbial community invasions (e.g., introductions of many microbial invaders) in microcosms. Ecosystem functioning over a 30-day postinvasion period was assessed by measuring activity (respiration) and environment modification (dissolved organic carbon abundance). To test the dependence on environmental context, experiments were performed in two resource environments. In both environments, biotic interactions were more important than propagule pressure in driving microbial composition and community function, but the magnitude of effect varied by environment. Successful invaders comprised approximately 8% of the total number of operational taxonomic units (OTUs). Bacteria were better invaders than fungi, with average relative abundances of 7.4% ± 6.8% and 1.5% ± 1.4% of OTUs, respectively. Common bacterial invaders were associated with stress response traits. The most resilient bacterial and fungal families, in other words, those least impacted by invasions, were linked to antimicrobial resistance or production traits. Illuminating the principles that determine community composition and functioning following microbial invasions is key to efficient community engineering. IMPORTANCE With increasing frequency, humans are introducing new microbes into preexisting microbiomes to alter functioning. Example applications include modification of microflora in human guts for better health and those of soil for food security and/or climate management. Probiotic applications are often approached as trial-and-error endeavors and have mixed outcomes. We propose that increased success in microbiome engineering may be achieved with a better understanding of microbial invasions. We conducted a microbial community invasion experiment to test the relative importance of propagule pressure and biotic interactions in driving microbial community composition and ecosystem functioning in microcosms. We found that biotic interactions were more important than propagule pressure in determining the impact of microbial invasions. Furthermore, the principles for community engineering vary among organismal groups (bacteria versus fungi).

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Section: Discussionmentioning

confidence: 99%

Section: Discussionmentioning

confidence: 99%

Biotic Interactions Are More Important than Propagule Pressure in Microbial Community Invasions

Albright

Sevanto

Gallegos‐Graves

et al. 2020

mBio

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“…This differential effect was also detected in the overall bacterial community structure at the OTU level, indicating hairy root transformation exerted an additional influence on the rhizosphere bacterial community. The large proportion of Rhizobiaceae in VC roots is to be expected as this family contains Agrobacterium rhizogenes , which was used to induce hairy root transformation and generate the VC and IFSi roots in the first place (Carareto Alves et al ., ). On the other hand, the reduced proportion of the Rhodospirillaceae family is curious since our samples contained the Azospirillum genus, which is known to contain plant‐growth‐promoting bacteria that predominantly colonize the plant root surface (Baldani et al ., ).…”

Section: Discussionmentioning

confidence: 97%

Root isoflavonoids and hairy root transformation influence key bacterial taxa in the soybean rhizosphere

White

Brözel

et al. 2017

Environmental Microbiology

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Rhizodeposits play a key role in shaping rhizosphere microbial communities. In soybean, isoflavonoids are a key rhizodeposit component that aid in plant defense and enable symbiotic associations with rhizobia. However, it is uncertain if and how they influence rhizosphere microbial communities. Isoflavonoid biosynthesis was silenced via RNA interference of isoflavone synthase in soybean hairy root composite plants. Rhizosphere soil fractions tightly associated with roots were isolated, and PCR amplicons from 16S rRNA gene variable regions V1-V3 and V3-V5 from these fractions were sequenced using 454. The resulting data was resolved using MOTHUR and vegan to identify bacterial taxa and evaluate changes in rhizosphere bacterial communities. The soybean rhizosphere was enriched in Proteobacteria and Bacteroidetes, and had relatively lower levels of Actinobacteria and Acidobacteria compared with bulk soil. Isoflavonoids had a small effect on bacterial community structure, and in particular on the abundance of Xanthomonads and Comamonads. The effect of hairy root transformation on rhizosphere bacterial communities was largely similar to untransformed plant roots with approximately 74% of the bacterial families displaying similar colonization underscoring the suitability of this technique to evaluate the influence of plant roots on rhizosphere bacterial communities. However, hairy root transformation had notable influence on Sphingomonads and Acidobacteria.

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“…crispata . Although the Rhizobiaceae and Enterobacteriaceae were only present in sample 8 and sample 3, respectively, these bacteria have also been implicated in nitrogen‐fixing (Bentzon‐Tilia, Severin, Hansen, & Riemann, 2015; Carareto Alves, de Souza, Varani, & Lemos, 2014; Chen et al, 2016).…”

Section: Discussionmentioning

confidence: 99%

Bacterial diversity in theclarkiecotype of the photosynthetic sacoglossan,Elysia crispata

Mahadevan

Middlebrooks

2020

MicrobiologyOpen

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Few studies have examined the bacterial communities associated with photosynthetic sacoglossan sea slugs. In this study, we determined the bacterial diversity in the clarki ecotype, Elysia crispata using 16S rRNA sequencing. Computational analysis using QIIME2 revealed variability between individual samples, with the Spirochaetes and Bacteroidetes phyla dominating most samples. Tenericutes and Proteobacteria were also found, among other phyla. Computational metabolic profiling of the bacteria revealed a variety of metabolic pathways involving carbohydrate metabolism, lipid metabolism, nucleotide metabolism, and amino acid metabolism. Although associated bacteria may be involved in mutually beneficial metabolic pathways, there was a high degree of variation in the bacterial community of individual slugs. This suggests that many of these relationships are likely opportunistic rather than obligate and that many of these bacteria may live commensally providing no major benefit to the slugs.

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The Family Rhizobiaceae

Cited by 52 publications

References 143 publications

Biotic Interactions Are More Important than Propagule Pressure in Microbial Community Invasions

Biotic Interactions Are More Important than Propagule Pressure in Microbial Community Invasions

Root isoflavonoids and hairy root transformation influence key bacterial taxa in the soybean rhizosphere

Bacterial diversity in theclarkiecotype of the photosynthetic sacoglossan,Elysia crispata

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