Reyranella terrae sp. nov., isolated from an agricultural soil, and emended description of the genus Reyranella

Lee, Hyosun; Kim, Donguk; Lee, Su-Yeon; Park, Sooyeon; Yoon, Jung‐Hoon; Seong, Chi Nam; Ka, Jong-Ok

doi:10.1099/ijsem.0.001913

Cited by 23 publications

(13 citation statements)

References 13 publications

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“…However, this pattern did not hold in PC2 and PC3, as CcrShv-favored OTUs were more abundant under no-till instead of chisel tillage. Considering that OTUs in PC2 and PC3 were either aerobic or facultatively anaerobic [70,71,75,80,88], the CT-favored OTUs in these PCs might have been responding positively to the soil aeration from tillage. The two Ktedonobacteria OTUs that responded positively to no-till somewhat contradicted a past report, where this class increased with conventional tillage over reduced tillage [89].…”

Section: Discussionmentioning

confidence: 99%

Microbial Shifts Following Five Years of Cover Cropping and Tillage Practices in Fertile Agroecosystems

et al. 2020

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Metagenomics in agricultural research allows for searching for bioindicators of soil health to characterize changes caused by management practices. Cover cropping (CC) improves soil health by mitigating nutrient losses, yet the benefits depend on the tillage system used. Field studies searching for indicator taxa within these systems are scarce and narrow in their scope. Our goal was to identify bioindicators of soil health from microbes that were responsive to CC (three levels) and tillage (chisel tillage, no-till) treatments after five years under field conditions. We used rRNA gene-based analysis via Illumina HiSeq2500 technology with QIIME 2.0 processing to characterize the microbial communities. Our results indicated that CC and tillage differentially changed the relative abundances (RAs) of the copiotrophic and oligotrophic guilds. Corn–soybean rotations with legume–grass CC increased the RA of copiotrophic decomposers more than rotations with grass CC, whereas rotations with only bare fallows favored stress-tolerant oligotrophs, including nitrifiers and denitrifiers. Unlike bacteria, fewer indicator fungi and archaea were detected; fungi were poorly identified, and their responses were inconsistent, while the archaea RA increased under bare fallow treatments. This is primary information that allows for understanding the potential for managing the soil community compositions using cover crops to reduce nutrient losses to the environment.

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Section: Discussionmentioning

confidence: 99%

Microbial Shifts Following Five Years of Cover Cropping and Tillage Practices in Fertile Agroecosystems

et al. 2020

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“…The Reyranellaceae also show a considerable increase in relative abundance on media containing antibiotics. This is a poorly-cultured family with only five characterized species, which commonly require 2-7 days to grow sufficiently for analysis (Pagnier et al, 2011;Cui et al, 2017;Lee et al, 2017). Among the Actinobacteria, media containing antibiotics showed higher abundances of the Nocardiaceae and Promicromonosporaceae, both of which have been shown to benefit from targeted isolation strategies that limit the growth of other bacteria (Tiwari & Gupta, 2012).…”

Section: Discussionmentioning

confidence: 99%

The impact of sample processing and media chemistry on the culturable diversity of bacteria isolated from a cave

Bender¹,

Glover²,

Archey³

et al. 2020

IJS

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Although molecular approaches can identify members of microbial communities in the environment, genomic information does not necessarily correlate with environmental phenotype. Understanding functional roles can be done by cultivating representative species, yet the culturablility of bacteria from caves remains low, at 0.02%, limiting our understanding of microbial community interactions and processes. We have investigated several factors influencing culturability of bacteria from a single sample location in Maxwelton Sink Cave, WV, USA. Extended incubation of inoculated plates showed a significant increase in colony counts from two to four weeks, indicating that extended incubations increase culturability. There were no significant differences in plate counts or diversity measures when the sample was suspended in different buffers prior to cultivation, while samples plated immediately after collection demonstrated higher culturability. Although supplementing the media with antibiotics reduced colony counts and cultured diversity, these plates did appear to contain a higher proportion of slow-growing oligotrophs. Finally, among a selection of culture media used, pyruvate agar showed the highest culturability and bacterial diversity, which may be a result of the oxygen radical scavenging effects of pyruvate. By identifying methods that improve culturable diversity, we hope to further understand the roles played by bacteria in cave communities, and test hypotheses that are best assessed using culture-based methods, such as screening for bioactive compounds or confirming in situ metabolic strategies.

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“…3). The minority of OTUs that decreased with increasing pH include Acidocella (Acetobacteriaceae) and Reyranella (Reyranellaceae, formerly Rhodospirillaceae 72,73 ). An uncultured Acetobacteriaceae OTU exhibits the opposite pattern from its confamilial Acidocella.…”

Section: Influence Of Pitcher Fluid Traits On Individual Otus Fluid Phmentioning

confidence: 99%

Tropical pitcher plants (Nepenthes) act as ecological filters by altering properties of their fluid microenvironments

Gilbert

Bittleston

Tong

et al. 2020

Sci Rep

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Characteristics of host species can alter how other, interacting species assemble into communities by acting as ecological filters. Pitchers of tropical pitcher plants (Nepenthes) host diverse communities of aquatic arthropods and microbes in nature. This plant genus exhibits considerable interspecific diversity in morphology and physiology; for example, different species can actively control the pH of their pitcher fluids and some species produce viscoelastic fluids. Our study investigated the extent to which Nepenthes species differentially regulate pitcher fluid traits under common garden conditions, and the effects that these trait differences had on their associated communities. Sixteen species of Nepenthes were reared together in the controlled environment of a glasshouse using commonly-sourced pH 6.5 water. We analyzed their bacterial and eukaryotic communities using metabarcoding techniques, and found that different plant species differentially altered fluid pH, viscosity, and color, and these had strong effects on the community structure of their microbiota. Nepenthes species can therefore act as ecological filters, cultivating distinctive microbial communities despite similar external conditions, and blurring the conceptual line between biotic and abiotic filters.

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Reyranella terrae sp. nov., isolated from an agricultural soil, and emended description of the genus Reyranella

Cited by 23 publications

References 13 publications

Microbial Shifts Following Five Years of Cover Cropping and Tillage Practices in Fertile Agroecosystems

Microbial Shifts Following Five Years of Cover Cropping and Tillage Practices in Fertile Agroecosystems

The impact of sample processing and media chemistry on the culturable diversity of bacteria isolated from a cave

Tropical pitcher plants (Nepenthes) act as ecological filters by altering properties of their fluid microenvironments

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