Response of syntrophic bacterial and methanogenic archaeal communities in paddy soil to soil type and phenological period of rice growth

Pan, Xiaofang; Li, Hu; Zhao, Lixin; Yang, Xiao-Ru; Su, Jian‐Qiang; Dai, Shaoqing; Ning, Jing; Li, Chunxing; Cai, Guanjing; Zhu, Guijie

doi:10.1016/j.jclepro.2020.123418

Cited by 11 publications

(5 citation statements)

References 59 publications

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“…RDA showed that moisture, pH, and TP were the major controlling factors at phylum level, and

-N and multi-electron acceptors had significant effects at genus level ( Figures 5A , B ). Similarly, previous studies found that pH and moisture had crucial effects on the microbial community (Banning et al, 2011 ; Pan et al, 2021 ), and nutrients also could alter microbial composition (Francioli et al, 2018 ). Thus, moisture, pH, and TP had crucial effects in shaping microbial community under phylum- and genus-levels.…”

Section: Resultsmentioning

confidence: 54%

Deep groundwater irrigation altered microbial community and increased anammox and methane oxidation in paddy wetlands of Sanjiang Plain, China

Li,

Song,

Qiu

et al. 2024

Front. Microbiol.

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The over-utilizing of nitrogen fertilizers in paddy wetlands potentially threatens to the surrounding waterbody, and a deep understanding of the community and function of microorganisms is crucial for paddy non-point source pollution control. In this study, top soil samples (0–15 cm) of paddy wetlands under groundwater's irrigation at different depths (H1: 6.8 m, H2: 13.7 m, H3: 14.8 m, H4: 15.6 m, H5: 17.0 m, and H6: 17.8 m) were collected to investigate microbial community and function differences and their interrelation with soil properties. Results suggested some soil factor differences for groundwater's irrigation at different depths. Deep-groundwater's irrigation (H2-H6) was beneficial to the accumulation of various electron acceptors. Nitrifying-bacteria Ellin6067 had high abundance under deep groundwater irrigation, which was consistent with its diverse metabolic capacity. Meanwhile, denitrifying bacteria had diverse distribution patterns. Iron-reducing bacteria Geobacter was abundant in H1, and Anaeromyxobacter was abundant under deep groundwater irrigation; both species could participate in Fe-anammox. Furthermore, Geobacter could perform dissimilatory nitrate reduction to ammonia using divalent iron and provide substrate supply for anammox. Intrasporangium and norank_f_Gemmatimonadacea had good chromium- and vanadium-reducting potentials and could promote the occurrence of anammox. Low abundances of methanotrophs Methylocystis and norank_f_Methyloligellaceae were associated with the relatively anoxic environment of paddy wetlands, and the presence of aerobic methane oxidation was favorable for in-situ methane abatement. Moisture, pH, and TP had crucial effects on microbial community under phylum- and genus-levels. Microorganisms under shallow groundwater irrigation were highly sensitive to environmental changes, and Fe-anammox, nitrification, and methane oxidation were favorable under deep groundwater irrigation. This study highlights the importance of comprehensively revealing the microbial community and function of paddy wetlands under groundwater's irrigation and reveals the underlying function of indigenous microorganisms in agricultural non-point pollution control and greenhouse gas abatement.

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“…RDA showed that moisture, pH, and TP were the major controlling factors at phylum level, and

Section: Resultsmentioning

confidence: 54%

Deep groundwater irrigation altered microbial community and increased anammox and methane oxidation in paddy wetlands of Sanjiang Plain, China

Li,

Song,

Qiu

et al. 2024

Front. Microbiol.

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“…The Proteobacteria abundance under all the other treatments decreased compared with the control treatment. This could be a result of how soil pH influences nutrient (small molecules, P, and N) solubilization, which in turn influences the development of microbes [40]. Relative to the control, the Bacillaceae abundance in soil substantially differed under M and BM treatments.…”

Section: Discussionmentioning

confidence: 99%

Biochar Loaded with a Bacterial Strain N33 Facilitates Pecan Seedling Growth and Shapes Rhizosphere Microbial Community

Jiang,

Li,

Peng

et al. 2024

Plants

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Biochar and beneficial microorganisms have been widely used in ecological agriculture. However, the impact of biochar loaded with microbes (BM) on plant growth remains to be understood. In this study, BM was produced by incubating pecan biochar with the bacterial strain N33, and the effects of BM on pecan growth and the microbial community in the rhizosphere were explored. BM application significantly enhanced the biomass and height of pecan plants. Meanwhile, BM treatment improved nutrient uptake in plants and significantly increased the chlorophyll, soluble sugars, and soluble proteins of plants. Furthermore, BM treatment improved the soil texture and environment. Finally, BM application substantially enhanced the diversity of soil fungi and bacteria as well as the relative abundances of the phyla Firmicutes and Chloroflexi, and families Bacillaceae and Paenibacillaceae, as shown by high-throughput sequencing. Together, this study clarified the growth-promotive effects of BM on pecan plants and suggested an alternative to synthetic fertilizers in their production.

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“…2) in the intracellular propionate degradation pathways of SPOB, and how Candidatus SPOB (such as Cloacimonetes) conduct the energetically unfavorable oxidation of succinate to fumarate. Continuing research relating to the possible division of labor to amino acid biosynthesis and amino acid or fructose exchange between syntrophic interacting strains , promotion of syntrophic propionate oxidation by intermediates such as succinate (Pan et al 2021), and potential flagellum-mediated syntrophic interaction is highly important in this regard. Communications by exchanging quorum-sensing molecules and connections via membranederived nanotubes have been demonstrated in anaerobic cultures that interact nutritionally in tight cell-cell interactions (Pande et al 2015;Ranava et al 2021).…”

Section: Discussionmentioning

confidence: 99%

“…Propionate oxidation can occur at a broad range of pH values (Table S8, Supporting Information). For instance, in acidic fens and upflow anaerobic sludge beds, methane formation from propionate has been reported at pH levels as low as 4.5 (Schmidt et al 2016;Zhang et al 2016), while in rice field soil presence of known SPOB and methane formation have been reported at pH 5.0 (Pan et al 2021). However, at these low pH values syntrophic propionate oxidation and methane formation are generally quite low, due to restricted activity of many methanogens and acetogens.…”

Section: Phmentioning

confidence: 99%

“…In the rhizosphere and bulk soil of a rice field, it has been demonstrated that syntrophic acetate-oxidizing bacteria, methanogens, and also SPOB increase in abundance during rice growth, with soil moisture, carbon/nitrogen ratio, oxalate and succinate indicated to be the factors shaping the structure and diversity of syntrophic propionate-degrading communities (Pan et al 2021). The threshold for commencement of syntrophic propionate oxidation remains to be elucidated, but in peat soil propionate degradation is reported to start at levels as low as 0.3 mM in a community including Syntrophobacter and Smithella (Schmidt et al 2016).…”

Section: Propionate Threshold and Dilution Ratementioning

confidence: 99%

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Syntrophic propionate-oxidizing bacteria in methanogenic systems

Westerholm

Całusińska

Dolfing

2021

FEMS Microbiology Reviews

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The mutual nutritional cooperation underpinning syntrophic propionate degradation provides a scant amount of energy for the microorganisms involved, so propionate degradation often acts as a bottleneck in methanogenic systems. Understanding the ecology, physiology, and metabolic capacities of syntrophic propionate-oxidizing bacteria is of interest in both engineered and natural ecosystems, as it offers prospects to guide further development of technologies for biogas production and biomass-derived chemicals, and is important in forecasting contributions by biogenic methane emissions to climate change. Syntrophic propionate-oxidizing bacteria are distributed across different phyla. They can exhibit broad metabolic capabilities in addition to syntrophy (e.g. fermentative, sulfidogenic, and acetogenic metabolism) and demonstrate variations in interplay with cooperating partners, indicating nuances in their syntrophic lifestyle. In this review, we discuss distinctions in gene repertoire and organization for the methylmalonyl-CoA pathway, hydrogenases and formate dehydrogenases, and emerging facets of (formate/hydrogen/direct) electron transfer mechanisms. We also use information from cultivations, thermodynamic calculations, and omic analyses as the basis for identifying environmental conditions governing propionate oxidation in various ecosystems. Overall, this review improves basic and applied understanding of syntrophic propionate-oxidizing bacteria and highlights knowledge gaps, hopefully encouraging future research and engineering on propionate metabolism in biotechnological processes.

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Response of syntrophic bacterial and methanogenic archaeal communities in paddy soil to soil type and phenological period of rice growth

Cited by 11 publications

References 59 publications

Deep groundwater irrigation altered microbial community and increased anammox and methane oxidation in paddy wetlands of Sanjiang Plain, China

Deep groundwater irrigation altered microbial community and increased anammox and methane oxidation in paddy wetlands of Sanjiang Plain, China

Biochar Loaded with a Bacterial Strain N33 Facilitates Pecan Seedling Growth and Shapes Rhizosphere Microbial Community

Syntrophic propionate-oxidizing bacteria in methanogenic systems

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