Ammonia-limited conditions cause of Thaumarchaeal dominance in volcanic grassland soil

Daebeler, Anne; Bodelier, Paul L. E.; Hefting, Mariet M.; Laanbroek, Hendrikus J.

doi:10.1093/femsec/fiv014

Cited by 16 publications

(9 citation statements)

References 37 publications

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“…The estimations of greater amoA diversity and OTU numbers in soils from the Burned area are consistent with the detection of a higher number of I.1b 16S rRNA thaumarchaeal sequences in the same condition, given that this group is extensively associated to ammonia oxidation in terrestrial habitats [58, 76, 77]. Moreover, lower ammonium concentrations were detected in soils from the biennially burned area, and considering that lower ammonium availability tends to favor AOA growth in soils [78, 79], this factor could have contributed to the higher amoA diversity found in this site.…”

Section: Discussionsupporting

confidence: 79%

Long-Term Effects of Periodical Fires on Archaeal Communities from Brazilian Cerrado Soils

Belmok

Rodrigues-Oliveira

Lopes

et al. 2019

Archaea

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The Cerrado biome corresponds to an extensive area of Brazil and is considered a biodiversity hotspot. Frequent fires are a natural feature in this biome and have influences on vegetation structure and composition. However, continuous anthropogenic actions are promoting changes in fire frequency and seasonality. Despite the high biodiversity of the Cerrado, little is known about its microbiome, with few publications describing some aspects of the bacterial and fungal communities found on this biome and almost no references about archaea. In this study, we describe the archaeal diversity in Cerrado sensu stricto soils, comparing the archaeal communities from soils of an area long protected from fires to one exposed to biennial fires, using both 16S rRNA and amoA genes as molecular markers. Almost all 16S rRNA sequences from both studied areas were affiliated with I.1b and 1.1c Thaumarchaeota, groups commonly detected in terrestrial environments. A higher relative abundance of I.1b thaumarchaeal subgroup was detected in the frequently burned area even though no statistically significant differences were observed in archaeal 16S rRNA richness and diversity between the investigated areas. Many ammonia-oxidizing archaea (AOA) are affiliated with this group, which is consistent with the higher amoA diversity and OTU numbers detected in the area periodically burned. Taken together, our results suggest that, although total archaeal community richness and diversity do not seem to greatly differ between the investigated conditions, alterations in wood cover and vegetation structure caused by frequent fires likely cause long-term effects in AOA diversity in Cerrado soils.

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Section: Discussionsupporting

confidence: 79%

Long-Term Effects of Periodical Fires on Archaeal Communities from Brazilian Cerrado Soils

Belmok

Rodrigues-Oliveira

Lopes

et al. 2019

Archaea

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“…The AOB gene was not observed in this study probably due to the ammonium limitation (Daebeler et al, 2015), so we only analyzed the abundance of AOA. Our result was consistent with the observed predominance of AOA over AOB under different fertilization treatments in various acidic soils (He et al, 2007;Saiful Alam et al, 2013).…”

Section: Effects Of Fertilization On the Microbial Respiration Rate Amentioning

confidence: 89%

Vegetable yields and soil biochemical properties as influenced by fertilization in Southern China

Gai

Liu

Zhai

et al. 2016

Applied Soil Ecology

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“…These findings suggested that it was AOB rather than AOA contributed largely to ammonia oxidization in the black soils when high ammonium available concentration in soil as previous studies described (Taylor et al, 2010 ; Carey et al, 2016 ; Ouyang et al, 2017 ). However, since the abundance of AOA was larger than that of AOB, and the correlation between PNR and relative abundances of different lineages of AOA and AOB varied greatly (Tables S3 , S5 ), thus more detailed experiments such as using different inhibitors (Amberger, 1989 ; Taylor et al, 2013 ; Daebeler et al, 2015 ) or DNA-SIP method (Jia and Conrad, 2009 ) should be conducted in the future to assess the relative contribution of AOA and AOB to ammonia oxidization in the black soils.…”

Section: Discussionmentioning

confidence: 99%

Ammonia-Oxidizing Archaea Show More Distinct Biogeographic Distribution Patterns than Ammonia-Oxidizing Bacteria across the Black Soil Zone of Northeast China

Liu

Yao

et al. 2018

Front. Microbiol.

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Black soils (Mollisols) of northeast China are highly productive and agriculturally important for food production. Ammonia-oxidizing microbes play an important role in N cycling in the black soils. However, the information related to the composition and distribution of ammonia-oxidizing microbes in the black soils has not yet been addressed. In this study, we used the amoA gene to quantify the abundance and community composition of ammonia-oxidizing archaea (AOA) and ammonia-oxidizing bacteria (AOB) across the black soil zone. The amoA abundance of AOA was remarkably larger than that of AOB, with ratios of AOA/AOB in the range from 3.1 to 91.0 across all soil samples. The abundance of AOA amoA was positively correlated with total soil C content (p < 0.001) but not with soil pH (p > 0.05). In contrast, the abundance of AOB amoA positively correlated with soil pH (p = 0.009) but not with total soil C. Alpha diversity of AOA did not correlate with any soil parameter, however, alpha diversity of AOB was affected by multiple soil factors, such as soil pH, total P, N, and C, available K content, and soil water content. Canonical correspondence analysis indicated that the AOA community was mainly affected by the sampling latitude, followed by soil pH, total P and C; while the AOB community was mainly determined by soil pH, as well as total P, C and N, water content, and sampling latitude, which highlighted that the AOA community was more geographically distributed in the black soil zone of northeast China than AOB community. In addition, the pairwise analyses showed that the potential nitrification rate (PNR) was not correlated with alpha diversity but weakly positively with the abundance of the AOA community (p = 0.048), whereas PNR significantly correlated positively with the richness (p = 0.003), diversity (p = 0.001) and abundance (p < 0.001) of the AOB community, which suggested that AOB community might make a greater contribution to nitrification than AOA community in the black soils when ammonium is readily available.

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Ammonia-limited conditions cause of Thaumarchaeal dominance in volcanic grassland soil

Cited by 16 publications

References 37 publications

Long-Term Effects of Periodical Fires on Archaeal Communities from Brazilian Cerrado Soils

Long-Term Effects of Periodical Fires on Archaeal Communities from Brazilian Cerrado Soils

Vegetable yields and soil biochemical properties as influenced by fertilization in Southern China

Ammonia-Oxidizing Archaea Show More Distinct Biogeographic Distribution Patterns than Ammonia-Oxidizing Bacteria across the Black Soil Zone of Northeast China

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