Microbial Diversity in Hummock and Hollow Soils of Three Wetlands on the Qinghai-Tibetan Plateau Revealed by 16S rRNA Pyrosequencing

Deng, Yangfan; Cui, Xiaoyong; Hernández, Marcela; Dumont, Marc G.

doi:10.1371/journal.pone.0103115

Cited by 58 publications

(36 citation statements)

References 43 publications

Supporting

Mentioning

Contrasting

Order By: Relevance

“…5). The distribution of methanogens along the elevation gradients was in agreement with their strict anaerobic metabolism (Deng et al 2014b), which was also identified by the RDA (Fig. 6).…”

Section: Archaeal Community Composition Along the Elevationsupporting

confidence: 83%

Shifts of archaeal community structure in soil along an elevation gradient in a reservoir water level fluctuation zone

Jiang

et al. 2016

J Soils Sediments

View full text Add to dashboard Cite

Purpose Although archaea play an important role in nutrients cycling, the archaeal community in a reservoir water-level fluctuation zone (WLFZ) remains unclear. An elucidation of archaeal community responding to the environmental variables is essential to understand the nutrients dynamics in WLFZ. This study focused on the response of the archaeal community structure and abundance to the periodic water flooding along an elevation gradient in the WLFZ of the Three Gorges Reservoir. Materials and methods Along the elevation gradient (152-175 m) of the study area, soil samples in the beginning and late stages of water flooding were collected to investigate the influence of water flooding on the archaeal community in soil, using quantitative PCR and Illumina high-throughput sequencing approaches.Results and discussion An increase of archaeal abundance from 3.8 × 10 8 to 3.8 × 10 9 copies (g d.w.s) −1 on average was observed after water flooding. The archaeal abundance was positively correlated with the contents of ammonium, organic matter, and moisture in soil and with the accumulated flooding time. Higher diversity was observed in dry samples (non-flooded soil samples) rather than wet samples (flooded soil samples). The Thaumarchaeota were predominant in most of the dry samples. Interestingly, high proportions of Candidatus Nitrososphaera were observed in the transition zone, while euryarchaeotal methanogens dominated the wet samples. The proportion of methanogens decreased dramatically in the dry samples at higher elevations, which was associated with the decrease of the moisture content and the probably increase of available oxygen in soil.Conclusions Archaeal abundance, diversity, and community composition shifted along an elevation gradient and were influenced by water flooding. The increased archaea abundance after water flooding and elevation related community composition and diversity indicated that water flooding was a key dynamic environmental variable in the WLFZ.

show abstract

Section: Archaeal Community Composition Along the Elevationsupporting

confidence: 83%

Shifts of archaeal community structure in soil along an elevation gradient in a reservoir water level fluctuation zone

Jiang

et al. 2016

J Soils Sediments

View full text Add to dashboard Cite

show abstract

“…There was much lower SOC content in the hollow (7.3 ± 2.2%) than that in the hummock (13.4 ± 0.7%) terrain [Deng et al, 2014].…”

Section: à2mentioning

confidence: 81%

“…Furthermore, the difference in SOC levels between the swamp and swamp meadow (substrate for CH 4 formation) should have fundamentally affected CH 4 emissions; there was a much higher SOC content in the swamp site (18.1 ± 0.4%) compared with the swamp meadow site (9.3 ± 0.6%) in this study. The much higher SOC in a Haibei wetland (~24.5%) [Yu et al, 2013] and Zoige wetland (33.1À39.0%) [Deng et al, 2014], created by higher carbon accumulation under strictly anaerobic conditions [Chen et al, 2014], also largely explains their higher CH 4 emissions (Table 1). Finally, the higher plant biomass in the swamp (565.9 ± 40.6 g m…”

Section: 1002/2015jg002974mentioning

confidence: 99%

Revisiting the role of CH₄ emissions from alpine wetlands on the Tibetan Plateau: Evidence from two in situ measurements at 4758 and 4320 m above sea level

et al. 2015

View full text Add to dashboard Cite

The alpine wetlands on the Tibetan Plateau (TP) constitute 30% of China's wetlands, and previous studies have considered these wetlands to be important sources of CH 4 , based on several swamp measurements from the eastern edges of the plateau. However, the alpine wetlands consist of both swamps (9.5%) and swamp meadows (79.8%). In this study, the CH 4 fluxes of a swamp meadow and a swamp were determined. The results showed that the swamp meadow emitted much less CH 4 (130.8 ± 123.9 μg). The CH 4 fluxes within the swamp meadow showed distinct microscale spatial heterogeneity: the hollow terrain released CH 4 , while the hummocks absorbed CH 4 ; this pattern was explained well by soil moisture. The CH 4 emissions in the swamp meadow were highly sensitive to soil temperature variation (Q 10 = 3.62), while they were more sensitive to soil moisture in the swamp. By summarizing existing measurements, and considering the differences in CH 4 emissions from swamp meadows and swamps, the emissions of CH 4 from alpine wetlands across the TP were recalculated to range from 0.215 to 0.412 Tg CH 4 a À1 , lower than previous studies. By comparison, the CH 4 uptake by nonwetland ecosystems ranges from À0.68 to À0.53 Tg CH 4 a À1. Therefore, this study conveys a notion that the alpine wetlands on the TP may not be significant CH 4 sources. However, further studies are needed to reduce the uncertainty regarding CH 4 emissions.

show abstract

“…Overall, FPM harbored a complex microbiota, because the high Shannon index (5.61 to 6.96) detected in highquality FPMs (data not shown) was comparable to that (5 to 7) in some soils at a sequencing depth of 4,000 to 9,000 reads (32). Compared to about 16 phyla detected in FPMs in previous studies (7,8), 33 phyla detected in this work might expand our understanding of the phylogenetic status of an enormous number of uncultured microbes in this ecosystem.…”

Section: Discussionmentioning

confidence: 91%

Illuminating Anaerobic Microbial Community and Cooccurrence Patterns across a Quality Gradient in Chinese Liquor Fermentation Pit Muds

Ren

et al. 2016

Appl Environ Microbiol

150

139

View full text Add to dashboard Cite

Fermentation pit mud, an important reservoir of diverse anaerobic microorganisms, is essential for Chinese strong-aroma liquor production. Pit mud quality, according to its sensory characteristics, can be divided into three grades: degraded, normal, and high quality. However, the relationship between pit mud microbial community and pit mud quality is poorly understood, as are microbial associations within the pit mud ecosystem. Here, microbial communities at these grades were compared using Illumina MiSeq sequencing of the variable region V4 of the 16S rRNA gene. Our results revealed that the pit mud microbial community was correlated with its quality and environmental factors. Species richness, biodiversity, and relative and/or absolute abundances of Clostridia, Clostridium kluyveri, Bacteroidia, and Methanobacteria significantly increased, with corresponding increases in levels of pH, NH 4 ؉ , and available phosphorus, from degraded to high-quality pit muds, while levels of Lactobacillus, dissolved organic carbon, and lactate significantly decreased, with normal samples in between. Furthermore, 271 pairs of significant and robust correlations (cooccurrence and negative) were identified from 76 genera using network analysis. Thirteen hubs of cooccurrence patterns, mainly under the Clostridia, Bacteroidia, Methanobacteria, and Methanomicrobia, may play important roles in pit mud ecosystem stability, which may be destroyed with rapidly increased levels of lactic acid bacteria (Lactobacillus, Pediococcus, and Streptococcus). This study may help clarify the relationships among microbial community, environmental conditions, and pit mud quality, allow the improvement of pit mud quality by using bioaugmentation and controlling environmental factors, and shed more light on the ecological rules guiding community assembly in pit mud. Chinese strong-aroma liquor (CSAL), a traditional alcoholic beverage, accounts for Ͼ70% of both national liquor industry production (12 billion liters) and sales volume ($80 billion) (1, 2). Its production is a typical recycling process using solid-state fermentation. In brief, fermented grains obtained from the last fermentation round are mixed with crushed raw materials (sorghum, wheat, corn, rice, and sticky rice) for distillation to give CSAL (3). After cooling, the steamed mixture is supplied with a 10 to 20% (wt/wt) Daqu starter. Next, the above-mentioned mixture is placed into a fermentation vessel (underground cuboid soil pit, 2 m wide by 3 m long by 2 m deep), sealed, and anaerobically fermented for about 60 days at 28 to 32°C (2). The inside walls of the pit are covered with fermentation pit mud (FPM), which is prepared initially by incubating the mixture of clay, spent grain, bean cake powder, and fermentation bacteria (e.g., Clostridium spp.) (2). After fermentation, the fermented grains taken out of the pit are distilled to give liquor after new raw materials are supplied, and then the mixture is applied to the next round of fermentation, as described above. It is widely believe...

show abstract

Microbial Diversity in Hummock and Hollow Soils of Three Wetlands on the Qinghai-Tibetan Plateau Revealed by 16S rRNA Pyrosequencing

Cited by 58 publications

References 43 publications

Shifts of archaeal community structure in soil along an elevation gradient in a reservoir water level fluctuation zone

Shifts of archaeal community structure in soil along an elevation gradient in a reservoir water level fluctuation zone

Revisiting the role of CH₄ emissions from alpine wetlands on the Tibetan Plateau: Evidence from two in situ measurements at 4758 and 4320 m above sea level

Illuminating Anaerobic Microbial Community and Cooccurrence Patterns across a Quality Gradient in Chinese Liquor Fermentation Pit Muds

Contact Info

Product

Resources

About

Microbial Diversity in Hummock and Hollow Soils of Three Wetlands on the Qinghai-Tibetan Plateau Revealed by 16S rRNA Pyrosequencing

Cited by 58 publications

References 43 publications

Shifts of archaeal community structure in soil along an elevation gradient in a reservoir water level fluctuation zone

Shifts of archaeal community structure in soil along an elevation gradient in a reservoir water level fluctuation zone

Revisiting the role of CH4 emissions from alpine wetlands on the Tibetan Plateau: Evidence from two in situ measurements at 4758 and 4320 m above sea level

Illuminating Anaerobic Microbial Community and Cooccurrence Patterns across a Quality Gradient in Chinese Liquor Fermentation Pit Muds

Contact Info

Product

Resources

About

Revisiting the role of CH₄ emissions from alpine wetlands on the Tibetan Plateau: Evidence from two in situ measurements at 4758 and 4320 m above sea level