Archaeal community diversity and abundance changes along a natural salinity gradient in estuarine sediments

Webster, Gordon; O’Sullivan, Louise A.; Meng, Yiyu; Williams, Angharad S.; Saß, Andrea; Watkins, Andrew J.; Parkes, Ronald John; Weightman, Andrew J.

doi:10.1093/femsec/fiu025

Cited by 88 publications

(73 citation statements)

References 109 publications

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“…Methanosarcinales and Methanomicrobiales were the most abundant Euryarchaeota groups in freshwater sediments, and both methanogenic and methanotrophic phylotypes (ANME-2a, 2b) were included [15]. The dominance of Methanomicrobiales and Methanosarcinales in sedimental archaea community of this study was not a single event, and similar results have also been reported in other freshwater lakes, such as Lake Biwa [41], Lake Soyang [42], and Lake Dagow [43].…”

Section: Discussionsupporting

confidence: 83%

“…Archaea community is less influenced by environmental factors compared with bacteria [13]; several parameters are found to affect the distribution of archaea in lake sediments. The salinity played an important role in controlling diversity and distribution of archaea in estuarine sediments [14, 15], particle sizes and water O 2 saturation also shaped the sediment archaea distribution [16]. However, subject to the poor culturability and limited isolates of archaea members, the taxonomy was obscured in many previous studies.…”

Section: Introductionmentioning

confidence: 99%

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The Distribution Pattern of Sediment Archaea Community of the Poyang Lake, the Largest Freshwater Lake in China

Liu

Kong

et al. 2016

Archaea

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Archaea plays an important role in the global geobiochemical circulation of various environments. However, much less is known about the ecological role of archaea in freshwater lake sediments. Thus, investigating the structure and diversity of archaea community is vital to understand the metabolic processes in freshwater lake ecosystems. In this study, sediment physicochemical properties were combined with the results from 16S rRNA clone library-sequencing to examine the sediment archaea diversity and the environmental factors driving the sediment archaea community structures. Seven sites were chosen from Poyang Lake, including two sites from the main lake body and five sites from the inflow river estuaries. Our results revealed high diverse archaea community in the sediment of Poyang Lake, including Bathyarchaeota (45.5%), Euryarchaeota (43.1%), Woesearchaeota (3.6%), Pacearchaeota (1.7%), Thaumarchaeota (1.4%), suspended Lokiarchaeota (0.7%), Aigarchaeota (0.2%), and Unclassified Archaea (3.8%). The archaea community compositions differed among sites, and sediment property had considerable influence on archaea community structures and distribution, especially total organic carbon (TOC) and metal lead (Pb) (p < 0.05). This study provides primary profile of sediment archaea distribution in freshwater lakes and helps to deepen our understanding of lake sediment microbes.

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Section: Discussionsupporting

confidence: 83%

Section: Introductionmentioning

confidence: 99%

The Distribution Pattern of Sediment Archaea Community of the Poyang Lake, the Largest Freshwater Lake in China

Liu

Kong

et al. 2016

Archaea

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“…Our observations are consistent with reports showing predominance of the same taxa of bacteria in large brackish environments (Riemann et al, 2008), in estuaries and coastal saline gradients (Campbell et al, 2011;Herlemann et al, 2011;Fortunato et al, 2012;Fortunato and Crump, 2015), and in polar surface waters (Zeng et al, 2009;Teske et al, 2011;Prasad et al, 2014;Signori et al, 2014;Piquet et al, 2015) and Patagonian glacial fjords (Gutiérrez et al, 2015). For archaeal OTUs, predominance of members of the phylum Thaumarchaeota (including Marine group I Archaea) is consistent with this group being a major contributor to microbial diversity in estuarine waters and sediments (Webster et al, 2015;Xia et al, 2015), in polar waters (Bano et al, 2004;Galand et al, 2008Galand et al, , 2009a, in sea ice (Collins et al, 2010;Cowie et al, 2011) and in fjord environments (Zaikova et al, 2010;Gutiérrez et al, 2015). Regarding Thermoplasmata, most sequences were affiliated to the uncultured Marine group II, which represents a significant fraction of the archaeal community in estuarine waters (Xia et al, 2015) and coastal waters of the Arctic Ocean (Galand et al, 2008(Galand et al, , 2009a, but in fjords appear to be poorly represented (Zaikova et al, 2010).…”

Section: Community Composition Of Prokaryotes In Water Masses Of Puyusupporting

confidence: 92%

Linking Seasonal Reduction of Microbial Diversity to Increase in Winter Temperature of Waters of a Chilean Patagonia Fjord

et al. 2018

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Since microorganisms play a major role in the biogeochemistry of the ocean, understanding structure and dynamics of natural microbial communities is crucial in assessing the impact of environmental changes on marine ecosystems. In order to identify key environmental drivers of microbial community structure in Chilean Patagonian fjords, we analyzed composition of the prokaryotic community over an annual cycle at a single sampling site in Puyuhuapi Fjord. Distinctive communities represented mainly by Actinomycetales, Rhodobacteraceae, Cryomorphaceae, and Flavobacteriaceae were associated with Estuarine Fresh Waters, whereas Cenarchaeaceae and Oceanospirillales were representative of Modified Sub Antarctic Waters present in the fjord. Salinity and oxygen were first-order factors explaining segregation of microbial communities in these contrasting water masses. Positive correlations of members of Flavobacteriaceae, Alteromonadales, and Verrucomicrobiales with diatoms in subsurface waters and of Flavobacteriales (Cryomorphaceae and Flavobacteriaceae), Rhodobacteraceae, and Pelagibacteraceae with dinoflagellates in surface waters suggest that phytoplankton composition could define specific niches for microorganisms in Puyuhuapi fjord waters. A dramatic reduction of richness and individual abundances within Flavobacteriaceae, Rhodobacteraceae, and Cenarchaeaceae families was principally explained by seasonal increase of surface water temperature, with major reduction associated with changes in temperature during winter conditions. Taxa that are sensitive to increased temperature are key components of organic matter and element cycling, and we therefore suggest that potential decrease in diversity associated with rising of surface water temperature could impact current biogeochemical status of Patagonian fjord ecosystems.

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“…The archaeal abundance of wet samples was comparable with the reported abundances in similar habitats like pond sediments (Brandt et al 2014), rich fen (Petersen et al 2012), and estuarine sediments (Webster et al 2015). By contrast, those of the dry samples (1.4 × 10 8 to 2.4 × 10 9 copies (g d.w.s.)…”

Section: Increase Of Archaeal Abundance After Water Floodingsupporting

confidence: 78%

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

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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.

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Archaeal community diversity and abundance changes along a natural salinity gradient in estuarine sediments

Cited by 88 publications

References 109 publications

The Distribution Pattern of Sediment Archaea Community of the Poyang Lake, the Largest Freshwater Lake in China

The Distribution Pattern of Sediment Archaea Community of the Poyang Lake, the Largest Freshwater Lake in China

Linking Seasonal Reduction of Microbial Diversity to Increase in Winter Temperature of Waters of a Chilean Patagonia Fjord

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

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