Comparison of the diversity of sulfate-reducing bacterial communities in the water column and the surface sediments of a Japanese meromictic lake

Abstract. The branched vs. isoprenoid index of tetraethers (BIT index) in Lake Challa sediments has been applied as a monsoon precipitation proxy on the assumption that the primary source of branched tetraether lipids (brGDGTs) was soil washed in from the lake's catchment. However, water column production has since been identified as the primary source of brGDGTs in Lake Challa, meaning that there is no longer a clear mechanism linking BIT index variation and precipitation. Here we investigate BIT index variation and GDGT concentrations at a decadal resolution over the past 2200 years, in combination with GDGT data from profundal surface sediments and 45 months of sediment-trap deployment. The 2200 year record reveals high-frequency variability in GDGT concentrations, and therefore the BIT index. Also surface sediments collected in January 2010 show a distinct shift in GDGT composition relative to those collected in August 2007. Increased bulk flux of settling particles with high Ti / Al ratios during March–April 2008 reflect an event of high detrital input to Lake Challa, concurrent with intense precipitation at the onset of the principal rain season that year. Although brGDGT distributions in the settling material are initially unaffected, this soil erosion event is succeeded by a large diatom bloom in July–August 2008 and a concurrent increase in GDGT-0 fluxes. Near-zero crenarchaeol fluxes indicate that no thaumarchaeotal bloom developed during the subsequent austral summer season; instead a peak in brGDGT fluxes is observed in December 2008. We suggest that increased nutrient availability, derived from eroded soil washed into the lake, stimulated both diatom productivity and the GDGT-0 producing archaea which help decompose dead diatoms passing through the suboxic zone of the water column. This disadvantaged the Thaumarchaeota that normally prosper during the following austral summer. Instead, a bloom of supposedly heterotrophic brGDGT-producing bacteria occurred. Episodic recurrence of such high soil-erosion events, integrated over multi-decadal and longer timescales and possibly enhanced by other mechanisms generating low BIT index values in dry years, can explain the positive relationship between the sedimentary BIT index and monsoon precipitation at Lake Challa. However, application elsewhere requires ascertaining the local situation of lacustrine brGDGT production and of variables affecting the productivity of Thaumarchaeota.

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Active Anaerobic Archaeal Methanotrophs in Recently Emerged Cold Seeps of Northern South China Sea

Frontiers in Microbiology ◽

10.3389/fmicb.2020.612135 ◽

2020 ◽

Vol 11 ◽

Author(s):

Tingting Zhang ◽

Xi Xiao ◽

Songze Chen ◽

Jing Zhao ◽

Zongheng Chen ◽

...

Keyword(s):

Community Structure ◽

South China Sea ◽

Bacterial Communities ◽

Northern South China Sea ◽

Sulfate Reducing Bacteria ◽

Cold Seep ◽

Cold Seeps ◽

Sulfate Reducing ◽

Reducing Bacteria ◽

Rna And Dna

Cold seep ecosystems are developed from methane-rich fluids in organic rich continental slopes, which are the source of various dense microbial and faunal populations. Extensive studies have been conducted on microbial populations in this unique environment; most of them were based on DNA, which could not resolve the activity of extant organisms. In this study, RNA and DNA analyses were performed to evaluate the active archaeal and bacterial communities and their network correlations, particularly those participating in the methane cycle at three sites of newly developed cold seeps in the northern South China Sea (nSCS). The results showed that both archaeal and bacterial communities were significantly different at the RNA and DNA levels, revealing a higher abundance of methane-metabolizing archaea and sulfate-reducing bacteria in RNA sequencing libraries. Site ROV07-01, which exhibited extensive accumulation of deceased Calyptogena clam shells, was highly developed, and showed diverse and active anaerobic archaeal methanotrophs (ANME)-2a/b and sulfate-reducing bacteria from RNA libraries. Site ROV07-02, located near carbonate crusts with few clam shell debris, appeared to be poorly developed, less anaerobic and less active. Site ROV05-02, colonized by living Calyptogena clams, could likely be intermediary between ROV07-01 and ROV07-02, showing abundant ANME-2dI and sulfate-reducing bacteria in RNA libraries. The high-proportions of ANME-2dI, with respect to ANME-2dII in the site ROV07-01 was the first report from nSCS, which could be associated with recently developed cold seeps. Both ANME-2dI and ANME-2a/b showed close networked relationships with sulfate-reducing bacteria; however, they were not associated with the same microbial operational taxonomic units (OTUs). Based on the geochemical gradients and the megafaunal settlements as well as the niche specificities and syntrophic relationships, ANMEs appeared to change in community structure with the evolution of cold seeps, which may be associated with the heterogeneity of their geochemical processes. This study enriched our understanding of more active sulfate-dependent anaerobic oxidation of methane (AOM) in poorly developed and active cold seep sediments by contrasting DNA- and RNA-derived community structure and activity indicators.

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Comparative analysis of the total and active bacterial communities in the surface sediment of Lake Taihu

FEMS Microbiology Ecology ◽

10.1093/femsec/fiaa059 ◽

2020 ◽

Vol 96 (5) ◽

Author(s):

Tong-tong Liu ◽

Hong Yang

Keyword(s):

Bacterial Community ◽

Surface Sediment ◽

Bacterial Communities ◽

Surface Sediments ◽

Lake Taihu ◽

Dynamic Changes ◽

Dna And Rna ◽

Close Relationship ◽

Total Bacterial Community ◽

Quantitative Results

ABSTRACT Bacterial communities play crucial roles in the biogeochemical cycle of the surface sediments of freshwater lakes, but previous studies on bacterial community changes in this habitat have mostly been based on the total bacterial community (DNA level), while an exploration of the active microbiota at the RNA level has been lacking. Herein, we analysed the bacterial communities in the surface sediments of Lake Taihu at the DNA and RNA levels. Using MiSeq sequencing and real-time quantification, we found that the sequencing and quantitative results obtained at the RNA level compared with the DNA level were more accurate in responding to the spatiotemporal dynamic changes of the bacterial community. Although both sequencing methods indicated that Proteobacteria, Chloroflexi, Acidobacteria, Nitrospirae, Bacteroidetes and Actinobacteria were the dominant phyla, the co-occurrence network at the RNA level could better reflect the close relationship between microorganisms in the surface sediment. Additionally, further analysis showed that Prochlorococcus and Microcystis were the most relevant and dominant genera of Cyanobacteria in the total and active bacterial communities, respectively; our results also demonstrated that the analysis of Cyanobacteria-related groups at the RNA level was more ‘informative’.

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Seasonal and interannual variability of sedimentation and organic matter distribution in the Buor-Khaya Gulf: the primary recipient of input from Lena River and coastal erosion in the southeast Laptev Sea

Biogeosciences ◽

10.5194/bg-8-2581-2011 ◽

2011 ◽

Vol 8 (9) ◽

pp. 2581-2594 ◽

Cited By ~ 57

Author(s):

A. N. Charkin ◽

O. V. Dudarev ◽

I. P. Semiletov ◽

A. V. Kruhmalev ◽

J. E. Vonk ◽

...

Keyword(s):

Organic Carbon ◽

Water Column ◽

Surface Sediments ◽

Organic Carbon Content ◽

Lena River ◽

Siberian Arctic ◽

Sedimentation Regime ◽

Ice Complex

Abstract. Climate warming is amplified in the land-sea system of the East Siberian Arctic, which also holds large pools of vulnerable carbon in permafrost. This coastal area is strongly influenced by sediment and carbon transport from both its large rivers and extensive erosion of Pleistocene permafrost along its coastline. This study is investigating the coastal fate of the sediment and organic carbon delivered to the Buor-Khaya Gulf, which is the first recipient of the overwhelming fluvial discharge from the Lena River and is additionally receiving large input from extensive erosion of the coastal ice-complex (permafrost a.k.a. Yedoma; loess soil with high organic carbon content). Both water column suspended particulate matter (SPM) and surface sediments were sampled at about 250 oceanographic stations in the Gulf in this multi-year effort, including one winter campaign, and analyzed for the distribution and sorting of sediment size, organic carbon content, and stable carbon isotope signals. The composition of the surface sediment suggests an overwhelmingly terrestrial contribution from both river and coastal erosion. The objective of this paper is to improve our understanding of the seasonal (i.e., winter vs summer) and interannual variability of these coastal sedimentation processes and the dynamics of organic carbon (OC) distribution in both the water column SPM and the surface sediments of the Buor-Khaya Gulf. Based on data collected during several years in the period 2000–2008, two different sedimentation regimes were revealed for the Buor-Khaya Gulf, the relative importance of each at a given time depend on hydrometeorological conditions, the Lena River water discharge and sea-ice regime: Type 1 erosion-accumulation and Type 2 accumulation. The Type 1 erosion-accumulation sedimentation regime is typical (2000–2006) for the ice-free period of the year (here considered in detail for August 2005). Under such conditions terrigenous sources of SPM and particulate organic carbon (POC) stem predominantly from river discharge, thermal erosion of coastal ice-complex and remobilized bottom sediments. The Type 2 accumulation sedimentation regime develops under ice-covered conditions, and only occasionally during the ice-free period (August 2008). In Type 2 winter, combined terrigenous and marine-biogenic SPM and POC sources are dominating due to relatively low overall terrigenous input (April 2007). In Type 2 summer, river alluvium becomes the major SPM and POC source (August 2008). The water column SPM and POC loadings vary by more than a factor of two between the two regimes. This study underscores the necessity of multi-year investigations to better understand the functioning of the primary recipient of terrestrially expulsed matter in the East Siberian Arctic.

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