Sediment‐associated microdiversity within the Marine Group I Crenarchaeota

Durbin, Alan M.; Teske, Andreas

doi:10.1111/j.1758-2229.2010.00163.x

Cited by 75 publications

(107 citation statements)

References 53 publications

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“…They also dominated in GC12 except for the two deepest horizons (203 and 310 cmbsf). These Archaea not only constitute one of the most abundant microbial planktonic groups in the oceans (48,49) but also are a highly abundant component in marine sediments (29,50,51). Although only aerobic growth has been reported for Thaumarchaeota thus far (52-55), we found MG-I-related organisms in anoxic horizons in our study.…”

Section: +mentioning

confidence: 39%

Correlating microbial community profiles with geochemical data in highly stratified sediments from the Arctic Mid-Ocean Ridge

Jørgensen¹,

Hannisdal

Lanzén

et al. 2012

Proc. Natl. Acad. Sci. U.S.A.

261

232

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Microbial communities and their associated metabolic activity in marine sediments have a profound impact on global biogeochemical cycles. Their composition and structure are attributed to geochemical and physical factors, but finding direct correlations has remained a challenge. Here we show a significant statistical relationship between variation in geochemical composition and prokaryotic community structure within deep-sea sediments. We obtained comprehensive geochemical data from two gravity cores near the hydrothermal vent field Loki's Castle at the Arctic Mid-Ocean Ridge, in the Norwegian-Greenland Sea. Geochemical properties in the rift valley sediments exhibited strong centimeter-scale stratigraphic variability. Microbial populations were profiled by pyrosequencing from 15 sediment horizons (59,364 16S rRNA gene tags), quantitatively assessed by qPCR, and phylogenetically analyzed. Although the same taxa were generally present in all samples, their relative abundances varied substantially among horizons and fluctuated between Bacteria-and Archaea-dominated communities. By independently summarizing covariance structures of the relative abundance data and geochemical data, using principal components analysis, we found a significant correlation between changes in geochemical composition and changes in community structure. Differences in organic carbon and mineralogy shaped the relative abundance of microbial taxa. We used correlations to build hypotheses about energy metabolisms, particularly of the Deep Sea Archaeal Group, specific Deltaproteobacteria, and sediment lineages of potentially anaerobic Marine Group I Archaea. We demonstrate that total prokaryotic community structure can be directly correlated to geochemistry within these sediments, thus enhancing our understanding of biogeochemical cycling and our ability to predict metabolisms of uncultured microbes in deep-sea sediments.taxonomic profiling | ultraslow-spreading ridge | amplicon sequencing

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Section: +mentioning

confidence: 39%

Correlating microbial community profiles with geochemical data in highly stratified sediments from the Arctic Mid-Ocean Ridge

Jørgensen¹,

Hannisdal

Lanzén

et al. 2012

Proc. Natl. Acad. Sci. U.S.A.

261

232

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“…Most of the members of this clade have been recovered from sediment and water column samples at depths ranging from 3,500 m to 5,000 m below the sea surface (38) (Fig. 1).…”

Section: Resultsmentioning

confidence: 99%

Single Cells within the Puerto Rico Trench Suggest Hadal Adaptation of Microbial Lineages

León-Zayas

Novotny

Podell

et al. 2015

Appl Environ Microbiol

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f Hadal ecosystems are found at a depth of 6,000 m below sea level and below, occupying less than 1% of the total area of the ocean. The microbial communities and metabolic potential in these ecosystems are largely uncharacterized. Here, we present four single amplified genomes (SAGs) obtained from 8,219 m below the sea surface within the hadal ecosystem of the Puerto Rico Trench (PRT). These SAGs are derived from members of deep-sea clades, including the Thaumarchaeota and SAR11 clade, and two are related to previously isolated piezophilic (high-pressure-adapted) microorganisms. In order to identify genes that might play a role in adaptation to deep-sea environments, comparative analyses were performed with genomes from closely related shallow-water microbes. The archaeal SAG possesses genes associated with mixotrophy, including lipoylation and the glycine cleavage pathway. The SAR11 SAG encodes glycolytic enzymes previously reported to be missing from this abundant and cosmopolitan group. The other SAGs, which are related to piezophilic isolates, possess genes that may supplement energy demands through the oxidation of hydrogen or the reduction of nitrous oxide. We found evidence for potential trench-specific gene distributions, as several SAG genes were observed only in a PRT metagenome and not in shallower deep-sea metagenomes. These results illustrate new ecotype features that might perform important roles in the adaptation of microorganisms to life in hadal environments.

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“…The ammonia-oxidizing Thaumarchaeota of marine group I.1a (further referred to as MG-I) are probably the most widely studied archaeal group in marine sediments. However, in comparison with studies of marine pelagic Thaumarchaeota, the diversity and distribution of benthic Thaumarchaeota are still not well established (e.g., Durbin and Teske, 2010;Jorgenson et al, 2012;Learman et al, 2016). Genomic studies have revealed the existence of uncultured archaeal groups other than Thaumarchaeota in marine, predominantly anoxic, sediments such as the Miscellaneous Crenarchaeota Group (MCG; Meng et al, 2014), archaea of the DPANN superphylum (composed of Micrarchaeota, Diapherotrites, Aenigmarchaeota, Nanohaloarchaeota, Parvarchaeota, Nanoarchaeota, Pacearchaeota and Woesearchaeota; Castelle et al, 2015;Rinke et al, 2013) and Marine Benthic Group (MBG) B (Teske and Sørensen, 2008), and Marine Benthic Group D (Lloyd et al, 2013).…”

Section: Introductionmentioning

confidence: 99%

Benthic archaea as potential sources of tetraether membrane lipids in sediments across an oxygen minimum zone

et al. 2018

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Abstract. Benthic archaea comprise a significant part of the total prokaryotic biomass in marine sediments. Recent genomic surveys suggest they are largely involved in anaerobic processing of organic matter, but the distribution and abundance of these archaeal groups are still largely unknown. Archaeal membrane lipids composed of isoprenoid diethers or tetraethers (glycerol dibiphytanyl glycerol tetraether, GDGT) are often used as archaeal biomarkers. Here, we compare the archaeal diversity and intact polar lipid (IPL) composition in both surface (0-0.5 cm) and subsurface (10-12 cm) sediments recovered within, just below, and well below the oxygen minimum zone (OMZ) of the Arabian Sea. Archaeal 16S rRNA gene amplicon sequencing revealed a predominance of Thaumarchaeota (Marine Group I, MG-I) in oxygenated sediments. Quantification of archaeal 16S rRNA and ammonia monoxygenase (amoA) of Thaumarchaeota genes and their transcripts indicated the presence of an active in situ benthic population, which coincided with a high relative abundance of hexose phosphohexose crenarchaeol, a specific biomarker for living Thaumarchaeota. On the other hand, anoxic surface sediments within the OMZ and all subsurface sediments were dominated by archaea belonging to the Miscellaneous Crenarchaeota Group (MCG), the Thermoplasmatales and archaea of the DPANN (superphylum grouping Micrarchaeota, Diapherotrites, Aenigmarchaeota, Nanohaloarchaeota, Parvarchaeota, Nanoarchaeota, Pacearchaeota and Woesearchaeota). Members of the MCG were diverse, with a dominance of subgroup MCG-12 in anoxic surface sediments. This coincided with a high relative abundance of IPL GDGT-0 with an unknown polar head group. Subsurface anoxic sediments were characterized by higher relative abundance of GDGT-0, -2 and -3 with dihexose IPL types, GDGT-0 with a cyclopentanetetraol molecule and hexose, as well as the presence of specific MCG subgroups, suggesting that these groups could be the biological sources of these archaeal lipids.

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Sediment‐associated microdiversity within the Marine Group I Crenarchaeota

Cited by 75 publications

References 53 publications

Correlating microbial community profiles with geochemical data in highly stratified sediments from the Arctic Mid-Ocean Ridge

Correlating microbial community profiles with geochemical data in highly stratified sediments from the Arctic Mid-Ocean Ridge

Single Cells within the Puerto Rico Trench Suggest Hadal Adaptation of Microbial Lineages

Benthic archaea as potential sources of tetraether membrane lipids in sediments across an oxygen minimum zone

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