High occurrence of <i>Pacearchaeota</i> and <i>Woesearchaeota</i> (<scp>A</scp>rchaea superphylum <scp>DPANN</scp>) in the surface waters of oligotrophic high‐altitude lakes

Ortiz‐Álvarez, Rüdiger; Casamayor, Emilio O.

doi:10.1111/1758-2229.12370

Cited by 105 publications

(79 citation statements)

References 54 publications

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“…4). Also, the Archaea proportions in the water samples of our study (3 to 6%) were similar to those in previous studies in Lake Redon and other Pyrenean lakes using 16S rRNA gene tag sequencing, namely, 0 to 8% (35) and 0 to 6% (36).…”

Section: Discussionsupporting

confidence: 90%

Some Mixotrophic Flagellate Species Selectively Graze on Archaea

Ballen-Segura

Felip

Catalan

2017

Appl Environ Microbiol

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Many phototrophic flagellates ingest prokaryotes. This mixotrophic trait becomes a critical aspect of the microbial loop in planktonic food webs because of the typical high abundance of these flagellates. Our knowledge of their selective feeding upon different groups of prokaryotes, particularly under field conditions, is still quite limited. In this study, we investigated the feeding behavior of three species (Rhodomonas sp., Cryptomonas ovata, and Dinobryon cylindricum) via their food vacuole content in field populations of a high mountain lake. We used the catalyzed reporter deposition-fluorescence in situ hybridization (CARD-FISH) protocol with probes specific for the domain Archaea and three groups of Eubacteria: Betaproteobacteria, Actinobacteria, and Cytophaga-Flavobacteria of Bacteroidetes. Our results provide field evidence that contrasting selective feeding exists between coexisting mixotrophic flagellates under the same environmental conditions and that some prokaryotic groups may be preferentially impacted by phagotrophic pressure in aquatic microbial food webs. In our study, Archaea were the preferred prey, chiefly in the case of Rhodomonas sp., which rarely fed on any other prokaryotic group. In general, prey selection did not relate to prey size among the grazed groups. However, Actinobacteria, which were clearly avoided, mostly showed a size of Ͻ0.5 m, markedly smaller than cells from the other groups.IMPORTANCE That mixotrophic flagellates are not randomly feeding in the main prokaryotic groups under field conditions is a pioneer finding in species-specific behavior that paves the way for future studies according to this new paradigm. The particular case that Archaea were preferentially affected in the situation studied shows that phagotrophic pressure cannot be disregarded when considering the distribution of this group in freshwater oligotrophic systems.KEYWORDS Archaea, mixotrophic protist, selective feeding M ixotrophic behavior, the combination of phototrophic and phagotrophic nutritional modes within a single cell, has been increasingly documented in aquatic systems (1, 2). Phagotrophy occurs in a variety of phytoplankton flagellate groups, including Chrysophyceae, dinoflagellates, prymnesiophytes, and cryptophytes, which comprise some picoeukaryotes (3-5). Currently, there is no doubt of the ubiquity of mixotrophy and its significance in the functioning of planktonic systems. Under oligotrophic conditions, phototrophic flagellates can account for up to 80% of total bacterial grazing (4,6,7).Predation by protists is among the primary mortality factors of prokaryotes in planktonic communities and thus is an important selective pressure. It becomes a structuring factor of the abundance, morphology, composition, and activity of bacterial assemblages (8, 9). The impact of protist predation appears to be modulated by the characteristics of the system (e.g., productivity) and predator and prey traits (10). Over

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Section: Discussionsupporting

confidence: 90%

Some Mixotrophic Flagellate Species Selectively Graze on Archaea

Ballen-Segura

Felip

Catalan

2017

Appl Environ Microbiol

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“…Owing to this uncertainty, recent analyses of the archaeal root have excluded DPANN (10) or have included only a subset of sequenced lineages (9), on the grounds that their presence would interfere with the overall resolution of the tree. The limitation of this approach is that DPANN lineages are ecologically important (44) and represent a substantial proportion of known archaeal diversity (4,5). Therefore, any analysis of the archaeal root that does not account for their origins is necessarily incomplete.…”

Section: Resultsmentioning

confidence: 99%

Integrative modeling of gene and genome evolution roots the archaeal tree of life

Williams

Szöllősi

Spang

et al. 2017

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

211

212

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A root for the archaeal tree is essential for reconstructing the metabolism and ecology of early cells and for testing hypotheses that propose that the eukaryotic nuclear lineage originated from within the Archaea; however, published studies based on outgroup rooting disagree regarding the position of the archaeal root. Here we constructed a consensus unrooted archaeal topology using protein concatenation and a multigene supertree method based on 3,242 single gene trees, and then rooted this tree using a recently developed model of genome evolution. This model uses evidence from gene duplications, horizontal transfers, and gene losses contained in 31,236 archaeal gene families to identify the most likely root for the tree. Our analyses support the monophyly of DPANN (Diapherotrites, Parvarchaeota, Aenigmarchaeota, Nanoarchaeota, Nanohaloarchaea), a recently discovered cosmopolitan and genetically diverse lineage, and, in contrast to previous work, place the tree root between DPANN and all other Archaea. The sister group to DPANN comprises the Euryarchaeota and the TACK Archaea, including Lokiarchaeum, which our analyses suggest are monophyletic sister lineages. Metabolic reconstructions on the rooted tree suggest that early Archaea were anaerobes that may have had the ability to reduce CO 2 to acetate via the Wood-Ljungdahl pathway. In contrast to proposals suggesting that genome reduction has been the predominant mode of archaeal evolution, our analyses infer a relatively small-genomed archaeal ancestor that subsequently increased in complexity via gene duplication and horizontal gene transfer.evolution | phylogenetics | Archaea

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“…As the most presently proposed phyla, Aigarchaeota and suspended Lokiarchaeota may both be involved in anaerobic carbon cycling [39]. Pacearchaeota and Woesearchaeota were previously reported from saline sediments, but in surface waters of some lakes they were also detected [40]. …”

Section: Discussionmentioning

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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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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High occurrence of Pacearchaeota and Woesearchaeota (Archaea superphylum DPANN) in the surface waters of oligotrophic high‐altitude lakes

Cited by 105 publications

References 54 publications

Some Mixotrophic Flagellate Species Selectively Graze on Archaea

Some Mixotrophic Flagellate Species Selectively Graze on Archaea

Integrative modeling of gene and genome evolution roots the archaeal tree of life

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

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