Two Archaeal Metagenome-Assembled Genomes from El Tatio Provide New Insights into the Crenarchaeota Phylum

Santos, Andrés; Bruna, Pablo; Martínez-Urtaza, Jaime; Solís, Francisco Javier Toledo; Valenzuela, Bernardita; Zamorano, Pedro; Barrientos, Leticia

doi:10.3390/genes12030391

Cited by 8 publications

(5 citation statements)

References 40 publications

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“…Crenarchaeota has been reported as the major archaeal phylum in both Antarctic and Arctic archaeal studies [41,42], and it was also the major archaeal phylum in previous Svalbard archaeal studies [34]. This is a diverse and widespread phylum that is mainly characterized by acidophilic, thermophilic, and anaerobic properties [43]. It also contains ammonia-oxidizing archaea, which are important players in the natural nitrogen cycle [44].…”

Section: Discussionmentioning

confidence: 98%

Study of Archaeal Diversity in the Arctic Meltwater Lake Region

Qin

Wang

Zheng

et al. 2023

Biology

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Two typical lakes formed from meltwater in the Ny-Ålesund area were taken as the study subjects in 2018. To investigate the archaeal community compositions of the two lakes, 16S rRNA genes from soil samples from the intertidal and subtidal zones of the two lakes were sequenced with high throughput. At the phylum level, the intertidal zone was dominated by Crenarchaeota and the subtidal zone was dominated by Halobacter; at the genus level, the intertidal zone was dominated by Nitrososphaeraceae_unclassified and Candidatus_Nitrocosmicus, while the subtidal zone was dominated by Methanoregula. The soil physicochemical factors pH, moisture content (MC), total organic carbon (TOC), total organic nitrogen (TON), nitrite nitrogen (NO2−-N), and nitrate nitrogen (NO3−-N) were significantly different in the intertidal and subtidal zones of the lake. By redundancy analysis, the results indicated that NH4+-N, SiO32−-Si, MC, NO3−-N, and NO2−-N have had highly significant effects on the archaeal diversity and distribution. A weighted gene co-expression network analysis (WGCNA) was used to search for hub archaea associated with physicochemical factors. The results suggested that these physicochemical factors play important roles in the diversity and structure of the archaeal community at different sites by altering the abundance of certain hub archaea. In addition, Woesearchaeales was found to be the hub archaea genus at every site.

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Section: Discussionmentioning

confidence: 98%

Study of Archaeal Diversity in the Arctic Meltwater Lake Region

Qin

Wang

Zheng

et al. 2023

Biology

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“…The clusters of Crenarchaeota differ in sediment archaeal MA and sediment archaeal ML networks, which may be pH influenced ( Yao et al, 2019 ). The energy metabolism of Crenarchaeota was dependent on the pH of the environment ( Santos et al, 2021 ), and submerged macrophyte loss alters sediment acidity and alkalinity, so pH may alter ecological clusters either directly or indirectly ( Lauber et al, 2009 ). Compared to water bacteria, the networks structure of archaea in the water were virtually unaffected by the submerged macrophyte.…”

Section: Discussionmentioning

confidence: 99%

Loss of submerged macrophytes in shallow lakes alters bacterial and archaeal community structures, and reduces their co-occurrence networks connectivity and complexity

Liu,

Huang,

Jiang

et al. 2024

Front. Microbiol.

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IntroductionBacteria and archaea are important components in shallow lake ecosystems and are crucial for biogeochemical cycling. While the submerged macrophyte loss is widespread in shallow lakes, the effect on the bacteria and archaea in the sediment and water is not yet widely understood.MethodsIn this study, 16S rRNA gene sequencing was used to explore the bacteria and archaea in samples taken from the sediment and water in the submerged macrophyte abundant (MA) and submerged macrophyte loss (ML) areas of Caohai Lake, Guizhou, China.ResultsThe results showed that the dominant bacterial phyla were Proteobacteria and Chloroflexi in the sediment; the dominant phyla were Proteobacteria, Actinobacteriota, and Bacteroidota in the water. The dominant archaea in sediment and water were the same, in the order of Crenarchaeota, Thermoplasmatota, and Halobacterota. Non-metric multidimensional scaling (NMDS) analyses showed that bacterial and archaeal community structures in the water were significantly affected by the loss of submerged macrophytes, but not by significant changes in the sediment. This suggests that the loss of submerged macrophytes has a stronger effect on the bacterial and archaeal community structures in water than in sediment. Furthermore, plant biomass (PB) was the key factor significantly influencing the bacterial community structure in water, while total nitrogen (TN) was the main factor significantly influencing the archaeal community structure in water. The loss of submerged macrophytes did not significantly affect the alpha diversity of the bacterial and archaeal communities in either the sediment or water. Based on network analyses, we found that the loss of submerged macrophytes reduced the connectivity and complexity of bacterial patterns in sediment and water. For archaea, network associations were stronger for MA network than for ML network in sediment, but network complexity for archaea in water was not significantly different between the two areas.DiscussionThis study assesses the impacts of submerged macrophyte loss on bacteria and archaea in lakes from microbial perspective, which can help to provide further theoretical basis for microbiological research and submerged macrophytes restoration in shallow lakes.

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“…It was also reported as the major archaea of the Ross Sea region [ 51 ], Helliwell Hills [ 52 ], and Dry Valleys [ 53 ] in Antarctica. Crenarchaeota is often found to be a major archaeal phylum that is anaerobic, thermophilic, and acidophilic [ 54 ] and includes widely existing ammonia-oxidizing archaea [ 55 , 56 ]. Candidatus Nitrososphaera [ 57 ] and Candidatus Nitrocosmicus [ 58 ] were found to be the dominant genera, also indicating that ammonia-oxidizing archaea were widespread in this region to participate in the nitrogen cycle process.…”

Section: Discussionmentioning

confidence: 99%

Soil Geochemical Properties Influencing the Diversity of Bacteria and Archaea in Soils of the Kitezh Lake Area, Antarctica

Wang

Han

et al. 2022

Biology

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It is believed that polar regions are influenced by global warming more significantly, and because polar regions are less affected by human activities, they have certain reference values for future predictions. This study aimed to investigate the effects of climate warming on soil microbial communities in lake areas, taking Kitezh Lake, Antarctica as the research area. Below-peak soil, intertidal soil, and sediment were taken at the sampling sites, and we hypothesized that the diversity and composition of the bacterial and archaeal communities were different among the three sampling sites. Through 16S rDNA sequencing and analysis, bacteria and archaea with high abundance were obtained. Based on canonical correspondence analysis and redundancy analysis, pH and phosphate had a great influence on the bacterial community whereas pH and nitrite had a great influence on the archaeal community. Weighted gene coexpression network analysis was used to find the hub bacteria and archaea related to geochemical factors. The results showed that in addition to pH, phosphate, and nitrite, moisture content, ammonium, nitrate, and total carbon content also play important roles in microbial diversity and structure at different sites by changing the abundance of some key microbiota.

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Two Archaeal Metagenome-Assembled Genomes from El Tatio Provide New Insights into the Crenarchaeota Phylum

Cited by 8 publications

References 40 publications

Study of Archaeal Diversity in the Arctic Meltwater Lake Region

Study of Archaeal Diversity in the Arctic Meltwater Lake Region

Loss of submerged macrophytes in shallow lakes alters bacterial and archaeal community structures, and reduces their co-occurrence networks connectivity and complexity

Soil Geochemical Properties Influencing the Diversity of Bacteria and Archaea in Soils of the Kitezh Lake Area, Antarctica

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