Vertical Distribution of Bathyarchaeotal Communities in Mangrove Wetlands Suggests Distinct Niche Preference of Bathyarchaeota Subgroup 6

Pan, Jie; Chen, Yulian; Wang, Yongming; Zhou, Zhichao; Li, Meng

doi:10.1007/s00248-018-1309-7

Cited by 44 publications

(62 citation statements)

References 63 publications

Supporting

Mentioning

Contrasting

Order By: Relevance

“…The discovery of novel lineages, as well as the discovery of co-occuring diverse lineages in one vertical biosphere in this study, may elevate their relative abundance and ecological roles in natural environments. Therefore, we propose that Asgard archaea might be essential archaeal lineages for organic carbon degradation in coastal sediments, similar to previously proposed roles for Bathyarchaeota 45 and Thermoprofundales 46 , which also support the notion that Asgard archaea are critical participants for organic matter utilization in coastal sediments 44, 47 .…”

Section: Resultssupporting

confidence: 89%

“…Metabolic comparison and transcriptomic evidence suggest divergent ecological roles and niches for different Asgard phyla but they shared key transcripts involved in the degradation of specific compartments of organic matter (e.g., peptides and amino acids). Thus, considering their high relative abundance 44, 45 and ubiquitous distribution in the coastal area, we infer that Asgard archaea are important players for organic matter utilization 45, 48 . However, their contribution to the coastal sediment carbon budget remains to be further examined.…”

Section: Resultsmentioning

confidence: 95%

“…Previous studies suggested that Asgard archaea could account for up to 50% of the total prokaryotes in some marine sediments 44 ; and attribute to 40% of the total archaeal sequences in coastal sediments 44, 45 . The discovery of novel lineages, as well as the discovery of co-occuring diverse lineages in one vertical biosphere in this study, may elevate their relative abundance and ecological roles in natural environments.…”

Section: Resultsmentioning

confidence: 99%

See 2 more Smart Citations

Highly diverse Asgard archaea participate in organic matter degradation in coastal sediments

Cai

Liu

Yin

et al. 2019

Preprint

Self Cite

View full text Add to dashboard Cite

ABSTRACTAsgard is an archaeal superphylum that might hold the key to understand the origin of eukaryotes, but its diversity and ecological roles remain poorly understood. Here, we reconstructed 15 metagenomic-assembled genomes (MAGs) from coastal sediments covering most known Asgard archaea and a novel group, which is proposed as a new Asgard phylum named as the “Gerdarchaeota”. Genomic analyses predict that Gerdarchaeota are facultative anaerobes in utilizing both organic and inorganic carbon. Unlike their closest relatives Heimdallarchaeota, Gerdarchaeota have genes encoding for cellulase and enzymes involving in the tetrahydromethanopterin-based Wood–Ljungdahl pathway. Transcriptomic evidence showed that all known Asgard archaea are capable of degrading organic matter, including peptides, amino acids and fatty acids, in different ecological niches in sediments. Overall, this study broadens the diversity of the mysterious Asgard archaea and provides evidence for their ecological roles in coastal sediments.

show abstract

Section: Resultssupporting

confidence: 89%

Section: Resultsmentioning

confidence: 95%

Section: Resultsmentioning

confidence: 99%

See 1 more Smart Citation

Highly diverse Asgard archaea participate in organic matter degradation in coastal sediments

Cai

Liu

Yin

et al. 2019

Preprint

Self Cite

View full text Add to dashboard Cite

show abstract

“…Bathyarchaeota are the most abundant archaeal phylum in the mangrove and mudflat sediments of Futian Nature Reserve (Shenzhen, China) and Mai Po Nature Reserve (Hong Kong, China) [6,22]. Thus, following those studies, the total DNA and RNA of sediment samples from these two places were sequenced for constructing genomes and transcriptomes of Bathyarchaeota, respectively.…”

Section: Introductionmentioning

confidence: 99%

Genomic and transcriptomic evidence of light-sensing, porphyrin biosynthesis, Calvin-Benson-Bassham cycle, and urea production in Bathyarchaeota

et al. 2020

Self Cite

View full text Add to dashboard Cite

Background: Bathyarchaeota, a newly proposed archaeal phylum, is considered as an important driver of the global carbon cycle. However, due to the great diversity of them, there is limited genomic information that accurately encompasses the metabolic potential of the entire archaeal phylum. Results: In the current study, nine metagenome-assembled genomes of Bathyarchaeota from four subgroups were constructed from mangrove sediments, and metatranscriptomes were obtained for evaluating their in situ transcriptional activities. Comparative analyses with reference genomes and the transcripts of functional genes posit an expanded role for Bathyarchaeota in phototrophy, autotrophy, and nitrogen and sulfur cycles, respectively. Notably, the presence of genes for rhodopsins, cobalamin biosynthesis, and the oxygen-dependent metabolic pathways in some Bathyarchaeota subgroup 6 genomes suggest a light-sensing and microoxic lifestyle within this subgroup. Conclusions: The results of this study expand our knowledge of metabolic abilities and diverse lifestyles of Bathyarchaeota, highlighting the crucial role of Bathyarchaeota in geochemical cycle.

show abstract

“…Isotopic evidence from Peru margin has shown that the dominating sedimentary archaea may be heterotrophic (Biddle et al 2006). Bathyarchaeota and Marine Benthic Group D (MBGD) exhibit high abundances in subsurface sediments and prefer low sulfide, high TOC conditions (Kubo et al 2012;Lazar et al 2015;Pan et al 2019) or hydrate-bearing marine sediments (Inagaki et al 2006), but their involvement in methane production or oxidation is controversial (Biddle et al 2006;Kubo et al 2012). Recent studies based on genomic analysis revealed a variety of metabolisms in uncultured archaea.…”

Section: Introductionmentioning

confidence: 99%

Contrasting bacterial and archaeal distributions reflecting different geochemical processes in a sediment core from the Pearl River Estuary

et al. 2020

View full text Add to dashboard Cite

Microbial community structure and metabolic activities have profound impacts on biogeochemical processes in marine sediments. Functional bacteria such as nitrate-and sulfate-reducing bacteria respond to redox gradients by coupling specific reactions amenable to relevant energy metabolisms. However, similar functional patterns have not been observed for sedimentary archaea (except for anaerobic methanotrophs and methanogens). We coupled taxonomic composition with comprehensive geochemical species to investigate the participation of distinct bacteria and archaea in sedimentary geochemical cycles in a sediment core (300 cm) from Pearl River Estuary (PRE). Geochemical properties (NO 3 − , dissolved Mn and Fe, SO 4 2+ , NH 4 + ; dissolved inorganic carbon (DIC), δ 13 C DIC , dissolved organic carbon (DOC), total organic carbon (TOC), δ 13 C TOC , and fluorescent dissolved organic matter (FDOM)) exhibited strong depth variability of different trends. Bacterial 16S rRNA-and dsrB gene abundance decreased sharply with depth while archaeal and bathyarchaeotal 16S rRNA gene copies were relatively constant. This resulted in an increase in relative abundance of archaea from surface (11.6%) to bottom (42.8%). Network analysis showed that bacterial groups of Desulfobacterales, Syntrophobacterales and Gammaproteobacteria were significantly (P < 0.0001) associated with SO 4 2− and dissolved Mn while archaeal groups of Bathyarchaeota, Group C3 and Marine Benthic Group D (MBGD) showed close positive correlations (P < 0.0001) with NH 4 + , δ 13 C TOC values and humic-like FDOM. Our study suggested that these bacterial groups dominated in redox processes relevant to sulfate or metal oxides, while the archaeal groups are more like to degrade recalcitrant organic compounds in anaerobic sediments.

show abstract

Vertical Distribution of Bathyarchaeotal Communities in Mangrove Wetlands Suggests Distinct Niche Preference of Bathyarchaeota Subgroup 6

Cited by 44 publications

References 63 publications

Highly diverse Asgard archaea participate in organic matter degradation in coastal sediments

Highly diverse Asgard archaea participate in organic matter degradation in coastal sediments

Genomic and transcriptomic evidence of light-sensing, porphyrin biosynthesis, Calvin-Benson-Bassham cycle, and urea production in Bathyarchaeota

Contrasting bacterial and archaeal distributions reflecting different geochemical processes in a sediment core from the Pearl River Estuary

Contact Info

Product

Resources

About