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Abstract. We report the results of amino acid racemization (AAR) analyses of aspartic acid (Asp)and glutamic acid (Glu) in the planktic Neogloboquadrina pachyderma, and the benthic Cibicidoides wuellerstorfi, foraminifera species collected from sediment cores from the Arctic Ocean. The cores were retrieved at various deep-sea sites of the Arctic, which cover a large geographical area from the Greenland and Iceland seas (GIS) to the Alpha and Lomonosov ridges in the central Arctic Ocean. Age models for the investigated sediments were developed by multiple dating and correlation techniques, including oxygen isotope stratigraphy, magnetostratigraphy, biostratigraphy, lithostratigraphy, and cyclostratigraphy. The extent of racemization (D/L values) was determined on 95 samples (1028 subsamples) and shows a progressive increase downcore for both foraminifera species. Differences in the rates of racemization between the species were established by analysing specimens of both species from the same stratigraphic levels (n=21). Aspartic acid (Asp) and glutamic acid (Glu) racemize on average 16 ± 2 % and 23 ± 3 % faster, respectively, in C. wuellerstorfi than in N. pachyderma. The D/L values increase with sample age in nearly all cases, with a trend that follows a simple power function. Scatter around least-squares regression fits are larger for samples from the central Arctic Ocean than for those from the Nordic Seas. Calibrating the rate of racemization in C. wuellerstorfi using independently dated samples from the Greenland and Iceland seas for the past 400 ka enables estimation of sample ages from the central Arctic Ocean, where bottom water temperatures are presently relatively similar. The resulting ages are older than expected when considering the existing age models for the central Arctic Ocean cores. These results confirm that the differences are not due to taxonomic effects on AAR and further warrant a critical evaluation of existing Arctic Ocean age models. A better understanding of temperature histories at the investigated sites, and other environmental factors that may influence racemization rates in central Arctic Ocean sediments, is also needed.
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Predominance of Anaerobic, Spore-Forming Bacteria in Metabolically Active Microbial Communities from Ancient Siberian Permafrost
ABSTRACT The prevalence of microbial life in permafrost up to several million years (Ma) old has been well documented. However, the long-term survivability, evolution, and metabolic activity of the entombed microbes over this time span remain underexplored. We integrated aspartic acid (Asp) racemization assays with metagenomic sequencing to characterize the microbial activity, phylogenetic diversity, and metabolic functions of indigenous microbial communities across a ∼0.01- to 1.1-Ma chronosequence of continuously frozen permafrost from northeastern Siberia. Although Asp in the older bulk sediments (0.8 to 1.1 Ma) underwent severe racemization relative to that in the youngest sediment (∼0.01 Ma), the much lower d -Asp/ l -Asp ratio (0.05 to 0.14) in the separated cells from all samples suggested that indigenous microbial communities were viable and metabolically active in ancient permafrost up to 1.1 Ma. The microbial community in the youngest sediment was the most diverse and was dominated by the phyla Actinobacteria and Proteobacteria . In contrast, microbial diversity decreased dramatically in the older sediments, and anaerobic, spore-forming bacteria within Firmicutes became overwhelmingly dominant. In addition to the enrichment of sporulation-related genes, functional genes involved in anaerobic metabolic pathways such as fermentation, sulfate reduction, and methanogenesis were more abundant in the older sediments. Taken together, the predominance of spore-forming bacteria and associated anaerobic metabolism in the older sediments suggest that a subset of the original indigenous microbial community entrapped in the permafrost survived burial over geological time. IMPORTANCE Understanding the long-term survivability and associated metabolic traits of microorganisms in ancient permafrost frozen millions of years ago provides a unique window into the burial and preservation processes experienced in general by subsurface microorganisms in sedimentary deposits because of permafrost’s hydrological isolation and exceptional DNA preservation. We employed aspartic acid racemization modeling and metagenomics to determine which microbial communities were metabolically active in the 1.1-Ma permafrost from northeastern Siberia. The simultaneous sequencing of extracellular and intracellular genomic DNA provided insight into the metabolic potential distinguishing extinct from extant microorganisms under frozen conditions over this time interval. This in-depth metagenomic sequencing advances our understanding of the microbial diversity and metabolic functions of extant microbiomes from early Pleistocene permafrost. Therefore, these findings extend our knowledge of the survivability of microbes in permafrost from 33,000 years to 1.1 Ma.
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- PAR ID:
- 10121400
- Date Published:
- Journal Name:
- Applied and Environmental Microbiology
- Volume:
- 85
- Issue:
- 15
- ISSN:
- 0099-2240
- Format(s):
- Medium: X
- Sponsoring Org:
- National Science Foundation
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Accepted Manuscript1.0
- Journal Article:
- https://doi.org/10.1128/AEM.00560-19
