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Results for “Community Composition”

Search indexed NASA NTRS and DOE OSTI research on propulsion, heat transfer, battery materials and energy systems. Follow report and document links to the original sources.

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At least 73 records · Page 4
All sourcesNASA NTRSDOE OSTI
DOE OSTI2022

Marine DNA methylation patterns are associated with microbial community composition and inform virus-host dynamics

Background: DNA methylation in prokaryotes is involved in many different cellular processes including cell cycle regulation and defense against viruses. To date, most prokaryotic methylation systems have been studied in culturable microorganisms, resulting in a limited understanding of DNA methylation from a microbial ecology perspective. Here, we analyze the distribution patterns of several microbial epigenetics marks in the ocean microbiome through genome-centric metagenomics across all domains of life. Results: We reconstructed 15,056 viral, 252 prokaryotic, 56 giant viral, and 6 eukaryotic metagenome-assembled genomes from northwest Pacific Ocean seawater samples using short- and long-read sequencing approaches. These metagenome-derived genomes mostly represented novel taxa, and recruited a majority of reads. Thanks to single-molecule real-time (SMRT) sequencing technology, base modification could also be detected for these genomes. This showed that DNA methylation can readily be detected across dominant oceanic bacterial, archaeal, and viral populations, and microbial epigenetic changes correlate with population differentiation. Furthermore, our genome-wide epigenetic analysis of Pelagibacter suggests that GANTC, a DNA methyltransferase target motif, is related to the cell cycle and is affected by environmental conditions. Yet, the presence of this motif also partitions the phylogeny of the Pelagibacter phages, possibly hinting at a competitive co-evolutionary history and multiple effects of a single methylation mark. Conclusions: Overall, this study elucidates that DNA methylation patterns are associated with ecological changes and virus-host dynamics in the ocean microbiome.

59 BASIC BIOLOGICAL SCIENCES↗
NASA NTRS1983

Visible absorbance spectra: A basis for in situ and passive remote sensing of phytoplankton concentration and community composition

The concentration and composition of phytoplankton populations are measured by an optical method which can be used either in situ or remotely. This method is based upon the in vivo light absorption characteristics of phytoplankton. To provide a data base for testing assumptions relative to the proposed method, visible absorbance spectra of pure cultures of 20 marine phytoplankton were obtained under laboratory conditions. Descriptive and analytical statistics were computed for the absorbance spectra and were used to make comparisons between members of major taxonomic groups and between groups. Spectral variation between the members of the major taxonomic groups was observed to be considerably less than the spectral variation between these groups. In several cases the differences between the mean absorbance spectra of major taxonomic groups are significant enough to be detected with passive remote sensing techniques.

Farmer, F. H.↗
NASA NTRS2020

Variation of Florida scrub vegetation along gradients of soil pH and landscape age on a barrier island complex

Florida scrub is a fire-maintained shrub vegetation of well-drained, sandy soils associated with ridge systems that originated as coastal dunes. It is unique to Florida and supports many rare plants and animals. Between 1992 and 2005, we sampled 30 stands of long-unburned scrub with 196 line-intercept transects (15 m length) across the Merritt Island-Cape Canaveral barrier island complex where dune ridges range from relatively recent to > 30,000 years old with a range of soil leaching and reaction. These data allow us to determine the relationships of landscape age and soil reaction on community composition. We recorded community composition in < 0.5 m and > 0.5 m height strata. We determined mapped soil type for all transects; for 151 transects we determined soil pH of the 0–15 cm and 15–30 cm layers. Hierarchical cluster analysis of stands (N=30) and transects (N=196) using 41 species (of 53) present in > 2 transects gave two groups: coastal scrub with Quercus virginiana (shrub form) and Serenoa repens as dominant species on the most alkaline soils, and oak-saw palmetto scrub with Quercus chapmanii, Quercus geminata, Quercus myrtifolia, and S. repens on the strongly to somewhat acidic soils. Direct gradient analysis indicated that dominant species except S. repens varied from acidic to alkaline soils. Indicator species analysis identified seven species that indicated acidic soils and five that indicated alkaline soils (P < 0.01). Nonmetric multidimensional scaling (NMS) ordination at the stand level separated the two groups along the first axis, and NMS ordination of the transect data showed the gradient of coastal to oak-saw palmetto scrub. Position of transects on the first axis was related to soil pH class, and to measured pH of the 0–15 cm and 15–30 cm layers. Soils show a progressive leaching of shell material from the surface horizons followed by podsolization; this process takes > 4,000 years. Our results indicate substantial differences between the community composition of scrub vegetation on recent alkaline soils compared to leached acidic soils.

Barrier island↗