Refining Estimates of Greenhouse Gas Emissions From Salt Marsh “Blue Carbon” Erosion and Decomposition

Coastal wetlands have sediments that contain organic matter preserved against decomposition for timespans that can range up to millennia. This “blue carbon” in wetland sediments has been proposed as a sink for atmospheric carbon dioxide and a potential source of greenhouse gases if coastal habitats are lost. A missing gap in the role of coastal habitats in the global carbon cycle is elucidating the fate of wetland sediment carbon following disturbance events, such as erosion, that can liberate organic matter to an oxygenated environment where decomposition can more readily occur. Here, we track the fate of previously stored salt marsh sediment by measuring the production of carbon dioxide (CO2) and methane (CH4) during an oxygenated incubation. Sediments from two depth horizons (5–10 cm and 20–25 cm) were incubated at two temperatures (20 and 30°C) for 161 days. Q10 of the decomposition process over the entire course of the experiment was 2.0 ± 0.1 and 2.2 ± 0.2 for shallow and deep horizons, respectively. Activation energy for the decomposition reaction (49.7 kJ ⋅ mol–1 and 58.8 kJ ⋅ mol–1 for shallow and deep sediment horizons, respectively) was used to calculate temperature-specific decomposition rates that could be applied to environmental data. Using high-frequency water temperature data, this strategy was applied to coastal states in the conterminous United States (CONUS) where we estimated annual in situ decomposition of eroded salt marsh organic matter as 7–24% loss per year. We estimate 62.90 ± 2.81 Gg C ⋅ yr–1 is emitted from eroded salt marsh sediment decomposition in the CONUS.

Pollen Geochronology from the Atlantic Coast of the United States during the Last 500 Years

Building robust age–depth models to understand climatic and geologic histories from coastal sedimentary archives often requires composite chronologies consisting of multi-proxy age markers. Pollen chronohorizons derived from a known change in vegetation are important for age–depth models, especially those with other sparse or imprecise age markers. However, the accuracy of pollen chronohorizons compared to other age markers and the impact of pollen chronohorizons on the precision of age–depth models, particularly in salt marsh environments, is poorly understood. Here, we combine new and published pollen data from eight coastal wetlands (salt marshes and mangroves) along the Atlantic Coast of the United States (U.S.) from Florida to Connecticut to define the age and uncertainty of 17 pollen chronohorizons. We found that 13 out of 17 pollen chronohorizons were consistent when compared to other age markers (radiocarbon, radionuclide 137Cs and pollution markers). Inconsistencies were likely related to the hyperlocality of pollen chronohorizons, mixing of salt marsh sediment, reworking of pollen from nearby tidal flats, misidentification of pollen signals, and inaccuracies in or misinterpretation of other age markers. Additionally, in a total of 24 models, including one or more pollen chronohorizons, increased precision (up to 41 years) or no change was found in 18 models.

Halomonas rituensis sp. nov. and Halomonas zhuhanensis sp. nov., isolated from natural salt marsh sediment on the Tibetan Plateau

Two novel Gram-stain-negative, aerobic and non-motile rods bacteria, designated TQ8ST and ZH2ST, were isolated from salt marsh sediment collected from the Tibetan Plateau. Strain TQ8ST was found to grow at 10–40 °C (optimum, 30 °C), pH 6.0–11.0 (optimum, pH 8.0–9.0) and in the presence of 2–12 % (w/v) NaCl (optimum, 6–8 %). Strain ZH2ST was found to grow at 15–40 °C (optimum, 30 °C), pH 7.0–10.0 (optimum pH 9.0) and in the presence of 2–10 % (w/v) NaCl (optimum, 4–6 %). Phylogenetic analysis based on the 16S rRNA gene sequences showed that strains TQ8ST and ZH2ST shared 99.07 % sequence similarity between each other and were affiliated with the genus Halomonas , sharing 97.48 % and 97.41 % of sequence similarity to their closest neighbour Halomonas sulfidaeris Esulfide1T, respectively. DNA–DNA hybridization analyses showed 61.0 % relatedness between strains TQ8ST and ZH2ST. The average nucleotide identity and the average amino acid identity values between the two genomes were 92.33 and 92.84 %, respectively. The values between the two strains and their close phylogenetic relatives were all below 95 %. The major respiratory quinones of strain TQ8ST were Q-9 and Q-8, while that of ZH2ST was Q-9. The main fatty acids shared by the two strains were C18 : 1 ω6c and/or C18 : 1 ω7c, C16 : 1 ω6c and/or C16 : 1 ω7c, C16 : 0 and C12 : 0 3-OH. Strain ZH2ST can be distinguished from TQ8ST by a higher proportion of C19 : 0 cyclo ω8c. The G+C content of the genomic DNA of strains TQ8ST and ZH2ST were 57.20 and 57.14 mol%, respectively. On the basis of phenotypic distinctiveness and phylogenetic divergence, the two isolates are considered to represent two novel species of the genus Halomonas , for which the names Halomonas rituensis sp. nov (type strain TQ8ST=KCTC 62530T=CICC 24572T) and Halomonas zhuhanensis sp. nov (type strain ZH2ST=KCTC 62531T=CICC 24505T) are proposed.

Spatially-resolved correlative microscopy and microbial identification reveals dynamic depth- and mineral-dependent anabolic activity in salt marsh sediment

Coastal salt marshes are key sites of biogeochemical cycling and ideal systems in which to investigate the community structure of complex microbial communities. Here, we clarify structural-functional relationships among microorganisms and their mineralogical environment, revealing previously undescribed metabolic activity patterns and precise spatial arrangements within salt marsh sediment. Following 3.7-day in situ incubations with a non-canonical amino acid that was incorporated into new biomass, samples were embedded and analyzed by correlative fluorescence and electron microscopy to map the microscale arrangements of anabolically active and inactive organisms alongside mineral grains. Parallel sediment samples were examined by fluorescence-activated cell sorting and 16S rRNA gene sequencing to link anabolic activity to taxonomic identity. Both approaches demonstrated a rapid decline in the proportion of anabolically active cells with depth into salt marsh sediment, from ∼60% in the top cm to 10-25% between 2-7 cm. From the top to the bottom, the most prominent active community members shifted from sulfur cycling phototrophic consortia, to sulfate-reducing bacteria likely oxidizing organic compounds, to fermentative lineages. Correlative microscopy revealed more abundant (and more anabolically active) organisms around non-quartz minerals including rutile, orthoclase, and plagioclase. Microbe-mineral relationships appear to be dynamic and context-dependent arbiters of biogeochemical cycling.Statement of SignificanceMicroscale spatial relationships dictate critical aspects of a microbiome’s inner workings and emergent properties, such as evolutionary pathways, niche development, and community structure and function. However, many commonly used methods in microbial ecology neglect this parameter – obscuring important microbe-microbe and microbe-mineral interactions – and instead employ bulk-scale methodologies that are incapable of resolving these intricate relationships.This benchmark study presents a compelling new approach for exploring the anabolic activity of a complex microbial community by mapping the precise spatial configuration of anabolically active organisms within mineralogically heterogeneous sediment through in situ incubation, resin embedding, and correlative fluorescence and electron microscopy. In parallel, active organisms were identified through fluorescence-activated cell sorting and 16S rRNA gene sequencing, enabling a powerful interpretive framework connecting location, identity, activity, and putative biogeochemical roles of microbial community members.We deploy this novel approach in salt marsh sediment, revealing quantitative insights into the fundamental principles that govern the structure and function of sediment-hosted microbial communities. In particular, at different sediment horizons, we observed striking changes in the proportion of anabolically active cells, the identities of the most prominent active community members, and the nature of microbe-mineral affiliations. Improved approaches for understanding microscale ecosystems in a new light, such as those presented here, reveal environmental parameters that promote or constrain metabolic activity and clarify the impact that microbial communities have on our world.