Snow amounts and duration are susceptible to climate change and may significantly affect plant diversity and biomass in grassland ecosystems. Yet, the combined effects of grassland use (type and intensity) and snow depth on plant diversity and productivity remain poorly understood. We established two complementary field experiments to explore the mechanisms driving the effects of grassland use (type and intensity) and snow manipulation on plant diversity and productivity in the meadow steppe. An experiment on grassland use type and snow manipulation showed that lower snow cover in winter reduced soil moisture in the snowmelt period, significantly increased the abundance of ammonia-oxidizing archaea and ammonia-oxidizing bacteria, and initiated nitrification earlier, resulting in the loss of soil available nitrogen, and then reduced the aboveground biomass of early grasses. An experiment on grassland mowing intensity and snow manipulation showed that moderate mowing intensity can restrain the loss of grass biomass and soil nutrients and maintain grassland sustainability in winters with less snow. Stochasticity has played a more important role in plant community assembly in higher intensity of grassland use. Based on our results, we recommend that optimal defoliation height can restrain the loss of grass biomass and soil nutrients and maintain grassland sustainability in winters with less snow. This study has potential benefits for optimizing sustainable production and maintaining ecosystem function under winter snowfall changes in the future across large regions of arid and semiarid grasslands. (c) 2024 The Society for Range Management. Published by Elsevier Inc. All rights are reserved, including those for text and data mining, AI training, and similar technologies.

Climate change is rapidly transforming Arctic landscapes where increasing soil temperatures speed up permafrost thaw. This exposes large carbon stocks to microbial decomposition, possibly worsening climate change by releasing more greenhouse gases. Understanding how microbes break down soil carbon, especially under the anaerobic conditions of thawing permafrost, is important to determine future changes. Here, we studied the microbial community dynamics and soil carbon decomposition potential in permafrost and active layer soils under anaerobic laboratory conditions that simulated an Arctic summer thaw. The microbial and viral compositions in the samples were analyzed based on metagenomes, metagenome-assembled genomes, and metagenomic viral contigs (mVCs). Following the thawing of permafrost, there was a notable shift in microbial community structure, with fermentative Firmicutes and Bacteroidota taking over from Actinobacteria and Proteobacteria over the 60-day incubation period. The increase in iron and sulfate-reducing microbes had a significant role in limiting methane production from thawed permafrost, underscoring the competition within microbial communities. We explored the growth strategies of microbial communities and found that slow growth was the major strategy in both the active layer and permafrost. Our findings challenge the assumption that fast-growing microbes mainly respond to environmental changes like permafrost thaw. Instead, they indicate a common strategy of slow growth among microbial communities, likely due to the thermodynamic constraints of soil substrates and electron acceptors, and the need for microbes to adjust to post-thaw conditions. The mVCs harbored a wide range of auxiliary metabolic genes that may support cell protection from ice formation in virus-infected cells.IMPORTANCE As the Arctic warms, thawing permafrost unlocks carbon, potentially accelerating climate change by releasing greenhouse gases. Our research delves into the underlying biogeochemical processes likely mediated by the soil microbial community in response to the wet and anaerobic conditions, akin to an Arctic summer thaw. We observed a significant shift in the microbial community post-thaw, with fermentative bacteria like Firmicutes and Bacteroidota taking over and switching to different fermentation pathways. The dominance of iron and sulfate-reducing bacteria likely constrained methane production in the thawing permafrost. Slow-growing microbes outweighed fast-growing ones, even after thaw, upending the expectation that rapid microbial responses to dominate after permafrost thaws. This research highlights the nuanced and complex interactions within Arctic soil microbial communities and underscores the challenges in predicting microbial response to environmental change. As the Arctic warms, thawing permafrost unlocks carbon, potentially accelerating climate change by releasing greenhouse gases. Our research delves into the underlying biogeochemical processes likely mediated by the soil microbial community in response to the wet and anaerobic conditions, akin to an Arctic summer thaw. We observed a significant shift in the microbial community post-thaw, with fermentative bacteria like Firmicutes and Bacteroidota taking over and switching to different fermentation pathways. The dominance of iron and sulfate-reducing bacteria likely constrained methane production in the thawing permafrost. Slow-growing microbes outweighed fast-growing ones, even after thaw, upending the expectation that rapid microbial responses to dominate after permafrost thaws. This research highlights the nuanced and complex interactions within Arctic soil microbial communities and underscores the challenges in predicting microbial response to environmental change.

Global climate warming is accelerating permafrost degradation. The large amounts of soil organic matter in permafrost-affected soils are prone to increased microbial decomposition in a warming climate. Along with permafrost degradation, changes to the soil microbiome play a crucial role in enhancing our understanding and in predicting the feedback of permafrost carbon. In this article, we review the current state of knowledge of carbon-cycling microbial ecology in permafrost regions. Microbiomes in degrading permafrost exhibit variations across spatial and temporal scales. Among the short-term, rapid degradation scenarios, thermokarst lakes have distinct biogeochemical conditions promoting emission of greenhouse gases. Additionally, extreme climatic events can trigger drastic changes in microbial consortia and activity. Notably, environmental conditions appear to exert a dominant influence on microbial assembly in permafrost ecosystems. Furthermore, as the global climate is closely connected to various permafrost regions, it will be crucial to extend our understanding beyond local scales, for example by conducting comparative and integrative studies between Arctic permafrost and alpine permafrost on the Qinghai-Tibet Plateau at global and continental scales. These comparative studies will enhance our understanding of microbial functioning in degrading permafrost ecosystems and help inform effective strategies for managing and mitigating the impacts of climate change on permafrost regions.

BackgroundAntarctica and its unique biodiversity are increasingly at risk from the effects of global climate change and other human influences. A significant recent element underpinning strategies for Antarctic conservation has been the development of a system of Antarctic Conservation Biogeographic Regions (ACBRs). The datasets supporting this classification are, however, dominated by eukaryotic taxa, with contributions from the bacterial domain restricted to Actinomycetota and Cyanobacteriota. Nevertheless, the ice-free areas of the Antarctic continent and the sub-Antarctic islands are dominated in terms of diversity by bacteria. Our study aims to generate a comprehensive phylogenetic dataset of Antarctic bacteria with wide geographical coverage on the continent and sub-Antarctic islands, to investigate whether bacterial diversity and distribution is reflected in the current ACBRs.ResultsSoil bacterial diversity and community composition did not fully conform with the ACBR classification. Although 19% of the variability was explained by this classification, the largest differences in bacterial community composition were between the broader continental and maritime Antarctic regions, where a degree of structural overlapping within continental and maritime bacterial communities was apparent, not fully reflecting the division into separate ACBRs. Strong divergence in soil bacterial community composition was also apparent between the Antarctic/sub-Antarctic islands and the Antarctic mainland. Bacterial communities were partially shaped by bioclimatic conditions, with 28% of dominant genera showing habitat preferences connected to at least one of the bioclimatic variables included in our analyses. These genera were also reported as indicator taxa for the ACBRs.ConclusionsOverall, our data indicate that the current ACBR subdivision of the Antarctic continent does not fully reflect bacterial distribution and diversity in Antarctica. We observed considerable overlap in the structure of soil bacterial communities within the maritime Antarctic region and within the continental Antarctic region. Our results also suggest that bacterial communities might be impacted by regional climatic and other environmental changes. The dataset developed in this study provides a comprehensive baseline that will provide a valuable tool for biodiversity conservation efforts on the continent. Further studies are clearly required, and we emphasize the need for more extensive campaigns to systematically sample and characterize Antarctic and sub-Antarctic soil microbial communities.APsmQ8MphSAgg4BzZyqdNTVideo AbstractConclusionsOverall, our data indicate that the current ACBR subdivision of the Antarctic continent does not fully reflect bacterial distribution and diversity in Antarctica. We observed considerable overlap in the structure of soil bacterial communities within the maritime Antarctic region and within the continental Antarctic region. Our results also suggest that bacterial communities might be impacted by regional climatic and other environmental changes. The dataset developed in this study provides a comprehensive baseline that will provide a valuable tool for biodiversity conservation efforts on the continent. Further studies are clearly required, and we emphasize the need for more extensive campaigns to systematically sample and characterize Antarctic and sub-Antarctic soil microbial communities.APsmQ8MphSAgg4BzZyqdNTVideo Abstract

Global climate warming is accelerating permafrost degradation. The large amounts of soil organic matter in permafrost-affected soils are prone to increased microbial decomposition in a warming climate. Along with permafrost degradation, changes to the soil microbiome play a crucial role in enhancing our understanding and in predicting the feedback of permafrost carbon. In this article, we review the current state of knowledge of carbon-cycling microbial ecology in permafrost regions. Microbiomes in degrading permafrost exhibit variations across spatial and temporal scales. Among the short-term, rapid degradation scenarios, thermokarst lakes have distinct biogeochemical conditions promoting emission of greenhouse gases. Additionally, extreme climatic events can trigger drastic changes in microbial consortia and activity. Notably, environmental conditions appear to exert a dominant influence on microbial assembly in permafrost ecosystems. Furthermore, as the global climate is closely connected to various permafrost regions, it will be crucial to extend our understanding beyond local scales, for example by conducting comparative and integrative studies between Arctic permafrost and alpine permafrost on the Qinghai-Tibet Plateau at global and continental scales. These comparative studies will enhance our understanding of microbial functioning in degrading permafrost ecosystems and help inform effective strategies for managing and mitigating the impacts of climate change on permafrost regions.

Microbial activity persists in cold region agricultural soils during the fall, winter, and spring (i.e., non-growing season) and frozen condition, with peak activity during thaw events. Climate change is expected to change the frequency of freeze-thaw cycles (FTC) and extreme temperature events (i.e, altered timing, extreme heat/cold events) in temperate cold regions, which may hasten microbial consumption of fall-amended fertilizers, decreasing potency come the growing season. We conducted a high-resolution temporal examination of the impacts of freeze-thaw and nutrient stress on microbial communities in agricultural soils across both soil depth and time. Four soil columns were incubated under a climate model of a non-growing season including precipitation, temperature, and thermal gradient with depth over 60 days. Two columns were amended with fertilizer, and two incubated as unamended soil. The impacts of repeated FTC and nutrient stress on bacterial, archaeal, and fungal soil community members were determined, providing a deeply sampled longitudinal view of soil microbial response to non-growing season conditions. Geochemical changes from flow-through leachate and amplicon sequencing of 16S and ITS rRNA genes were used to assess community response. Despite nitrification observed in fertilized columns, there were no significant microbial diversity, core community, or nitrogen cycling population trends in response to nutrient stress. FTC impacts were observable as an increase in alpha diversity during FTC. Community compositions shifted across a longer time frame than individual FTC, with bulk changes to the community in each phase of the experiment. Our results demonstrate microbial community composition remains relatively stable for archaea, bacteria, and fungi through a non-growing season, independent of nutrient availability. This observation contrasts canonical thinking that FTC have significant and prolonged effects on microbial communities. In contrast to permafrost and other soils experiencing rare FTC, in temperate agricultural soils regularly experiencing such perturbations, the response to freeze-thaw and fertilizer stress may be muted by a more resilient community or be controlled at the level of gene expression rather than population turn-over. These results clarify the impacts of winter FTC on fertilizer consumption, with implications for agricultural best practices and modeling of biogeochemical cycling in agroecosystems.

Permafrost, an important source of soil disturbance, is particularly vulnerable to climate change in Alaska where 85% of the land is underlained with discontinuous permafrost. Boreal forests, home to plants integral to subsistence diets of many Alaska Native communities, are not immune to the effects of climate change. Soil disturbance events, such as permafrost thaw, wildfires, and land use change can influence abiotic conditions, which can then affect active layer soil microbial communities. In a previous study, we found negative effects on boreal plants inoculated with microbes impacted by soil disturbance compared to plants inoculated with microbes from undisturbed soils. Here, we identify key shifts in microbial communities altered by soil disturbance using 16S rRNA gene sequencing and make connections between microbial community changes and previously observed plant growth. Additionally, we identify further community shifts in potential functional mechanisms using long read metagenomics. Across a soil disturbance gradient, microbial communities differ significantly based on the level of soil disturbance. Consistent with the earlier study, the family Acidobacteriaceae, which consists of known plant growth promoters, was abundant in undisturbed soil, but practically absent in most disturbed soil. In contrast, Comamonadaceae, a family with known agricultural pathogens, was overrepresented in most disturbed soil communities compared to undisturbed. Within our metagenomic data, we found that soil disturbance level is associated with differences in microbial community function, including mechanisms potentially involved in plant pathogenicity. These results indicate that a decrease in plant growth can be linked to changes in the microbial community and functional composition driven by soil disturbance and climate change. Together, these results build a genomic understanding of how shifting soil microbiomes may affect plant productivity and ecosystem health as the Arctic warms.

Soil organic matter (SOM) is related to vegetation, soil bacteria, and soil properties; however, not many studies link all these parameters simultaneously, particularly in tundra ecosystems vulnerable to climate change. Our aim was to describe the relationships between vegetation, bacteria, soil properties, and SOM composition in moist acidic tundra by integrating physical, chemical, and molecular methods. A total of 70 soil samples were collected at two different depths from 36 spots systematically arranged over an area of about 300 m x 50 m. Pyrolysis-gas chromatography/mass spectrometry and pyrosequencing of the 16S rRNA gene were used to identify the molecular compositions of the SOM and bacterial community, respectively. Vegetation and soil physicochemical properties were also measured. The sampling sites were grouped into three, based on their SOM compositions: Sphagnum moss-derived SOM, lipid-rich materials, and aromatic-rich materials. Our results show that SOM composition is spatially structured and linked to microtopography; however, the vegetation, soil properties, and bacterial community composition did not show overall spatial structuring. Simultaneously, soil properties and bacterial community composition were the main factors explaining SOM compositional variation, while vegetation had a residual effect. Verrucomicrobia and Acidobacteria were related to polysaccharides, and Chloroflexi was linked to aromatic compounds. These relationships were consistent across different hierarchical levels. Our results suggest that SOM composition at a local scale is closely linked with soil factors and the bacterial community. Comprehensive observation of ecosystem components is recommended to understand the in-situ function of bacteria and the fate of SOM in the moist acidic tundra. (C) 2021 Elsevier B.V. All rights reserved.

Rising temperatures in the Arctic and the expansion of plants to higher latitudes will significantly alter belowground microbial communities and their activity. Given that microbial communities are major producers of greenhouse gases, understanding the magnitude of microbial responses to warming and increased carbon input to Arctic soils is necessary to improve global climate change models. In this study, active layer and permafrost soils from northern Greenland (81 degrees N) were subjected to increased carbon input, in the form of plant litter, and temperature increase, using a combined field and laboratory approach. In the field experiment, unamended or litter-amended soils were transplanted from the permafrost layer to the top soil layer and incubated for one year, whereas in the laboratory experiment active layer and permafrost soils with or without litter amendment were incubated at 4 degrees C or 15 degrees C for six weeks. Soil microbial communities were evaluated using bacterial 16S and fungal ITS amplicon sequencing and respiration was used as a measure of microbial activity. Litter amendment resulted in similar changes in microbial abundances, diversities and structure of microbial communities, in the field and lab experiments. These changes in microbial communities were likely due to a strong increase in fast-growing bacterial copiotrophic taxa and basidiomycete yeasts. Furthermore, respiration was significantly higher with litter input for both active layer and permafrost soil and with both approaches. Temperature alone had only a small effect on microbial communities, with the exception of the field-incubated permafrost soils, where we observed a shift towards oligotrophic taxa, specifically for bacteria. These results demonstrate that alterations in High Arctic mineral soils may result in predictable shifts in the soil microbiome.

Permafrost underlies a large portion of the land in the Northern Hemisphere. It is proposed to be an extreme habitat and home for cold-adaptive microbial communities. Upon thaw permafrost is predicted to exacerbate increasing global temperature trend, where awakening microbes decompose millennia old carbon stocks. Yet our knowledge on composition, functional potential and variance of permafrost microbiome remains limited. In this study, we conducted a deep comparative metagenomic analysis through a 2 m permafrost core from Svalbard, Norway to determine key permafrost microbiome in this climate sensitive island ecosystem. To do so, we developed comparative metagenomics methods on metagenomic-assembled genomes (MAG). We found that community composition in Svalbard soil horizons shifted markedly with depth: the dominant phylum switched from Acidobacteria and Proteobacteria in top soils (active layer) to Actinobacteria, Bacteroidetes, Chloroflexi and Proteobacteria in permafrost layers. Key metabolic potential propagated through permafrost depths revealed aerobic respiration and soil organic matter decomposition as key metabolic traits. We also found that Svalbard MAGs were enriched in genes involved in regulation of ammonium, sulfur and phosphate. Here, we provide a new perspective on how permafrost microbiome is shaped to acquire resources in competitive and limited resource conditions of deep Svalbard soils.