Soil bacteria and fungi on tropical mountainsides: Joint effects of weathering, climate, and chemical factors.

Contemporary environmental factors such as temperature and pH are generally identified as primary influences on microbial diversity, while the role of geological processes remain understudied. Here, we investigated the diversity and community composition of bacteria and fungi along an elevational gradient of 703 - 4,514 m on Mt. Kilimanjaro, East Africa. We further examined the effects of contemporary environment and geological processes such as weathering on microbial communities and diversities. For community composition, bacteria and fungi showed clear differentiation along elevations and their community dissimilarities increased with elevational distance indicating elevational distance-decay relationships. Multiple variables such as weathering, climate and chemical factors were significantly associated with microbial communities and showed greater effects on bacterial than fungal communities. Specifically, soil pH mainly shaped bacterial communities, while mean annual temperature for fungi, followed by other variables such as weathering processes. For Shannon diversity, bacteria and fungi showed significant hump-shaped elevational patterns with the peak values at 1,857 and 1,436 m, respectively. Shannon diversity was mainly affected by soil weathering accounting for 8.9% of the total variance for bacteria, while jointly by weathering and climate accounted for 14.3% of fungi. For the community uniqueness, represented by local contribution to beta diversity (LCBD), there were U-shaped patterns for both taxonomic groups. LCBD was mainly explained by the joint effects of chemical and climate variables which accounted for 51.1% and 33.4% for bacteria and fungi, respectively. Our results highlight the effects of soil weathering processes on diversity and community composition for bacteria and fungi. Thus, the integration of weathering with contemporary environments could provide new insights into microbial elevational diversity patterns.

Acidic proteomes are linked to microbial alkaline preference in African lakes.

Microbial amino acid composition (AA) reflects adaptive strategies of cellular and molecular regulations such as a high proportion of acidic AAs, including glutamic and aspartic acids in alkaliphiles. It remains understudied how microbial AA content is linked to their pH adaptation especially in natural environments. Here we examined prokaryotic communities and their AA composition of genes with metagenomics for 39 water and sediments of East African lakes along a gradient of pH spanning from 7.2 to 10.1. We found that Shannon diversity declined with the increasing pH and that species abundance were either positively or negatively associated with pH, indicating their distinct habitat preference in lakes. Microbial communities showed higher acidic proteomes in alkaline than neutral lakes. Species acidic proteomes were also positively correlated with their pH preference, which was consistent across major bacterial lineages. These results suggest selective pressure associated with high pH likely shape microbial amino acid composition both at the species and community levels. Comparative genome analyses further revealed that alkaliphilic microbes contained more functional genes with higher acidic AAs when compared to those in neutral conditions. These traits included genes encoding diverse classes of cation transmembrane transporters, antiporters, and compatible solute transporters, which are involved in cytoplasmic pH homeostasis and osmotic stress defense under high pH conditions. Our results provide the field evidence for the strong relationship between prokaryotic AA composition and their habitat preference and highlight amino acid optimization as strategies for environmental adaptation.

Microbial nitrogen nutrition links to dissolved organic matter properties in East African lakes.

East African lakes, especially soda lakes, are home habitats for massive numbers of wildlife such as flamingos, mammals, and fishes. These lakes are known for their high primary production due to local high temperatures, light intensities, and alkalinity (inorganic carbon). However, these lakes, normally within remote areas, receive low nutrient inputs. Ammonium (NH4+) recycling and/or nitrogen fixation can become the major N supply mechanisms for phytoplankton. However, the driving forces on microbial N nutrition in lakes with minimal anthropogenic disturbance remain poorly understood. Using stable isotope tracer techniques, NH4+ recycling rates were measured in 18 lakes and reservoirs in East Africa (Tanzania and Kenya) during the dry season in early 2020. Three functional genes (nifH, gdh, and ureC) relating to microbial N nutrition were also measured. The regeneration of NH4+ supported up to 71 % of the NH4+ uptake. Positive community biological NH4+ demands (CBAD) for all lakes and reservoirs indicate an obvious N demand from microbial community. Our study provides clear evidence that microbial NH4+ uptake rates linked closely to the dissolved organic matter (DOM) properties (e.g., the absorption coefficient at 254 nm, percents of total fluorescence intensity contributed by microbial humic-like and protein-like components) and that water residence time drives microbial NH4+ recycling by regulating the duration of in-lake DOM processing and influencing algal growth. Phytoplankton, especially those of Cyanophyceae, showed maximum biomass and higher NH4+ recycling rates at a certain range of water residence time (e.g., 5-8 years). However, CBAD showed a decreasing trend with longer water residence time, which may be influenced by changes in the algal community composition (e.g., % Cyanophyceae vs. % Bacillariophyceae). These results indicate that DOM dynamics and the water residence time have the potential to facilitate the understanding of microbial nitrogen supply status in East African lakes.

Biotic and abiotic factors interplay in structuring the dynamics of microbial co-occurrence patterns in tropical mountainsides.

Ecological interactions are important for maintaining biodiversity and ecosystem functions. Particularly in stream biofilms, little is known about the distributional patterns of different taxonomic groups and their potential interactions along elevational gradients. Here, we investigated the bacterial and fungal community structures of stream biofilms across elevational gradients on Mount Kilimanjaro, and explored patterns of their distribution, diversity, community structures, and taxa co-occurrence. We found that fungal and bacterial richness were more convergent at higher elevations, while their community structures became significantly more divergent. Inferred network complexity and stability significantly decreased with increasing elevation for fungi, while an opposite trend was observed for bacteria. Further quantitative analyses showed that network structures of bacteria and fungi were more divergent as elevation increased. This pattern was strongly associated with shifts in abiotic factors, such as mean annual temperatures, water PO43--P, and stream width. By constructing bipartite networks, we showed the fungal-bacterial network to be less redundant, more clustering, and unstable with increasing elevation. Abiotic factors (e.g., temperatures and stream width) and microbial community properties (i.e., structure and composition) significantly explained the dynamic changes in fungal-bacterial network properties. Taken together, this study provides evidence for the interplay of biotic and abiotic factors structuring potential microbial interactions in stream biofilms along a mountainside elevational gradient.

Evaluation of impact of land use and landscape metrics on surface water quality in the northeastern part along Lake Tanganyika, Africa.

As the second deepest lake in Africa, Lake Tanganyika plays an important role in supplying fish protein for the catchment's residents and is irreplaceable in global biodiversity. However, the lake's water environment is threatened by socioeconomic development and rapid population growth along the lake. This study analyzed the spatial scale effects and seasonal dependence of land use types and landscape metrics on water quality in 16 sub-basins along northeastern Lake Tanganyika at different levels of urbanization. The results revealed that land use types had a higher influence on water quality in urban areas than that in rural areas; the explanatory variance in the urban area was 0.78-0.96, while it was 0.21-0.70 in the rural area. The explanatory ability of land use types on water quality was better at the buffer scale than at the sub-watershed scale, and the 500 m buffer scale had the highest explanatory ability in the urban area and rural area both in the rainy season and dry season, and artificial surface and arable land were the main contributing factors. And this phenomenon was more obvious in dry season than in rainy season. We identified that CONTAG was the key landscape metric in urban area and was positively correlated with nutrient variables, indicating that water quality degraded in less fragmented landscapes. The sub-watershed scale had the highest explained ability, while in rural area, the 1500 m buffer scale had the highest explained ability and IJI had the highest explanatory variance, which had a negative effect on water quality. Research on the relationship between land use and water quality would help assess the water quality in the unmonitored watershed as monitoring is expensive and time-consuming in low-income area. This knowledge would provide guideline to watershed managers and policymakers to prioritize the future land use development within Lake Tanganyika basin.

Climate and Environmental Variables Drive Stream Biofilm Bacterial and Fungal Diversity on Tropical Mountainsides.

High mountain freshwater systems are particularly sensitive to the impacts of global warming and relevant environmental changes. Microorganisms contribute substantially to biogeochemical processes, yet their distribution patterns and driving mechanism in alpine streams remain understudied. Here, we examined the bacterial and fungal community compositions in stream biofilm along the elevational gradient of 745-1874 m on Mt. Kilimanjaro and explored their alpha and beta diversity patterns and the underlying environmental drivers. We found that the species richness and evenness monotonically increased towards higher elevations for bacteria, while were non-significant for fungi. However, both bacterial and fungal communities showed consistent elevational distance-decay relationships, i.e., the dissimilarity of assemblage composition increased with greater elevational differences. Bacterial alpha diversity patterns were mainly affected by chemical variables such as total nitrogen and phosphorus, while fungi were affected by physical variables such as riparian shading and stream width. Notably, climatic variables such as mean annual temperature strongly affected the elevational succession of bacterial and fungal community compositions. Our study is the first exploration of microbial biodiversity and their underlying driving mechanisms for stream ecosystems in tropical alpine regions. Our findings provide insights on the response patterns of tropical aquatic microbial community composition and diversity under climate change.

Sustainable nitrogen management strategies based on nitrogen flow in urban human system.

Urban nitrogen discharge has become an important factor leading to urban water environment deterioration, water crisis, and frequent air pollution. Human consumption is the driving force of nitrogen flow and the core of urban nitrogen research. Based on the process of nitrogen flow in the urban human system, combined with the relevant United Nations Sustainable Development Goals (SDGs) and taking Dar es Salaam as an example, we established a generic analytical framework for sustainable nitrogen management and put forward the strategies of sustainable nitrogen management in the urban human system. The main conclusions are as follows. (1) Waste nitrogen discharge affected the environment quality. 5286 t of N (5095 t of N-NH3, 86 t of N-N2O, and 105 t of N-NOx) was emitted into the atmosphere that affected air quality. 9304 t of N was discharged into surface water and 203 t of N was leaked, which had a negative impact on the prevention and control of surface water pollution. And 8334 t of N pose a potential threat to environmental quality. (2) Nitrogen management in Dar es Salaam faced huge challenges. From the perspective of nitrogen flow of the urban human system, the diet structure and household energy structure need to be optimized, and food waste is serious. Sewage treatment and garbage treatment are seriously insufficient, and the corresponding technologies are backward. In order to solve the existing problems of nitrogen flow in the urban human system and include sustainable nitrogen management under future challenges of growing population and economy, we proposed strategies including healthy diet guidance, reducing food waste, detailed assessment of household nitrogen accumulation, transformation of household energy structure to low nitrogen emission energy, increasing nitrogen recycling ratio, and infrastructure improvement of sewage treatment and garbage treatment, hence contributing to the achievement of related SDGs.

Sediment organic matter properties facilitate understanding nitrogen transformation potentials in East African lakes.

East African lakes include the most productive and alkaline lake group in the world. Yet, they generally receive fewer nutrient inputs than the densely populated subtropical and temperate lakes in the northern hemisphere. In these lakes with insufficient supplies of inorganic nitrogen, the mineralization of benthic organic matter can play an important role in driving the nutrient cycle and nitrogen loss. Using a suite of stable 15N isotope dilution and tracer techniques, we examined five main processes of the sediment nitrogen cycle in 16 lakes and reservoirs of Tanzania and Kenya, East Africa: gross nitrogen mineralization, ammonium immobilization, dissimilatory nitrate reduction to ammonium (DNRA), and the dinitrogen (N2) production via denitrification and anaerobic ammonium oxidation (anammox). Gross nitrogen mineralization and ammonium immobilization showed the maximum values of 9.84 and 12.39 µmol N kg-1 h-1, respectively. Potential DNRA rates ranged from 0.22 to 8.15 µmol N kg-1 h-1 and accounted for 10 %-74 % (average 25 %) of the total dissimilatory nitrate reduction. Potential nitrate reduction rates in most lakes were dominated by denitrification with a contribution of 26 %-85 % and a mean of 65 %. We further found that the sediment nitrogen transformations were driven mainly by benthic organic matter properties and water column phosphate concentrations, reflecting microbial metabolic responses to the changing carbon and nutrients availability. For instance, autochthonous production of protein-like organic matter attributed to active sediment nitrogen mineralization, DNRA, and denitrification. In contrast, the high degree of humification caused by the inputs of terrestrial humic-like substances slowed down the sediment nitrogen transformations. The contribution of DNRA to total dissimilatory nitrate reduction was significantly positively correlated to sediment C: N ratios. These results indicate that predictions of sediment N supply and loss in East African lakes can be improved by incorporating sediment organic matter properties.

Community monitoring of coliform pollution in Lake Tanganyika.

Conventional water quality monitoring has been done for decades in Lake Tanganyika, under different national and international programs. However, these projects utilized monitoring approaches, which were temporally limited, labour intensive and costly. This study examines the use of citizen science to monitor the dynamics of coliform concentrations in Lake Tanganyika as a complementary method to statutory and project-focused measurements. Persons in five coastal communities (Kibirizi, Ilagala, Karago, Ujiji and Gombe) were trained and monitored total coliforms, faecal coliforms and turbidity for one year on a monthly basis, in parallel with professional scientists. A standardized and calibrated Secchi tube was used at the same time to determine turbidity. Results indicate that total and faecal coliform concentrations determined by citizen scientists correlated well to those determined by professional scientists. Furthermore, citizen scientist-based turbidity values were shown to provide a potential indicator for high FC and TC concentrations. As a simple tiered approach to identify increased coliform loads, trained local citizen scientists could use low-cost turbidity measurements with follow up sampling and analysis for coliforms, to inform their communities and regulatory bodies of high risk conditions, as well as to validate local mitigation actions. By comparing the spatial and temporal dynamics of coliform concentrations to local conditions of infrastructure, population, precipitation and hydrology in the 15 sites (3 sites per community) over 12 months, potential drivers of coliform pollution in these communities were identified, largely related to precipitation dynamics and the land use.

Assessment of urban river water pollution with urbanization in East Africa.

Anthropogenic pollution plays an important part in deteriorating the water quality of rivers all over the world, especially in urban areas of Africa where water quality monitoring is still seriously constrained by the limited test facility and capability. In this study, for evaluating the impact of urbanization on the river water quality, we investigated four typical urban rivers of Tanzania through the upper-urban-down gradient assessment approach and analyzed by water quality index (WQI) and statistical methods. The physicochemical indices monitored in these rivers revealed that the contents of those indicators of TN, TP, PO43-, NH4+, CODMn, and NO3- were accumulated significantly in the lower reaches of the cities, which indicated the life-type pollution characteristics in such urban rivers of Africa. The following main conclusions are achieved from this study. The water quality of 30% of the investigated river sections is in the medium to good status based on the subjective WQI with sensory factors included. Moreover, the sections with obvious water quality decline are mainly limited to the river segments within the urban central area, and severe pollution of water bodies is closely related to large cities, indicating an increasing pollution tendency with the quickly growing population. Therefore, to help formulate water pollution control policies in response to the rapid urban expansion in African countries, it is necessary to adopt an economical and feasible method to carry out early monitoring of surface water quality timely.

Wet deposition of atmospheric nitrogen contributes to nitrogen loading in the surface waters of Lake Tanganyika, East Africa: a case study of the Kigoma region.

Lake Tanganyika, an African Great Lake, is a complex tropical ecosystem that has been subjected to extreme climate-related changes in the last century, including seasonal changes in temperature and rainfall, decreased overall annual rainfall, and greater frequency of rainstorms. Atmospheric nitrogen (N) is an important component of the lake's N loading, but how long-term and seasonal changes in precipitation affect this loading still needs clarification. This study aimed to improve our understanding of the seasonal features of N deposition in the lake, by monitoring atmospheric N deposition concentrations and fluxes from March 2013 to February 2014. There was a significant temporal variation in wet N depositions in the study area. The distribution of the annual rainfall into major (March-May 299.8 mm) and minor (October-December 343.2 mm) rainy seasons translated into 20 and 30% of N deposition. In September and January-February, there was 10 and 12% precipitation, representing 43 and 7% of N deposition in the lake. Nitrogen deposition was highest in September due to farmlands' burning during the dry season (June-August), leading to N accumulation in the atmosphere. In conclusion, the pattern of N deposition appears to be driven by the unique climatic characteristics of the lake basin and to be closely associated with local anthropogenic activities.