Article
Ecology
Yuan Sun, Cuiting Wang, Jinyan Yang, Jiahui Liao, Han Y. H. Chen, Honghua Ruan
Summary: The study conducted a global meta-analysis to investigate the effects of elevated CO2 on soil microbial communities. The results showed that elevated CO2 shifts soil microbial communities from K-to r-strategists, with different microbial attributes responding to elevated CO2 concentrations and experimental durations. Responses of microbial communities to elevated CO2 did not significantly differ across different ecosystems.
GLOBAL ECOLOGY AND BIOGEOGRAPHY
(2021)
Article
Agriculture, Multidisciplinary
Haydee E. Laza, Veronica Acosta-Martinez, Amanda Cano, Jeff Baker, James Mahan, Dennis Gitz, Yves Emendack, Lindsey Slaughter, Robert Lascano, David Tissue, Paxton Payton
Summary: The study found that soil respiration and temperature could serve as indicators of ecosystem productivity and climate feedback in future semi-arid climates. Soil organic carbon and AMF were also identified as indicators of soil nutrient status. This research provides important insights into understanding the impact of these changes on soil ecology and climate feedback, as well as the carbon cycling and productivity of peanut agroecosystems in future climates.
AGRICULTURE ECOSYSTEMS & ENVIRONMENT
(2023)
Article
Environmental Sciences
Charles Wang Wai Ng, Jia Xin Liao, Sze Yu Lau, Pui San So, Billy Chi Hang Hau, Daniel Peprah-manu
Summary: This study investigates the effects of biochar on soil microbial communities in tree seedlings under elevated CO2 concentration (eCO2). The results show that biochar improves plant growth and enhances soil enzyme activity under both ambient and elevated CO2 conditions, although its impact on microbial diversity is limited under eCO2.
JOURNAL OF ENVIRONMENTAL MANAGEMENT
(2023)
Article
Soil Science
Muhammad Ahmed Waqas, Yu 'e Li, Muhammad Nadeem Ashraf, Waqas Ahmed, Bin Wang, Muhammad Fahad Sardar, Ping Ma, Runan Li, Yunfan Wan, Yakov Kuzyakov
Summary: This study investigated the effects of climate warming and elevated CO2 levels on the community structure and population size of nitrifying bacteria. Results showed that increased CO2 and temperature enhanced the abundance of AOB and the nitrification rate, while AOA were less sensitive to these climate change factors. The nitrifying bacterial community exhibited remarkable resilience to the individual and interactive impacts of warming and elevated CO2.
APPLIED SOIL ECOLOGY
(2021)
Article
Microbiology
Taylor J. Seitz, Ursel M. E. Schuette, Devin M. Drown
Summary: This study investigates the impact of soil disturbance on microbial communities and their functional composition, and how these changes can affect plant growth and ecosystem health. The results show that soil disturbance leads to significant shifts in microbial communities, with certain microbial families associated with plant growth promoters being less abundant in disturbed soil compared to undisturbed soil. On the other hand, microbial families associated with agricultural pathogens are overrepresented in disturbed soil. The study also suggests that soil disturbance influences microbial community function, including mechanisms involved in plant pathogenicity.
FRONTIERS IN MICROBIOLOGY
(2022)
Article
Ecology
Yu Liu, Fangliang He
Summary: This study investigated the effects of warming on plant-soil feedback (PSF) by conducting a field experiment. The results showed that warming reduced seedling mortality of a rhizobia-associated tree species but had no effect on an ectomycorrhizal fungi-associated tree species. These findings suggest that warming may alter tropical tree species composition and diversity through changes in soil-borne microbes and their interactions with plants.
Article
Environmental Sciences
Jiahui Yan, Qiang Li, Linan Hu, Jiaqi Wang, Qihai Zhou, Juxin Zhong
Summary: The variation of microbial composition and structure in a calcareous soil chronosequence in karst region of southwest China was investigated. The results showed significant differences in the structure of microbial communities along the chronosequence. Fungal community shifted from pathotroph to symbiotroph trophic pattern, with the emergence of Ectomycorrhizal fungi (ECM). These microorganisms play significant roles in the carbon, nitrogen, and phosphorus cycling in calcareous soils.
SCIENCE OF THE TOTAL ENVIRONMENT
(2022)
Article
Plant Sciences
Eduardo Habermann, Eduardo Augusto Dias de Oliveira, Daniele Ribeiro Contin, Joao Vitor Campos Pinho Costa, Katia Aparecida de Pinho Costa, Carlos Alberto Martinez
Summary: This study investigates the effects of elevated carbon dioxide concentration and warming on managed tropical grasslands. The results show that warming cancels out the improvements caused by elevated carbon dioxide concentration in terms of plant transpiration and water relations.
FRONTIERS IN PLANT SCIENCE
(2022)
Article
Soil Science
Tiantian Zheng, Hongtu Xie, Grant L. Thompson, Xuelian Bao, Fangbo Deng, Enrong Yan, Xuhui Zhou, Chao Liang
Summary: Forest succession plays a crucial role in determining microbial contribution to soil organic carbon (SOC) in terrestrial ecosystems. Microorganisms facilitate SOC accumulation through the in vivo pathway along the successional gradient, with microbial processing of fine root litter being relatively more important for SOC variation in rhizosphere than in bulk soil during forest succession.
SOIL BIOLOGY & BIOCHEMISTRY
(2021)
Article
Environmental Sciences
Lilan Zhang, Meiling Yi, Peili Lu
Summary: This study investigates the effects of pyrene (PYR) on the structure and metabolism of soil microbial communities. The results show that PYR is mainly degraded by both Gram-negative and Gram-positive bacteria, and has a more significant impact on the diversity and abundance of bacterial communities compared to fungal communities. PYR also alters the patterns of trophic interaction and key taxa within the microbial communities, potentially leading to functional changes. In addition, PYR inhibits nitrogen fixation and ammonia oxidation processes while stimulating methylotrophy and methanol oxidation.
ENVIRONMENTAL POLLUTION
(2022)
Article
Agronomy
Lidong Ji, Xing Xu, Fengju Zhang, Haili Si, Lei Li, Guilian Mao
Summary: This study investigated the effects of chemical and organic fertilizer on soil properties, bacterial and fungal community structures, and diversity in a maize field experiment. The results showed that the combination of organic and chemical fertilizer increased soil organic matter, total N, total P, available N, available P, and available K levels. The application of fertilizers decreased bacterial and fungal diversity, with no significant impact on fungi by chemical fertilizer. Fertilization reduced microbial connections, especially in the combination of chemical and organic fertilizers. Soil organic matter, available N, and P were found to be the main factors influencing microbial community variations. Therefore, using organic or biological fertilizer in combination with chemical fertilizer is a promising method to maintain soil microbial balance in maize fields.
Article
Environmental Sciences
Zijian Qiu, Xinhua He, Haiyang Yu, Chunwu Zhu, Weishou Shen
Summary: The effects of elevated CO2 (eCO2) on paddy soil microbial communities are unclear, especially in different rice cultivars. This study compared the responses of soil bacterial communities to eCO2 and ambient CO2 (aCO2) in two weakly CO2-responsive and two strongly CO2-responsive rice cultivars. The results showed that eCO2 increased differences in bacterial diversity and had positive impacts on soil organic carbon and bacterial abundances. However, eCO2 did not significantly affect the relationship between bacterial diversity and rice yields.
SCIENCE OF THE TOTAL ENVIRONMENT
(2023)
Article
Soil Science
Shucheng Li, Shu Xie, Shijie Zhang, Shilin Miao, Shiming Tang, Hongyang Chen, Qiuwen Zhan
Summary: Elevated CO2 concentrations have a significant positive effect on soil microbial biomass, but this effect is influenced by factors such as atmospheric CO2 levels, experimental duration, and mean annual precipitation. Low CO2 levels in the short term and under high precipitation can promote the growth of soil microbial biomass, whereas long-term high CO2 levels result in a decrease in total microbial biomass.
Article
Microbiology
Xiao-Yu Zhu, Jiwen Liu, Chun-Xu Xue, Jiwei Tian, Xiao-Hua Zhang
Summary: The study found that microbial eukaryotes in the Mariana Trench show different community distributions and metabolic potentials at different depths, with phototrophic/mixotrophic groups dominating surface waters and heterotrophic groups enriched in deep waters. Co-occurrence analysis indicated that microbial eukaryotic composition is more influenced by themselves than bacteria. Different gene abundances at different depths in seawater help resist high hydrostatic pressure.
FRONTIERS IN MICROBIOLOGY
(2021)
Article
Environmental Sciences
Zhurong Wu, Yuanyuan Wang, Chao Liu, Nan Yin, Zhenghua Hu, Lidong Shen, A. R. M. Towfiqul Islam, Zhaowei Wei, Shutao Chen
Summary: This study found that increasing carbon dioxide concentration in the atmosphere can suppress nitrous oxide emissions from paddy fields, and this suppression is closely related to the abundance of ammonia-oxidizing archaea and nirK genes.
ENVIRONMENTAL POLLUTION
(2023)
Article
Engineering, Environmental
Yabing Meng, Depeng Wang, Zhong Yu, Qingyun Yan, Zhili He, Fangang Meng
Summary: This study investigates the cooccurring mechanisms and functional differentiation of four Candidatus Brocadia species enriched in a swine wastewater treatment system. The analysis reveals that these species can utilize different nitrogen compounds for nitrogen removal.
FRONTIERS OF ENVIRONMENTAL SCIENCE & ENGINEERING
(2023)
Article
Environmental Sciences
Chaohua Wang, Zhiyuan Yao, Pingping Zhan, Xianghua Yi, Jiong Chen, Jinbo Xiong
Summary: Antibiotic pollution poses urgent threats to public health and microbial-mediated ecological processes. This study explores the effects of increasing antibiotic pollution on the assembly of sediment microeukaryotes. The results show that the structures of sediment microeukaryotic community are substantially altered by nutrient and antibiotic pollutions, and certain taxa of microeukaryotes can accurately predict in-situ antibiotic concentration.
JOURNAL OF ENVIRONMENTAL SCIENCES
(2023)
Article
Engineering, Environmental
Xi Zhong, Ziwu Chen, Kengbo Ding, Wen-Shen Liu, Alan J. M. Baker, Ying-Heng Fei, Huan He, Yujie Wang, Chao Jin, Shizhong Wang, Ye-Tao Tang, Yuanqing Chao, Zhili He, Rongliang Qiu
Summary: Mining activities cause serious environmental pollution and stress to soil ecosystems. This study analyzed soil samples from metal mines in eastern China and found that pH and land use type played key roles in shaping the microbial community in heavy metal-contaminated soil. A core microbiome for soil restoration was identified. The findings enhance our understanding of microbial responses to environmental changes and can improve soil heavy metal contamination remediation practices.
JOURNAL OF HAZARDOUS MATERIALS
(2023)
Article
Ecology
Wangsuo Liu, Kaiyang Qiu, Yingzhong Xie, Yeyun Huang, Ruixia Wang, Haichao Li, Wenfen Meng, Yi He, Yayuan Li, Haiquan Li, Pengbo Zhao, Yi Yang
Summary: The planting of leguminous shrubs is an effective means to reverse desertification and improve soil microbial diversity. In the south of the Mu Us Sandy Land in China, introducing these shrubs enhances the diversity of soil bacteria and maintains ecosystem functioning by improving soil physicochemical properties.
Article
Engineering, Environmental
Lingzhan Miao, Wanyi Li, Tanveer M. Adyel, Yu Yao, Ye Deng, Jun Wu, Yongqiang Zhou, Yue Yu, Jun Hou
Summary: Plastics in the environment create a unique microorganism habitat called the plastisphere. This study investigates the microbial communities in the plastisphere and their ability to biodegrade non-biodegradable and biodegradable plastics. The results show that biodegradable plastics have higher degradation rates and trigger faster succession of the plastisphere compared to non-biodegradable plastics. Ecological networks reveal that biodegradable plastics attract and retain key microorganisms that enhance biodegradation in freshwater ecosystems.
Article
Microbiology
Yingcheng Wang, Ning Dang, Kai Feng, Junbang Wang, Xin Jin, Shiting Yao, Linlin Wang, Songsong Gu, Hua Zheng, Guangxin Lu, Ye Deng
Summary: This study investigated the relationships between grass productivity and diversity and soil microbes in alpine grasslands. The researchers found that microbial diversity was negatively correlated with grass diversity, but positively correlated with grass productivity. The study also showed that grass formed complex and stable ecological networks with bacterial, archaeal, and fungal species, and the grass-fungal networks were the most robust. Additionally, the connectivity degrees of the grass-microbial network were positively correlated with grass productivity, indicating a positive feedback effect. These findings contribute to our understanding of the regulatory mechanisms between plants and microorganisms in alpine grassland ecosystems.
FRONTIERS IN MICROBIOLOGY
(2023)
Article
Biotechnology & Applied Microbiology
Jiaqi Lu, Haonan Sha, Jiong Chen, Xianghua Yi, Jinbo Xiong
Summary: Current studies have shown that antibiotic exposure can alter the taxonomic structures of ecologically important microbial communities, but the resulting effects on functional potentials and biogeochemical processes are not well understood. In this study, metagenomic analyses were used to explore the responses of a sediment microbial community to increasing antibiotic pollution. The researchers found sharp differences in microbial communities and functional traits along the pollution gradient. Antibiotics inhibited nitrogen cycling pathways but stimulated methane production. Microbes were able to adapt to antibiotic pollution through enriched potential of sulfate uptake. A small number of genes could accurately diagnose antibiotic concentrations. This study provides a comprehensive understanding of the ecological consequences of increasing antibiotics pollution.
APPLIED MICROBIOLOGY AND BIOTECHNOLOGY
(2023)
Article
Agricultural Engineering
Xuanyu Tao, Josiah S. Morgan, Jiantao Liu, Megan L. Kempher, Tao Xu, Jizhong Zhou
Summary: In this study, CRISPR-Cas9n was used to integrate an efficient beta-glucosidase into the genome of C. cellulolyticum, disrupting lactate dehydrogenase (ldh) expression and reducing lactate production. The engineered strain showed significant improvements in cellulose degradation and ethanol production. These results demonstrate that simultaneous beta-glucosidase integration and lactate dehydrogenase disruption is an effective strategy for increasing cellulose to ethanol bioconversion rates in C. cellulolyticum.
BIORESOURCE TECHNOLOGY
(2023)
Article
Engineering, Environmental
Hao Wang, Hanlin Cui, Xiaodan Ma, Carolyn R. Cornell, Liying Zhang, Yijun Ren, Minghan Li, Ying Liu, Shu-Hong Gao, Zhiling Li, Ai-Jie Wang, Jizhong Zhou, Bin Liang
Summary: The widespread use of the antimicrobial substance triclocarban (TCC) has raised concerns about its impacts on wastewater treatment systems, the environment, and human health. This study investigated the adsorption of TCC by sludge and extracellular polymeric substances (EPS) in a multistage biological process. The results showed that EPS had a higher adsorption capacity for TCC than sludge, potentially due to its loose multilayer structure and abundant functional groups. TCC also had adverse effects on the biological removal of ammonia nitrogen. Our study provides molecular-level insights into the interaction between TCC and activated sludge, and evaluates the risks associated with its presence in wastewater treatment systems through computational modeling.
CHEMICAL ENGINEERING JOURNAL
(2023)
Article
Microbiology
Yujie Sha, Qingyun Yan, Jian Liu, Jiafeng Yu, Shicai Xu, Zhili He, Jing Ren, Jie Qu, Shiying Zheng, Guomin Wang, Weiying Dong
Summary: This study reveals the impact of homologous genes on the selective adhesion of probiotics and competitive exclusion of pathogens in the intestine by regulating the membrane proteins. Results showed that reducing the activity of FtsH protease can enhance the adhesion ability of L. plantarum HC-2 to shrimp mucus. The membrane proteins involved in transport and cellular processes are significantly affected. Furthermore, L. plantarum HC-2 exhibits adaptation to carbohydrate metabolism and bacteria-host interactions.
FRONTIERS IN MICROBIOLOGY
(2023)
Article
Microbiology
Jugui Zhuang, Ruihuan Zhang, Yufei Zeng, Tianjiao Dai, Zhencheng Ye, Qun Gao, Yunfeng Yang, Xue Guo, Guanghe Li, Jizhong Zhou
Summary: This study investigated the effects of petroleum pollution on soil microbial diversity, community structure, and network co-occurrence patterns in an abandoned refinery. The results showed that high levels of C10-C40 decreased soil microbial α-diversity and caused significant changes in community structure. However, the complexity of soil microbial networks increased with petroleum pollution levels, indicating more intricate microbial interactions.
FRONTIERS IN MICROBIOLOGY
(2023)
Article
Engineering, Environmental
Xuanyu Tao, Huanrong Ouyang, Aifen Zhou, Dongyu Wang, Hagan Matlock, Josiah S. Morgan, Abigail T. Ren, Dashuai Mu, Chongle Pan, Xuejun Zhu, Arum Han, Jizhong Zhou
Summary: In this study, a Rhodococcus strain A34 was isolated from naturally weathered plastic waste and potential key polyethylene degradation enzymes were identified. The degradation of polyethylene and the associated metabolic pathways were investigated through proteomics analysis. The findings provide valuable insights for optimizing plastic degradation conditions and assembling artificial microbial communities for efficient plastic degradation.
ENVIRONMENTAL SCIENCE & TECHNOLOGY
(2023)
Article
Fisheries
Jiangning Mao, Jiaqi Lu, Jiong Chen, Jinbo Xiong
Summary: Dysbiosis in the gut microbiota is closely related to shrimp diseases. A meta-analysis of 463 shrimp gut bacterial communities from 27 studies revealed that shrimp lifestages and diseases are the main factors affecting the gut microbiota. By optimizing the methodology, a diagnosis model with high accuracy in determining shrimp health status was developed.
FISH AND FISHERIES
(2023)
Article
Multidisciplinary Sciences
Yichao Wu, Chengxia Fu, Caroline L. Peacock, Soren J. Sorensen, Marc A. Redmile-Gordon, Ke-Qing Xiao, Chunhui Gao, Jun Liu, Qiaoyun Huang, Zixue Li, Peiyi Song, Yongguan Zhu, Jizhong Zhou, Peng Cai
Summary: Cooperative interactions between free-living and biofilm-forming bacteria are found to drive spatial segregation and enable species coexistence in a microfluidic chip environment, promoting their respective dominance in segregated microhabitats. This active spatial segregation is induced by cooperative interactions, improving the fitness of both biofilm and planktonic populations. The study also shows that free-living Arthrobacter induces surface colonization and receives benefits from public goods secreted by biofilm-forming strains.
NATURE COMMUNICATIONS
(2023)
Article
Marine & Freshwater Biology
Xiafei Zheng, Kui Xu, Jonathan Naoum, Yingli Lian, Bo Wu, Zhili He, Qingyun Yan
Summary: Microeukaryotes and bacteria play important roles in aquaculture ecosystems. This study examined their co-occurrence relationships using high-throughput sequencing data. The networks showed dominant phyla of Chlorophyta and fungi in water and sediment, respectively. Most microeukaryotes and bacteria were classified as generalists and had symmetric connections. Some microeukaryotes had asymmetric connections in water. Four microeukaryotes and twelve uncultured bacteria were identified as potential keystone taxa. The microeukaryotic-bacterial bipartite network in sediment had more nestedness compared to water. Loss of microeukaryotes and generalists could lead to the collapse of positive co-occurrence relationships in both water and sediment. This study provides insights into the structure and function of microeukaryotic-bacterial networks in aquaculture ecosystems.
MARINE LIFE SCIENCE & TECHNOLOGY
(2023)
