Article
Soil Science
Dongyao Sun, Xiufeng Tang, Jun Li, Min Liu, Lijun Hou, Guoyu Yin, Cheng Chen, Qiang Zhao, Uli Klumper, Ping Han
Summary: The study evaluated the impact and specificity of various specific nitrification inhibitors on comammox Nitrospira in pure and mixed cultures. It was found that chlorate specifically inhibited the ammonia and nitrite oxidation activity of comammox Nitrospira, allowing for the quantification of comammox activity in wetlands and providing insights into the ecological roles of comammox bacteria in coastal environments.
SOIL BIOLOGY & BIOCHEMISTRY
(2022)
Article
Biotechnology & Applied Microbiology
Yongxin Lin, Kam W. Tang, Guiping Ye, Ping Yang, Hang-Wei Hu, Chuan Tong, Yong Zheng, Mengmeng Feng, Milin Deng, Zi-Yang He, Ji-Zheng He
Summary: This study investigated the impact of habitat modifications on comammox Nitrospira communities in coastal wetland sediments in southeastern China. The results showed that sediment grain size had a greater influence on comammox Nitrospira abundances than habitat modifications. Aquaculture pond sediments had lower comammox Nitrospira diversity and different clade abundances compared to marshes and native mudflats. The response of the comammox Nitrospira community to habitat change varied significantly by location, indicating the stochastic nature of these sediment communities.
APPLIED AND ENVIRONMENTAL MICROBIOLOGY
(2023)
Article
Microbiology
Ping Sun, Ziting Zhao, Pingshan Fan, Wei Chen, Yunze Ruan, Qing Wang
Summary: The combined application of biochar and NPK fertilizer has a positive effect on improving soil nitrification by affecting communities of AOB and NOB in rhizosphere soil. These new revelations, especially as they related to understudied NOB, can be used to increase efficiency of agricultural land and resource management.
FRONTIERS IN MICROBIOLOGY
(2021)
Article
Biotechnology & Applied Microbiology
Yongxin Lin, Kam W. Tang, Guiping Ye, Ping Yang, Hang-Wei Hu, Chuan Tong, Yong Zheng, Mengmeng Feng, Milin Deng, Zi-Yang He, Ji-Zheng He
Summary: This study examined the impact of habitat modifications on comammox Nitrospira communities in coastal wetland sediments in southeastern China. The results showed that sediment grain size and sulfate concentration were important factors influencing the abundance and diversity of comammox Nitrospira. The response of comammox Nitrospira community to habitat change varied by location, and dispersal limitation played a significant role in the community assembly process in coastal wetland sediments.
APPLIED AND ENVIRONMENTAL MICROBIOLOGY
(2023)
Article
Engineering, Environmental
Maosheng Zheng, Zhichao Tian, Zimin Chai, Anqi Zhang, Ailu Gu, Guangli Mu, Dedong Wu, Jianhua Guo
Summary: The recent discovery of complete ammonia oxidation (comammox) bacteria has challenged the traditional understanding of nitrification. However, their importance in wastewater treatment plants (WWTPs) is still not well understood. This study found that comammox Nitrospira was present in all 25 WWTPs and even outnumbered other ammonia oxidizers. It was also confirmed that comammox Nitrospira actively participated in ammonia oxidation. These findings demonstrate the widespread occurrence and functional dominance of comammox in WWTPs.
Article
Biotechnology & Applied Microbiology
Xiufeng Tang, Jun Li, Dongyao Sun, Linfa Fang, Lijun Hou, Min Liu, Ping Han
Summary: This study investigated the nitrification process in typical inland and coastal wetlands in northern China and found a high diversity of ammonia oxidizers. Through simulating the freezing-thawing state and conducting microcosm incubation, researchers discovered that ammonia-oxidizing archaea and comammox Nitrospira clade B were able to recover their activities after the freeze-thaw cycle, indicating their resistance to freeze-thaw conditions.
INTERNATIONAL BIODETERIORATION & BIODEGRADATION
(2023)
Article
Environmental Sciences
Laibin Huang, Guangliang Zhang, Junhong Bai, Zhijian Xia, Wei Wang, Jia Jia, Xin Wang, Xinhui Liu, Baoshan Cui
Summary: The study evaluated the effectiveness of desalinization via freshwater restoration in coastal wetlands by analyzing microbial communities and activities. The results showed that freshwater input significantly increased soil organic carbon content and improved microbial diversity and functions in restored wetlands. The recovered microbial diversity and abundance of specific bacteria in restored wetlands were similar to those in original freshwater wetlands.
SCIENCE OF THE TOTAL ENVIRONMENT
(2021)
Article
Biodiversity Conservation
Kaoping Zhang, Yu Shi, Haiying Lu, Minyan He, Wei Huang, Evan Siemann
Summary: Coastal reclamation poses a global threat to coastal wetland ecosystems, but its impacts on belowground biodiversity and nutrient cycling remain unclear. This study investigated the soil bacterial communities and multi-nutrient cycling index in natural vegetated coastal wetlands and rice-wheat rotation fields reclaimed from wetlands. The results showed that rice-wheat reclamation increased soil bacterial alpha diversity but decreased beta diversity and co-occurrence network complexity. The relative abundance of certain bacterial groups also changed with reclamation. The variations in soil bacterial community were mainly controlled by dispersal limitation and homogenizing dispersal, and were strongly related to soil multi-nutrient cycling, especially bacterial connection complexity.
ECOLOGICAL INDICATORS
(2022)
Article
Environmental Sciences
Mengmeng Feng, Zi-Yang He, Jianbo Fan, An-Hui Ge, Shengsheng Jin, Yongxin Lin, Ji-Zheng He
Summary: This study investigated the response of comammox Nitrospira to temperature change and nitrogen addition in agroecosystems. The results showed that temperature had a stronger effect than nitrogen addition on the abundance and community structure of comammox Nitrospira. Furthermore, it was found that the A.2.1 subclade of comammox Nitrospira was the dominant phylotype in the tested soils, and was not affected by temperature and nitrogen addition.
JOURNAL OF SOILS AND SEDIMENTS
(2022)
Article
Environmental Sciences
Lauren Hale, Aileen Hendratna, Natalie Scott, Suduan Gao
Summary: Application of inorganic nitrogen fertilizers in agriculture can lead to increased emissions of nitrous oxide, nitrate leaching, and soil acidification. However, soil amendment with biochar has the potential to mitigate these negative effects. This study evaluated the impact of biochar soil incorporation on nitrogen transformation and microbial processes, taking into account the variability of biochar materials and soil conditions. The findings showed that soil moisture was a critical factor affecting nitrogen transformation, and biochar had a significant influence on nitrogen species concentrations and nitrification rates. The study also observed that the co-application of biochar with manure composts slightly enhanced nitrification. Overall, this research highlights the importance of considering soil moisture and environmental conditions when assessing the implications of biochar on the fate of nitrogen fertilizers.
SCIENCE OF THE TOTAL ENVIRONMENT
(2023)
Article
Environmental Sciences
Ren-Min Yang, Liang-Jie Wang, Liu-Mei Chen, Zhong-Qi Zhang
Summary: This study investigated the feasibility of using VNIRS and partial least squares analysis to predict soil quality in Spartina alterniflora marshes. The results demonstrated that VNIRS can be an efficient approach for estimating soil quality and discriminating soil states associated with the establishment of S. alterniflora. The study suggests that VNIRS has high potential for monitoring soil quality in coastal ecosystems.
ENVIRONMENTAL EARTH SCIENCES
(2022)
Article
Environmental Sciences
Shun Han, Qiaoyun Huang, Wenli Chen
Summary: Organic fertilization can enhance soil potential nitrite oxidation activity, while different fertilization treatments have varying effects on Nitrospira abundance and community structure. The Nitrospira community structure shifts with fertilization types, but remains stable across different soil aggregate sizes.
JOURNAL OF SOILS AND SEDIMENTS
(2021)
Article
Soil Science
Haiyang Liu, Shengnan Zhang, Wei Xu, Hongen Liu, Jiangye Li, Jizheng He, Wenfeng Tan
Summary: The discovery of complete ammonia oxidizers has revolutionized our understanding of two-step nitrification. Previous studies have suggested that these organisms may outcompete canonical ammonia oxidizers under ammonia-limited conditions. However, there is currently no convincing evidence linking their activity to nitrification in acidic soils.
BIOLOGY AND FERTILITY OF SOILS
(2023)
Article
Microbiology
Pei-Chun (Lisa) Hsu, Hong J. Di, Keith Cameron, Andriy Podolyan, Henry Chau, Jiafa Luo, Blair Miller, Sam Carrick, Paul Johnstone, Scott Ferguson, Wenhua Wei, Jupei Shen, Limei Zhang, Hongbin Liu, Tongke Zhao, Wenxue Wei, Weixin Ding, Hong Pan, Yimeng Liu, Bowen Li
Summary: The recent discovery of comammox Nitrospira challenges our understanding of the nitrification process. This study found that comammox Nitrospira Clade B is more abundant than Clade A in a fertile dairy pasture soil and discovered a distinctive uncultured subcluster Clade B2. The study also revealed that comammox Nitrospira Clade B is active in nitrification and inhibited by high ammonium concentration and the nitrification inhibitor DCD. This is the first study to discover a new subcluster of comammox Nitrospira Clade B2 from agricultural soil.
FRONTIERS IN MICROBIOLOGY
(2022)
Article
Geosciences, Multidisciplinary
Xuehui Zhang, Junhong Bai, Zhongsheng Zhang, Tian Xie, Guangliang Zhang, Yue Liu, Guozhu Chen, Zhe Liu
Summary: Exotic plant invasion alters soil carbon transformation and microbial community diversity in coastal wetlands. The dissolved organic matter (DOM) compositions and their relationships with microbial communities change with increasing time since invasion. The findings provide a better understanding of labile carbon turnover in invaded wetlands.
Article
Agriculture, Multidisciplinary
Yalan Tian, Ping Yang, Hong Yang, Huimin Wang, Linhai Zhang, Chuan Tong, Derrick Y. F. Lai, Yongxin Lin, Lishan Tan, Yan Hong, Chen Tang, Kam W. Tang
Summary: Emissions of nitrous oxide (N2O) from aquaculture, particularly in China, are poorly understood. This study investigated N2O dynamics in aquaculture ponds in southeastern China and found that the water column and sediment contribute differently to N2O production and emission. The study estimates that China's coastal aquacultural ponds emit a relatively small amount of N2O compared to other aquaculture operations.
AGRICULTURE ECOSYSTEMS & ENVIRONMENT
(2023)
Article
Environmental Sciences
Shuai Du, Jiao Feng, Li Bi, Hang-Wei Hu, Xiuli Hao, Qiaoyun Huang, Yu-Rong Liu
Summary: Rice-crayfish co-culture system has the potential to spread and cause pathogenicity of resistance and virulence genes, posing a potential threat to human health. The system selectively enriched certain subtypes of these genes and showed a higher horizontal transfer potential.
ENVIRONMENT INTERNATIONAL
(2023)
Article
Ecology
Kunkun Fan, Haiyan Chu, David J. J. Eldridge, Juan J. J. Gaitan, Yu-Rong Liu, Blessing Sokoya, Jun-Tao Wang, Hang-Wei Hu, Ji-Zheng He, Wei Sun, Haiying Cui, Fernando D. D. Alfaro, Sebastian Abades, Felipe Bastida, Marta Diaz-Lopez, Adebola R. R. Bamigboye, Miguel Berdugo, Jose L. Blanco-Pastor, Tine Grebenc, Jorge Duran, Javier G. G. Illan, Thulani P. P. Makhalanyane, Arpan Mukherjee, Tina U. U. Nahberger, Gabriel F. F. Penaloza-Bojaca, Cesar Plaza, Jay Prakash Verma, Ana Rey, Alexandra Rodriguez, Christina Siebe, Alberto L. L. Teixido, Pankaj Trivedi, Ling Wang, Jianyong Wang, Tianxue Yang, Xin-Quan Zhou, Xiaobing Zhou, Eli Zaady, Leho Tedersoo, Manuel Delgado-Baquerizo
Summary: In urban greenspaces, soil biodiversity is positively correlated with multiple ecosystem functions, while plant diversity indirectly influences multifunctionality. Conserving soil biodiversity is crucial for supporting multiple dimensions of ecosystem functioning in urban ecosystems.
NATURE ECOLOGY & EVOLUTION
(2023)
Review
Microbiology
Minxiao Ma, Paul W. J. Taylor, Deli Chen, Niloofar Vaghefi, Ji-Zheng He
Summary: Tomato is the second most cultivated vegetable crop globally and is grown in temperate climates. Soilborne pathogens, including bacteria, fungi, nematodes, and oomycetes, have serious impacts on tomato yield and quality. Biological control, with its high efficiency, target-specificity, sustainability, and public acceptance, has become a popular method for managing these diseases.
Article
Environmental Sciences
Ping Yang, Kam W. Tang, Linhai Zhang, Xiao Lin, Hong Yang, Chuan Tong, Yan Hong, Lishan Tan, Derrick Y. F. Lai, Yalan Tian, Wanyi Zhu, Manjing Ruan, Yongxin Lin
Summary: This study investigated the impact of plant invasion and aquaculture activities on nitrogen dynamics and greenhouse gas emissions in coastal wetlands in China. The results showed that invasion by Spartina alterniflora increased the production of N2O, while conversion to aquaculture ponds decreased it. Nitrogen substrate availability and abundance of ammonia oxidizers were identified as the key factors driving these changes.
ENVIRONMENTAL RESEARCH
(2023)
Article
Ecology
Ren Bai, Hang-Wei Hu, Meng Zhou, Jun Sheng, Chao Xiong, Yumeng Guo, Yujia Yuan, Longyu Hou, Wen-Hao Zhang, Wenming Bai
Summary: Long-term mowing can lead to stunted plant growth and reduced grassland productivity. The responses of leaf/root-associated bacterial communities to mowing were examined in a temperate grassland. The diversity of bacterial communities varied depending on plant traits and mowing treatment. The study sheds light on the complex relationships between leaf/root microbiomes and plant traits.
FUNCTIONAL ECOLOGY
(2023)
Article
Environmental Sciences
Quan-Cheng Wang, Sheng-Sheng Jin, Shanshan Liu, Ge Song, Chunjian Duan, Peng-Peng Lue, Pulak Maitra, Lin Xie, Yongxin Lin, Hang-Wei Hu, Ji-Zheng He, Yong Zheng
Summary: Nitrogen and phosphorus amendments have significant effects on fungal diversity and community composition, but their impacts on arbuscular mycorrhizal fungal communities in forest soil are still unclear.
JOURNAL OF SOILS AND SEDIMENTS
(2023)
Article
Environmental Sciences
Yongxin Lin, Hang-Wei Hu, Milin Deng, Ping Yang, Guiping Ye
Summary: This study investigated the abundance, community structure, and co-occurrence network of nosZ I and nosZ II carrying microorganisms in a subtropical coastal wetland. The results showed that nosZ I and nosZ II carrying microorganisms differed in taxonomic identities and were positively associated with salinity, total carbon, and total nitrogen. The study also found that nosZ I and nosZ II likely shared similar ecological niches based on the co-occurrence analysis.
SCIENCE OF THE TOTAL ENVIRONMENT
(2023)
Article
Soil Science
Song Wan, Yongxin Lin, Jianbo Fan, Hang-Wei Hu, Jinbo Zhang, Sheng-Sheng Jin, Milin Deng, Christoph Mueller, Ji-Zheng He
Summary: Long-term lime and manure amendment can have different impacts on N2O emissions due to their differential effects on autotrophic and heterotrophic nitrification. Lime amendment increased N2O emissions by promoting autotrophic nitrification, while manure amendment decreased N2O emissions by reducing both heterotrophic and autotrophic nitrification. These results provide important insights for the sustainable management of acidic arable soils.
SOIL BIOLOGY & BIOCHEMISTRY
(2023)
Article
Forestry
Yuting Yan, Danting Yu, Lili Han, Chengyu Yuan, Jizheng He
Summary: As the most abundant organisms on earth, viruses play a crucial role in shaping bacterial communities, mediating gene transfer, and promoting biogeochemical cycles. However, soil viruses are still understudied, and there is a lack of information about community construction, virus-host interactions, and ecological functions. In this study, we investigated viral and bacterial communities in different land use types in China and found that viral communities differed significantly between land use types. We also identified abundant auxiliary metabolic genes in the viral genomes, suggesting that viruses could regulate bacterial carbon cycling processes.
Editorial Material
Biodiversity Conservation
Yongliang Chen, Hang-Wei Hu
GLOBAL CHANGE BIOLOGY
(2023)
Article
Biodiversity Conservation
Zewen Hei, Yiting Peng, Shenglei Hao, Yiming Li, Xue Yang, Tongbin Zhu, Christoph Mueller, Hongyan Zhang, Hangwei Hu, Yongliang Chen
Summary: This study found that replacing chemical fertilizer with organic manure can significantly reduce N2O emissions in croplands. Organic manure decreased the abundance and diversity of ammonia oxidizing bacteria (AOB), but increased the abundance and diversity of ammonia oxidizing archaea and comammox Nitrospira. Moreover, organic manure also decreased organic N mineralization and autotrophic nitrification rate. This study highlights the importance of ammonia oxidizers and N transformation rates in predicting cropland N2O emissions.
GLOBAL CHANGE BIOLOGY
(2023)
Article
Ecology
Thi Bao-Anh Nguyen, Michael Bonkowski, Kenneth Dumack, Qing-Lin Chen, Ji-Zheng He, Hang-Wei Hu
Summary: This study investigated the response of antibiotic resistance genes (ARGs) in soil to predation pressure from protists. The results showed that an increase in protistan predation pressure was associated with higher abundance and diversity of ARGs in the soil. High concentrations of protists significantly increased the abundance of genes encoding multidrug and tetracycline resistance, as well as the abundance of certain bacterial genera.
Article
Engineering, Civil
Lele Tang, Linhai Zhang, Ping Yang, Chuan Tong, Hong Yang, Lishan Tan, Yongxin Lin, Derrick Y. F. Lai, Kam W. Tang
Summary: This study measured CO2 concentrations in aquaculture ponds in the Shanyutan Wetland, China, and calculated CO2 fluxes between sediment-water and water-air interfaces. It was found that photosynthetic activity drove the temporal variations in water column CO2 concentration and water-air CO2 flux, while sediment temperature influenced the changes in porewater CO2 concentration and sediment-water CO2 flux. The pond water body showed a high capacity to consume excess CO2.
JOURNAL OF HYDROLOGY
(2023)
Article
Plant Sciences
Xue Yang, Manuel Delgado-Baquerizo, Yuxuan Niu, Peter Christie, Ji Chen, Hangwei Hu, Yongliang Chen
Summary: The design of cropping systems plays a critical role in bridging the gap between ecosystem sustainability and commercial profitability. Rotational systems with three harvests within 2 yr have shown great potential in enhancing ecosystem services and minimizing trade-offs among multiple agricultural ecosystem services, resulting in a 'win-win' situation for economics and multiple services.
