Article
Environmental Sciences
Mohamad-Javad Mehrani, Przemyslaw Kowal, Dominika Sobotka, Martyna Godzieba, Slawomir Ciesielski, Jianhua Guo, Jacek Makinia
Summary: This study developed an activated sludge model to account for competition between nitrite oxidizing bacteria and comammox bacteria. Experimental data was used for model calibration and validation, and the newly developed model accurately predicted the relative abundance of comammox bacteria and nitrifiers to heterotrophs ratio. The study contributes to a better understanding of autotrophic nitrogen removal processes with nitrite as an intermediate product.
SCIENCE OF THE TOTAL ENVIRONMENT
(2023)
Article
Environmental Sciences
Qintong Li, Ryo Hasezawa, Riho Saito, Kunihiro Okano, Kazuya Shimizu, Motoo Utsumi
Summary: Recirculating aquaculture systems (RAS) play an important role in water quality management and water conservation. This study compared the community structures of micro-ecosystems in RAS systems operated at different temperatures in a marine aquarium. It was found that AOA was the primary nitrifier in the biofilters, and its abundance and diversity were higher in high-temperature samples. NOB showed similar relative abundance patterns to AOA, suggesting a cooperative relationship between the two in the marine RAS system.
Article
Green & Sustainable Science & Technology
Yuxiang Zhao, Jiaqi Wang, Zishu Liu, Weiling Yang, Jiajie Hu, Zhongjun Jia, Baolan Hu
Summary: The study reveals the dominance of comammox Nitrospira in attached growth system and uncovers the mechanisms behind its dominance. Comammox Nitrospira achieves a two-way physiological feeding relationship by exchanging substances with co-occurrent partners.
JOURNAL OF CLEANER PRODUCTION
(2022)
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
Peyman Derikvand, Brittany Sauter, Lisa Y. Stein
Summary: The study found that gradually reducing pH from 7.6 to 5.6, followed by a gradual return of available ammonium, was the most effective strategy to retain 81% nitrification activity at pH 5.6. Furthermore, microbial communities adapted to pH 5.6 were enriched with comammox bacteria and showed below detection levels of N2O production.
APPLIED MICROBIOLOGY AND BIOTECHNOLOGY
(2021)
Article
Environmental Sciences
Yongxin Lin, Chunjian Duan, Jianbo Fan, Hang-Wei Hu, Zi-Yang He, Guiping Ye, Ji-Zheng He
Summary: This study found that 1-octyne and PTIO can significantly inhibit the growth of comammox Nitrospira, but have no significant effects on their community structure.
JOURNAL OF SOILS AND SEDIMENTS
(2023)
Review
Biotechnology & Applied Microbiology
Shanshan Meng, Xueji Liang, Tao Peng, Yongjin Liu, Hui Wang, Tongwang Huang, Ji-Dong Gu, Zhong Hu
Summary: This article reviews the importance of Comammox bacteria in studying nitrification and expanding the understanding of the nitrogen cycle. It highlights their crucial role in wastewater treatment and greenhouse gas flux in natural and engineered environments. However, there is limited research on the Comammox bacteria and their role in ammonia and nitrite oxidation in the environment. The review focuses on summarizing the genomes of Nitrospira in the NCBI database, discussing the ecological distribution and the influence of environmental parameters on this genus, and exploring their role in carbon, nitrogen, and sulfur cycles.
APPLIED MICROBIOLOGY AND BIOTECHNOLOGY
(2023)
Article
Soil Science
Yongxin Lin, Jianbo Fan, Hang-Wei Hu, Chunjian Duan, Guiping Ye, Song Wan, Zi-Yang He, Yong Zheng, Ji-Zheng He
Summary: The study investigated the abundance and community structure of comammox Nitrospira in acidic Ultisol under different fertilization treatments. The results showed that different fertilization treatments significantly impacted the abundance and community structure of comammox Nitrospira, with available phosphorus positively associated with the abundance of clade A, and soil pH being the best predictor for community structure variation. Different clusters of comammox Nitrospira showed niche differentiation preferences in response to various fertilization treatments in the acidic agricultural soil.
APPLIED SOIL ECOLOGY
(2022)
Article
Biotechnology & Applied Microbiology
Shanshan Meng, Tao Peng, Hui Wang, Tongwang Huang, Ji-Dong Gu, Zhong Hu
Summary: This study investigated the distribution and abundance of ammonia-oxidizing archaea and ammonia-oxidizing bacteria, complete ammonia oxidizers, and nitrite-oxidizing bacteria in mangrove ecosystems. The results showed that different primers had varying efficiency in detecting and characterizing specific bacterial groups in mangrove sediments. Additionally, diverse and abundant novel nitrifying bacteria were found in the mangrove sediments.
APPLIED MICROBIOLOGY AND BIOTECHNOLOGY
(2022)
Article
Biotechnology & Applied Microbiology
Sabita Ghimire-Kafle, Matt E. Weaver, Annette Bollmann
Summary: In this study, the comammox strain Nitrospira sp. BO4, obtained from Lake Burr Oak in Ohio, was characterized. It was found that Nitrospira sp.BO4 is a typical anaerobic bacterium capable of oxidizing ammonia to nitrate using nitrite as an intermediate. It showed the highest growth rates at low concentrations of ammonia, and its growth was inhibited by blue light while white light only slightly reduced its growth and red light had no effect. This research is important for understanding the physiological characteristics of anaerobic bacteria and the distribution and differentiation of different ammonia oxidizers in freshwater environments.
APPLIED AND ENVIRONMENTAL MICROBIOLOGY
(2023)
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
Engineering, Environmental
Jia Meng, Zhetai Hu, Zhiyao Wang, Shihu Hu, Yanchen Liu, Hongguang Guo, Jianzheng Li, Zhiguo Yuan, Min Zheng
Summary: This study provides a comprehensive assessment of the novel acidic nitrification process and identifies the key factors governing stable nitrite accumulation. The results suggest that stable nitrite accumulation can be maintained under various influent and operational conditions as long as a ppm-level of free nitrous acid (FNA) is established. Furthermore, specific ammonia-oxidizing microbial communities were observed under these conditions.
ENVIRONMENTAL SCIENCE & TECHNOLOGY
(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
Soil Science
Chaoyu Li, Hang-Wei Hu, Qing-Lin Chen, Zhen-Zhen Yan, Bao-Anh Thi Nguyen, Deli Chen, Ji-Zheng He
Summary: The study revealed a wide distribution of Comammox Nitrospira clade A, but not clade B, in various terrestrial ecosystems across eastern Australia, with the abundance and diversity of clade A primarily predicted by mean annual precipitation (MAP). Different environmental factors such as soil nitrate, temperature, and total nitrogen showed contrasting effects on the relative abundances of Comammox Nitrospira clade A.2.1 and A.3, indicating potential ecological niche differentiation in the soils.
SOIL BIOLOGY & BIOCHEMISTRY
(2021)
Article
Microbiology
Kento Ishii, Hirotsugu Fujitani, Yuji Sekiguchi, Satoshi Tsuneda
ENVIRONMENTAL MICROBIOLOGY
(2020)
Article
Food Science & Technology
Rie Aoi, Tatsuki Miyamoto, Akiko Yokota, Yuri Ota, Hirotsugu Fujitani, Satoshi Tsuneda, Naohiro Noda
Article
Plant Sciences
Rei Sonobe, Yuhei Hirono, Ayako Oi
Article
Remote Sensing
Rei Sonobe, Yuhei Hirono, Ayako Oi
REMOTE SENSING LETTERS
(2020)
Article
Multidisciplinary Sciences
Hiroto Yamashita, Rei Sonobe, Yuhei Hirono, Akio Morita, Takashi Ikka
SCIENTIFIC REPORTS
(2020)
Article
Microbiology
Hirotsugu Fujitani, Kengo Momiuchi, Kento Ishii, Manami Nomachi, Shuta Kikuchi, Norisuke Ushiki, Yuji Sekiguchi, Satoshi Tsuneda
FRONTIERS IN MICROBIOLOGY
(2020)
Article
Multidisciplinary Sciences
Hiroto Yamashita, Rei Sonobe, Yuhei Hirono, Akio Morita, Takashi Ikka
Summary: Spectroscopic sensing, combined with machine learning algorithms, allows for non-destructive estimation of free amino acids, catechins, and caffeine in tea leaves. The combination of de-trending pre-processing and Cubist algorithms consistently outperformed other combinations, with most values of performance to deviation ratio exceeding acceptable thresholds. Sensitivity analysis indicated important hyperspectral regions for accurate estimation.
SCIENTIFIC REPORTS
(2021)
Article
Environmental Sciences
Yuhei Hirono, Tomohito Sano, Sadao Eguchi
Summary: This study evaluated changes in nitrogen flows in green tea production and consumption in Japan, finding that the VNF value decreased from 54.5 in 1991 to 30.8 in 2016. This decrease was primarily due to the increased NUE in plantations and the higher consumption of ready-to-drink tea products, leading to an improved efficiency of nitrogen intake for consumers from green tea.
ENVIRONMENTAL SCIENCE AND POLLUTION RESEARCH
(2021)
Article
Multidisciplinary Sciences
Kanako Saito, Yuri Ota, Dieter M. Tourlousse, Satoko Matsukura, Hirotsugu Fujitani, Masamune Morita, Satoshi Tsuneda, Naohiro Noda
Summary: The technique combines microfluidic droplet technology with fluorescent nucleic acid probes to efficiently recover growth-positive droplets, establishing a comprehensive workflow for isolation and culturing of environmental microbes. The system uses off-the-shelf commercially available equipment, making it easily adoptable for widespread use in culturing previously uncultured microorganisms.
SCIENTIFIC REPORTS
(2021)
Article
Environmental Sciences
Shuta Kikuchi, Hirotsugu Fujitani, Kento Ishii, Rino Isshiki, Yuji Sekiguchi, Satoshi Tsuneda
Summary: In this study, the unique physiological and genomic properties of strain PY1, a novel ammonia oxidizer, were reported. Strain PY1 had a higher maximum velocity and a higher half-saturation constant for total ammonia nitrogen compared to known ammonia-oxidising bacteria. Phylogenetic analysis revealed that strain PY1 belongs to a new clade within the Nitrosomonas genus, and environmental distribution analysis showed that this clade is abundant in oligotrophic freshwater.
ENVIRONMENTAL MICROBIOLOGY REPORTS
(2023)
Article
Biotechnology & Applied Microbiology
Shotoku Kotajima, Keisuke Koba, Daisuke Ikeda, Akihiko Terada, Kazuichi Isaka, Kazuya Nishina, Yuuya Kimura, Akiko Makabe, Midori Yano, Hirotsugu Fujitani, Norisuke Ushiki, Satoshi Tsuneda, Muneoki Yoh
MICROBES AND ENVIRONMENTS
(2020)
Article
Biotechnology & Applied Microbiology
Rino Isshiki, Hirotsugu Fujitani, Satoshi Tsuneda
MICROBES AND ENVIRONMENTS
(2020)
Article
Microbiology
Hirotsugu Fujitani, Manami Nomachi, Yu Takahashi, Yoshiaki Hasebe, Masahiro Eguchi, Satoshi Tsuneda
FEMS MICROBIOLOGY LETTERS
(2020)