Article
Agricultural Engineering
Shaohong Zheng, Xiangyin Liu, Xiangjing Yang, Hongen Zhou, Jin Fang, Siyuan Gong, Junfeng Yang, Jiannv Chen, Tiansheng Lu, Ming Zeng, Yujie Qin
Summary: By changing the molar ratio of influent C/N/S, this study explored the denitrification performance and microbial community in mixotrophic denitrification systems. The results showed that the joint action of several genera, including Thauera, Pacacoccus, Fusibacter Pseudoxanthomonas, Thiobacillus, Sulfurovum, and Sulfurimonas, contributed to efficient denitrification. The relative abundances of Thauera, Thiobacillus, and Sulfurimonas increased after the addition of S2-, indicating a potential mechanism for improving denitrification performance in mixotrophic systems.
BIORESOURCE TECHNOLOGY
(2022)
Article
Ecology
M. Mauritz, D. A. Lipson
Summary: Research shows that soil respiration and autotrophic respiration are significantly higher under annual vegetation compared to shrubs, likely due to phenological differences. Seasonal dynamics of soil respiration differ significantly when vegetation types change.
Article
Agricultural Engineering
Xiao Huang, Chongsen Duan, Jianghua Yu, Wenyi Dong
Summary: The research found that the transformation process can effectively reduce nitrate nitrogen discharge concentration, but there may be nitrite nitrogen accumulation in the initial stages. Three dominant denitrification genera were identified, with heterotrophic denitrification showing more complex microbial interspecific interactions.
BIORESOURCE TECHNOLOGY
(2022)
Article
Multidisciplinary Sciences
Zhenguo Chen, Minlan Lou, Peizhen Fang, Dunquan Xiao, Wenting Zhu, Hongwei Chen, Wei Qian
Summary: This study investigates the structure and function of sulfur autotrophic denitrification microbial communities using sodium thiosulfate and elemental sulfur as electron donors. The results show that the nitrate removal rate and bacterial community structure are better in the sodium thiosulfate group compared to the elemental sulfur group. This research provides an experimental basis for improving the start-up time and operating cost of sulfur autotrophic denitrification systems and offers new prospects for further mechanistic analysis.
SCIENTIFIC REPORTS
(2023)
Article
Engineering, Environmental
Haibo Li, Kun Li, Jianbo Guo, Zhi Chen, Yi Han, Yuanyuan Song, Caicai Lu, Yanan Hou, Daohong Zhang, Yousuo Zhang
Summary: This study successfully combined heterotrophic and sulfur autotrophic processes in a lab-scale anaerobic baffled reactor to remove high concentration perchlorate by optimizing the step-feeding distribution ratio, leading to improved removal efficiency. The research also found that step-feeding can effectively relieve pollutant loading in certain compartments.
JOURNAL OF HAZARDOUS MATERIALS
(2021)
Article
Environmental Sciences
Yingying Li, Ling Liu, Hongjie Wang
Summary: The study established a combined heterotrophic-sulfur autotrophic biofilter (HSAD) to remove nitrogen from municipal tailwater and explored the relationship between nitrogen removal performance and microbial community composition. The results showed that increasing methanol dosage promoted the synergism of heterotrophic denitrification (HD) and sulfur autotrophic denitrification (SAD). Different denitrification performance was associated with the microbial community composition, and a stable coexistence state of microbial community structure was formed during the total denitrification process.
SCIENCE OF THE TOTAL ENVIRONMENT
(2022)
Article
Green & Sustainable Science & Technology
Ana P. Abreu, Rui C. Morais, Jose A. Teixeira, Joao Nunes
Summary: This article introduces the potential applications of microalgae as a sustainable feedstock in various areas such as food, drugs, and environmental remediation. The current limitations in large-scale microalgae production, such as low photosynthetic efficiency and expensive CO2 management, are discussed. Supplementing microalgae cultivation with organic carbon substrates can significantly increase biomass productivity, making it a viable strategy.
RENEWABLE & SUSTAINABLE ENERGY REVIEWS
(2022)
Article
Environmental Sciences
Rudong Zhao, Mei He, Feng Liu
Summary: Soil respiration components (Rh and Ra) respond differently to long-term forest conversion, with Rh and Ra patterns primarily driven by soil microbial community (SMC) structures and microenvironmental factors. Plant community attributes and forest management play important roles in soil C emission into the atmosphere during forest conversion.
JOURNAL OF SOILS AND SEDIMENTS
(2022)
Article
Multidisciplinary Sciences
Yoseb Song, Jiyun Bae, Jongoh Shin, Sangrak Jin, Jung-Kul Lee, Sun Chang Kim, Suhyung Cho, Byung-Kwan Cho
Summary: Acetogens utilize gaseous feedstocks to synthesize biomass and metabolites efficiently through the Wood-Ljungdahl pathway, making them a potential platform for biochemical production. Understanding the transcriptional and translational regulation in acetogens during autotrophic growth can aid in designing strains for better productivity. Data on genome-scale transcriptional and translational responses of acetogens during CO2 fixation can help in discovering regulatory elements and engineering strains for desired biochemical production.
Article
Biotechnology & Applied Microbiology
Jesus Ruiz, Rene H. Wijffels, Manuel Dominguez, Maria J. Barbosa
Summary: The debate over the economical choice between heterotrophic and autotrophic cultivation of microalgae continues. A study analyzed the costs and limitations of both methods, finding that autotrophic cultivation shows potential to compete with heterotrophic production if the production costs can be further reduced.
ALGAL RESEARCH-BIOMASS BIOFUELS AND BIOPRODUCTS
(2022)
Article
Environmental Sciences
Yunyi Zha, Rui Wan, Mengqi Wu, Ping Ye, Liangtao Ye, Xiaoxiao Li, Haifeng Yang, Jingyang Luo
Summary: To address the shortage of carbon source in sewage, inorganic electron donors containing sulfur were added to the traditional heterotrophic denitrification process. However, the effects of these extraneous inorganic electron donors on heterotrophic denitrification were largely unknown. This study discovered a hormesis-like effect of ferrous sulfide (FeS, an inorganic electron donor) on Paracoccus denitrificans, where the removal efficiency of total nitrogen increased with low dosage of FeS but decreased with high dosage. The study also revealed that the influence of FeS on glucose utilization and bacterial growth exhibited a hormesis-like effect.
Article
Environmental Sciences
Norbert Kamjunke, Holger Brix, Gotz Floeser, Ingeborg Bussmann, Claudia Schuetze, Eric P. Achterberg, Uta Koedel, Philipp Fischer, Louise Rewrie, Tina Sanders, Dietrich Borchardt, Markus Weitere
Summary: The nutrient and carbon dynamics within river-estuary-coastal water systems were analyzed to understand the flux of matter from the terrestrial environment to the ocean. The study revealed that the distribution and variations of nutrients and carbon varied significantly in different water environments, influenced by the travel time of water and nutrient fluxes, thereby affecting the functionality and stability of the aquatic ecosystems.
SCIENCE OF THE TOTAL ENVIRONMENT
(2023)
Article
Geosciences, Multidisciplinary
Tracy Rankin, Nigel Roulet, Elyn Humphreys, Matthias Peichl, Jarvi Jarveoja
Summary: This study investigates the composition and influencing factors of ecosystem respiration (ER) in northern peatlands, revealing differences compared to other peatland types. The study found that autotrophic respiration (AR) contributes more to ER, while heterotrophic respiration (HR) increases with rising temperature and water table depth. The study also highlights the influence of plant biomass on the magnitude of ER and the differences between directly measured ER and estimates based on nighttime temperature relationships.
FRONTIERS IN EARTH SCIENCE
(2023)
Article
Engineering, Environmental
Aylin Ebru Yenilmez, Selin Ertul, Tulay Yilmaz, Deniz Ucar, Francesco Di Capua, Erkan Sahinkaya
Summary: In this study, the simultaneous removal of PNP and NO3- was investigated under autotrophic and heterotrophic denitrifying conditions. The results showed that autotrophic denitrification with elemental sulfur can efficiently eliminate both PNP and NO3-, even at high concentrations. ORP was identified as a possible control parameter to modulate PNP removal efficiency. Additionally, the autotrophic column showed better resiliency compared to the heterotrophic one.
JOURNAL OF ENVIRONMENTAL CHEMICAL ENGINEERING
(2023)
Article
Environmental Sciences
Tsegaye Gemechu Legesse, Luping Qu, Gang Dong, Xiaobing Dong, Tida Ge, Nano Alemu Daba, Kiya Adare Tadesse, Eba Muluneh Sorecha, Qi Tong, Yuchun Yan, Baorui Chen, Xiaoping Xin, Shao Changliang
Summary: The study conducted a three-year field experiment in Inner Mongolia to examine the effects of environmental variables and soil microbes on soil respiration under extreme wet and dry conditions in mowed and unmowed grassland. The results showed that the relative contribution of heterotrophic respiration and autotrophic respiration to soil respiration varied under different precipitation treatments. The study also highlighted the importance of incorporating extreme precipitation events and mowing in regulating the responses of carbon cycling to global change in the semiarid Eurasian meadow steppe.
SCIENCE OF THE TOTAL ENVIRONMENT
(2022)
Article
Multidisciplinary Sciences
Masumi Hasegawa, Toshiaki Hosaka, Keiichi Kojima, Yosuke Nishimura, Yu Nakajima, Tomomi Kimura-Someya, Mikako Shirouzu, Yuki Sudo, Susumu Yoshizawa
SCIENTIFIC REPORTS
(2020)
Article
Environmental Sciences
Hui Jia, Yibang Wang, Susumu Yoshizawa, Wataru Iwasaki, Yuquan Li, Weiwei Xian, Hui Zhang
Editorial Material
Cell Biology
Susumu Yoshizawa, Eiko Ikemoto, Kazuhiro Kogure
Article
Multidisciplinary Sciences
Keiichi Kojima, Susumu Yoshizawa, Masumi Hasegawa, Masaki Nakama, Marie Kurihara, Takashi Kikukawa, Yuki Sudo
SCIENTIFIC REPORTS
(2020)
Article
Multidisciplinary Sciences
Masuzu Kikuchi, Keiichi Kojima, Shin Nakao, Susumu Yoshizawa, Shiho Kawanishi, Atsushi Shibukawa, Takashi Kikukawa, Yuki Sudo
Summary: Microbial rhodopsins are photoswitchable seven-transmembrane proteins found in archaea, bacteria, and eukarya. Eukaryotic rhodopsin OmR2 from the dinoflagellate Oxyrrhis marina was successfully expressed in E. coli cells, exhibiting outward proton-pumping activity. Spectroscopic characterization revealed similarities between OmR2 and known eukaryotic proton pump rhodopsins, potentially advancing our understanding and utilization of eukaryotic rhodopsins.
SCIENTIFIC REPORTS
(2021)
Article
Multidisciplinary Sciences
Toshiaki Hosaka, Takashi Nomura, Minoru Kubo, Takanori Nakane, Luo Fangjia, Shun-ichi Sekine, Takuhiro Ito, Kazutaka Murayama, Kentaro Ihara, Haruhiko Ehara, Kazuhiro Kashiwagi, Kazushige Katsura, Ryogo Akasaka, Tamao Hisano, Tomoyuki Tanaka, Rie Tanaka, Toshi Arima, Ayumi Yamashita, Michihiro Sugahara, Hisashi Naitow, Yoshinori Matsuura, Susumu Yoshizawa, Kensuke Tono, Shigeki Owada, Osamu Nureki, Tomomi Kimura-Someya, So Iwata, Eriko Nango, Mikako Shirouzu
Summary: Time-resolved serial femtosecond crystallography was used to study the structural changes and ion transfer mechanisms in anion-pumping rhodopsins. The study revealed the conformational alterations during ion transfer and ion release, as well as the halide binding site for ion transfer.
PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA
(2022)
Article
Multidisciplinary Sciences
Yosuke Nishimura, Susumu Yoshizawa
Summary: The genomic repertoire of marine microorganisms is expanded through the collection and reconstruction of a large number of marine metagenomes, leading to the discovery of novel microbial lineages and a significant increase in known phylogenetic diversity.
Article
Multidisciplinary Sciences
Zeshu Yu, Shin-ichi Ito, Marty Kwok-Shing Wong, Susumu Yoshizawa, Jun Inoue, Sachihiko Itoh, Ryuji Yukami, Kazuo Ishikawa, Chenying Guo, Minoru Ijichi, Susumu Hyodo
Summary: In this study, the performance of two OceanDNA analysis methods, qPCR and MiFish, were tested to determine the distribution of small pelagic fish in the open ocean. The results showed a positive correlation between the two methods, but the detection rate using qPCR was consistently higher than that of MiFish. It was recommended to use both methods together to monitor the quantitative distribution and fish community structures of small pelagic fish species.
Article
Microbiology
Md Mehedi Iqbal, Masahiko Nishimura, Md. Nurul Haider, Susumu Yoshizawa
Summary: This study investigated the microbial community structure and diversity of Zostera marina growing in Futtsu bathing water, Chiba prefecture, Japan. The composition of leaf-attached microbes changed with the relative age of the eelgrass leaf. The microbial communities of marine particles resembled those of eelgrass leaves, suggesting that leaf-attached microbes may derive from suspended particles and move between eelgrass leaves and the water column.
FRONTIERS IN MICROBIOLOGY
(2023)
Article
Ecology
Shiozaki Takuhei, Yosuke Nishimura, Susumu Yoshizawa, Hideto Takami, Koji Hamasaki, Amane Fujiwara, Shigeto Nishino, Naomi Harada
Summary: Dinitrogen (N-2) fixation is considered to occur only in low-latitude oceans, but recent studies have found that it also occurs in polar regions, indicating it is a global process. This study successfully reconstructed diazotroph genomes from samples in the Arctic Ocean and found that they are highly abundant and play important roles in the Arctic ecosystem and biogeochemical cycles. Diazotrophs in the Arctic Ocean are either Arctic-endemic or cosmopolitan species and have unique gene sets that enable them to adapt to Arctic-specific conditions.
Correction
Ecology
Takuhei Shiozaki, Yosuke Nishimura, Susumu Yoshizawa, Hideto Takami, Koji Hamasaki, Amane Fujiwara, Shigeto Nishino, Naomi Harada
Article
Multidisciplinary Sciences
Ariel Chazan, Ishita Das, Takayoshi Fujiwara, Shunya Murakoshi, Andrey Rozenberg, Ana Molina-Marquez, Fumiya K. Sano, Tatsuki Tanaka, Patricia Gomez-Villegas, Shirley Larom, Alina Pushkarev, Partha Malakar, Masumi Hasegawa, Yuya Tsukamoto, Tomohiro Ishizuka, Masae Konno, Takashi Nagata, Yosuke Mizuno, Kota Katayama, Rei Abe-Yoshizumi, Sanford Ruhman, Keiichi Inoue, Hideki Kandori, Rosa Leon, Wataru Shihoya, Susumu Yoshizawa, Mordechai Sheves, Osamu Nureki, Oded Beja
Summary: Light-harvesting carotenoids, such as zeaxanthin and lutein, transfer energy to the retinal chromophore of xanthorhodopsins and proteorhodopsins, indicating their potential role in rhodopsin phototrophy in lakes, seas, and oceans.
Article
Multidisciplinary Sciences
Keiichi Kojima, Shiho Kawanishi, Yosuke Nishimura, Masumi Hasegawa, Shin Nakao, Yuya Nagata, Susumu Yoshizawa, Yuki Sudo
Summary: Microbial rhodopsins are photoreceptive membrane proteins that exhibit various light-dependent molecular functions. In this study, two channelrhodopsin-like rhodopsins were identified from the alga Vitrella brassicaformis, which are phylogenetically distinct. These rhodopsins function as green- and blue-sensitive pigments and show light-dependent ion channeling activities. One of them, named VbACR2, acts as a monovalent anion channel. This study expands the molecular diversity of anion channelrhodopsins.
SCIENTIFIC REPORTS
(2023)
Article
Chemistry, Medicinal
Marie Kurihara, Vera Thiel, Hirona Takahashi, Keiichi Kojima, David M. Ward, Donald A. Bryant, Makoto Sakai, Susumu Yoshizawa, Yuki Sudo
Summary: In this study, a newly identified rhodopsin called Bellilinea Na+-pumping rhodopsin (BeNaR) was characterized. BeNaR has a significantly higher Na+-pumping activity compared to known Na+-pumping rhodopsin KR2. The findings provide a useful model for studying ion transporters and optogenetic tools.
CHEMICAL & PHARMACEUTICAL BULLETIN
(2023)
Article
Biotechnology & Applied Microbiology
Md Mehedi Iqbal, Masahiko Nishimura, Md Nurul Haider, Masayoshi Sano, Minoru Ijichi, Kazuhiro Kogure, Susumu Yoshizawa
Summary: The study investigated the microbial consortia of Zostera marina at Futtsu clam-digging beach in Chiba prefecture, Japan. The research found that bacterial taxa in eelgrass leaves and surrounding seawater differed from those in sediment and withered leaves, suggesting a unique microbial composition in different parts of the seagrass bed.
MICROBES AND ENVIRONMENTS
(2021)