Letter
Microbiology
Marcus C. de Goffau, D. Stephen Charnock-Jones, Gordon C. S. Smith, Julian Parkhill
Summary: The study found a batch effect that led to failure in correctly identifying Micrococcus and falsely assigning it to fetal samples. Furthermore, the particles shown in the micrographs were unlikely to be bacterial cells due to their size, and the microbes cultured from fetal samples differed significantly from those detected by sequencing.
Article
Environmental Sciences
Jung-Sheng Chen, Bashir Hussain, Hsin-Chi Tsai, Viji Nagarajan, Suprokash Koner, Bing -Mu Hsu
Summary: In this study, the bacterial communities and potential metabolic pathways of water, biofilms, and sediment samples from geothermal springs in Taiwan were explored using 16S rRNA gene sequencing. The results showed that water samples had the highest bacterial diversity and richness, and were enriched with functions related to heavy metals. Biofilms samples were rich in certain genera, while sediment samples were abundant in Sulfobacillus. These findings are important for understanding the evolution and ecological niche dimension of microbes in geothermal ecosystems.
SCIENCE OF THE TOTAL ENVIRONMENT
(2023)
Article
Environmental Sciences
Moonil Kim, Fenghao Cui
Summary: This study used 16S rRNA gene pyrosequencing to identify bacterial communities in wastewater and investigate the evolution of bacterial communities in the Anammox process. Four lab-scale Anammox reactors inoculated with different types of wastewater treatment sludge were operated under identical conditions for over 400 days. The study found that the presence of the Nitrospira genus and symbiotic association with other functional groups can lead to successful nitrogen removal in the Anammox process.
Article
Microbiology
Jie Tang, Liheng Li, Meijin Li, Lianming Du, Md Mahfuzur R. Shah, Michal M. Waleron, Malgorzata Waleron, Krzysztof F. Waleron, Maurycy Daroch
Summary: The study identified a thermophilic strain and proposed a new taxon Thermoleptolyngbya sichuanensis sp. nov. based on polyphasic approaches. The strain showed genetic adaptations to hot spring environments and displayed genetic divergence from other strains at the genome scale.
FRONTIERS IN MICROBIOLOGY
(2021)
Article
Microbiology
Carla Barbosa, Javier Tamayo-Leiva, Jaime Alcorta, Oscar Salgado, Linda Daniele, Diego Morata, Beatriz Diez
Summary: This study investigates the influence of geothermal processes on thermal microbial communities on a global scale. In addition to temperature and pH, sulfate concentrations play a role in shaping the microbial communities, which depend on tectono-magmatic settings and local settings. Comparison of microbial communities from different geothermal areas shows no significant geographic distance decay, but suggests a potential ancient divergence in the same taxonomic groups.
MICROBIOLOGY SPECTRUM
(2023)
Article
Microbiology
Nitin Keshari, Yang Zhao, Sudipta Kumar Das, Tao Zhu, Xuefeng Lu
Summary: The diversity and composition of cyanobacteria in representative hot springs of Yunnan Province, China were explored using a combination of cultivation-independent and -dependent studies. The study identified a total of 19 cyanobacterial taxa with potential biotechnological usage out of 45 genera isolated, showing promise for future taxonomic novelties and high biotechnological potential.
FRONTIERS IN MICROBIOLOGY
(2022)
Article
Microbiology
Carla Barbosa, Javier Tamayo-Leiva, Jaime Alcorta, Oscar Salgado, Linda Daniele, Diego Morata, Beatriz Diez
Summary: Temperature, pH, and hydrochemistry of terrestrial hot springs have a critical role in shaping thermal microbial communities. However, the interactions of biotic and abiotic factors at the terrestrial-aquatic interface on a global scale are not well understood, and the influence of underground events on microbial communities remains unknown. The study found moderate correlations between pH, SO42-, and the abundance of certain microbial phyla. pH and SO42- gradients were explained by phase separation and oxidation of sulfur in the steam phase. However, a large portion of the variance in microbial community structure remains unexplained, suggesting the involvement of other environmental or biotic factors.
MICROBIOLOGY SPECTRUM
(2023)
Article
Microbiology
Andrea K. Borsodi, Marton Mucsi, Gergely Krett, Attila Szabo, Tamas Felfoldi, Tibor Szili-Kovacs
Summary: The metabolic potential and taxonomic composition of microbiota in sodic soils are influenced by salinity and alkalinity, with alkali vegetation types primarily determining catabolic profiles. The diversity and activity of microbial communities in the Pannonian steppe soils are more impacted by alkali vegetation types compared to extreme aridity and moisture conditions.
Article
Microbiology
Evgenii N. Frolov, Alexandra V. Gololobova, Alexandra A. Klyukina, Elizaveta A. Bonch-Osmolovskaya, Nikolay V. Pimenov, Nikolay A. Chernyh, Alexander Y. Merkel
Summary: The microbial communities in the terrestrial hot springs of the Kamchatka Peninsula were found to actively reduce sulfate, with diverse groups of sulfate-reducing prokaryotes operating in different habitats. The presence of sulfate-reducing prokaryotes varied in different hot springs, with different microbial populations dominating in neutral, slightly acidic, and moderately acidic environments. Archaea of the phylum Crenarchaeota were identified as the mediators of sulfate reduction in high-temperature acidic springs.
Article
Engineering, Environmental
Zixiu Liu, Yuquan Wei, Ji Li, Guo-Chun Ding
Summary: This study developed microbial inoculants to improve manure composting by using 16S rRNA amplicon metagenomics and selective culture of thermophilic bacteria. It was found that the isolated thermophilic bacteria enhanced the thermophilic stage of composting and stimulated humification. Furthermore, inoculation with thermophilic bacteria influenced the succession of the microbial community during composting.
Article
Environmental Sciences
Donlaporn Sripan, Alisa Wilantho, Khunnalack Khitmoh, Doonyapong Wongsawaeng, Jamal Ouazzani, Suchana Chavanich, Sissades Tongsima, Naraporn Somboonna
Summary: This study revealed microbiota and their metabolic potentials at an epipelagic depth in the southeast Andaman Sea of Thailand, showing significant differences between shallow and deep microbial communities.
FRONTIERS IN MARINE SCIENCE
(2021)
Article
Microbiology
Fangchao Song, Jennifer V. Kuehl, Arjun Chandran, Adam P. Arkin
Summary: In this study, a direct PCR method was evaluated as a cost-effective and time-saving alternative to traditional DNA extraction methods for analyzing microbial communities. The direct PCR method showed comparable efficiency to the conventional DNeasy PowerSoil protocol, with higher efficiency for extracting gDNA from Gram-negative strains. This method is significantly less expensive and faster, making it a potential solution for high-throughput large-scale bacterial community analysis.
Article
Endocrinology & Metabolism
Qing Wang, Qi Wang, Lanbo Zhao, Yadi Bin, Li Wang, Lei Wang, Kailu Zhang, Qiling Li
Summary: The blood microbiome of PCOS patients showed significantly lower alpha diversity, different beta diversity, and significant taxonomic variations compared to healthy controls.
FRONTIERS IN ENDOCRINOLOGY
(2022)
Article
Microbiology
Jie Tang, Mahfuzur R. Shah, Dan Yao, Ying Jiang, Lianming Du, Kelei Zhao, Liheng Li, Meijin Li, Michal M. Waleron, Malgorzata Waleron, Krzysztof Waleron, Maurycy Daroch
Summary: In this study, a thermophilic strain, PKUAC-SCTAE412, recovered from Lotus Lake hot spring in China, was characterized using polyphasic approaches. The results supported the existence of a novel genus within Leptolyngbyaceae, which was further confirmed by genomic analyses. The complete genome of this strain provided insights into its adaptation to the hot spring environment and revealed a large number of genes possibly acquired through horizontal gene transfer. The study lays the foundation for future global ecogenomic and geogenomic studies.
FRONTIERS IN MICROBIOLOGY
(2022)
Article
Environmental Sciences
Andrea K. Borsodi, Julia Margit Aszalos, Melinda Megyes, Balazs Nagy
Summary: High-altitude saline lakes in Chile provide extreme environments for polyextremophilic bacteria. Analysis of samples from two lakes revealed a diverse bacterial community, with different bacteria playing roles in local carbon, nitrogen, and sulfur cycles depending on the benthic habitat.
GEOMICROBIOLOGY JOURNAL
(2022)
Article
Engineering, Chemical
Linhang Zhu, Zhongyang Zhao, Chang Liu, Wenjun Li, You Zhang, Yongxin Zhang, Chenghang Zheng, Kun Luo, Xiang Gao
Summary: This study investigates the hydrodynamics and cohesive-like characteristics of solid particles in a pseudo-2D droplet gas-solid fluidized bed using two-way coupled CFD-DEM numerical simulations. The results show that the presence of droplets leads to poorer fluidization characteristics, with increased surface tension resulting in inadequate mixing and higher liquid viscosity causing slower particle motion. The choice of contact angle is crucial for optimizing the fluidization quality, and injecting more droplets results in worse mixing, although the number of injected droplets has no significant effect on the flow pattern and particle motion.
ADVANCED POWDER TECHNOLOGY
(2023)
Review
Environmental Sciences
Yuanming Zhang, Akash Tariq, Alice C. Hughes, Deyuan Hong, Fuwen Wei, Hang Sun, Jordi Sardans, Josep Penuelas, Gad Perry, Jianfang Qiao, Alishir Kurban, Xiaoxia Jia, Domitilla Raimondo, Borong Pan, Weikang Yang, Daoyuan Zhang, Wenjun Li, Zeeshan Ahmed, Carl Beierkuhnlein, Georgy Lazkov, Kristina Toderich, Shirin Karryeva, Davron Dehkonov, Hikmat Hisoriev, Liliya Dimeyeva, Dmitry Milko, Ahmedou Soule, Malgozhata Suska-Malawska, Jumamurat Saparmuradov, Alilov Bekzod, Paul Allin, Sidy Dieye, Birane Cissse, Wondmagegne Whibesilassie, Keping Ma
Summary: The strategic goals of the United Nations and the Aichi Targets for biodiversity conservation have not been met. Instead, biodiversity has continued to rapidly decrease, especially in developing countries.
SCIENCE OF THE TOTAL ENVIRONMENT
(2023)
Article
Fisheries
Chong Han, Wenwei Huang, Suhan Peng, Jiangwei Zhou, Huawei Zhan, Wenjun Li, Jian Gong, Qiang Li
Summary: In this study, 11 members of IRFs were identified and their expression patterns in different tissues were analyzed in the zig-zag eel. The results provide valuable information for understanding the antibacterial mechanism of IRFs in teleosts.
DEVELOPMENTAL AND COMPARATIVE IMMUNOLOGY
(2023)
Article
Substance Abuse
Thomas J. Stopka, Marc R. Larochelle, Xiaona Li, Dana Bernson, Wenjun Li, Leland K. Ackerson, Ric Bayly, Olaf Dammann, Cici Bauer
Summary: The study identified significant variations in fatal overdose rates of opioid-related drugs among different populations and geographical locations. These variations and clusters changed over time, providing valuable information to develop targeted public health strategies for high-risk subpopulations.
DRUG AND ALCOHOL DEPENDENCE
(2023)
Article
Materials Science, Textiles
Wenjun Li, Hui Zhang, Pei Chen, Jiale Yao, Xiangzhi Dong
Summary: In this study, Ag-doped g-C3N4-TiO2 nanocomposite photocatalysts were deposited on cotton fabric surface, significantly improving the photodegradation rate of MO dye under visible light irradiation. The introduction of highly dispersed Ag nanoparticles into g-C3N4-TiO2 composites was found to exhibit excellent photocatalytic properties due to narrowed band gap and faster separation and transfer of charge carriers. The Ag nanoparticle doping site had a significant influence on the photocatalytic activity. Moreover, the modified cotton fabric showed good reusability and stability for MO dye degradation after multiple cycles.
FIBERS AND POLYMERS
(2023)
Article
Food Science & Technology
Hyeon Deok Kim, Keun Suk Lee, Kyung Eun Lee, Hyung Joo Suh, Byung-Yong Kim
Summary: Enzymatic treatment and fermentation of pea protein can lower the molecular weight, modify the secondary structure of protein, and improve digestibility and bioavailability.
FOOD SCIENCE AND BIOTECHNOLOGY
(2023)
Article
Agronomy
Murad Ali, Iftikhar Ahmed, Haleema Bibi, Muhammad Saeed, Ibni Amin Khalil, Abdul Bari
Summary: This study investigated the effect of different irrigation strategies on yield and related traits of wheat varieties through field experiments. The results showed that irrigation at the seedling and booting stages could effectively mitigate wheat yield losses under drought conditions.
Article
Agronomy
Muhammad Nafees, Sami Ullah, Iftikhar Ahmed
Summary: The aim of this study was to investigate the drought tolerance of Vicia faba L. using biochar and plant growth-promoting rhizobacteria (PGPR) Sphingobacterium pakistanensis (NCCP246) and Cellulomonas pakistanensis (NCCP11) by analyzing the morpho-physiological attributes. The co-application of PGPR and biochar improved the capacity for drought tolerance as analyzed by studying the leaf morphology and antioxidant enzymes. Conclusively, drought mitigation through the application of microbes and biochar are metabolic strategies that regulate the activity of antioxidant enzymes, improve plant tolerance, and ameliorate the water potential in agro-ecosystems.
Article
Microbiology
Dan-Dan Zhang, Xiao-Juan Zhang, Danni Wu, Bin-Bin Li, Hong-Can Liu, Yu-Guang Zhou, Bao-Zhu Fang, Wen-Jun Li, Man Cai
Summary: Two novel strains of bacteria, named XJ19-10T and XJ19-11, were isolated from river water in Xinjiang Uygur Autonomous Region, China. Through phenotypic, genotypic, and chemotaxonomic analysis, it was determined that these strains represent a new species, Aquiflexum gelatinilyticum sp. nov.
INTERNATIONAL JOURNAL OF SYSTEMATIC AND EVOLUTIONARY MICROBIOLOGY
(2023)
Article
Microbiology
Cale O. Seymour, Marike Palmer, Eric D. Becraft, Ramunas Stepanauskas, Ariel D. Friel, Frederik Schulz, Tanja Woyke, Emiley Eloe-Fadrosh, Dengxun Lai, Jian-Yu Jiao, Zheng-Shuang Hua, Lan Liu, Zheng-Han Lian, Wen-Jun Li, Maria Chuvochina, Brianna K. Finley, Benjamin J. Koch, Egbert Schwartz, Paul Dijkstra, Duane P. Moser, Bruce A. Hungate, Brian P. Hedlund
Summary: The candidate bacterial phylum Omnitrophota is poorly studied. By analyzing genomes and data from the Earth Microbiome Project, researchers found that Omnitrophota are ultra-small cells mainly found in water, sediments, and soils. These bacteria have reduced genomes but retain key metabolic pathways and symbiotic gene clusters, indicating a host-associated lifestyle. Additionally, stable-isotope probing identified certain Omnitrophota families as potential obligate bacterial predators. Overall, most Omnitrophota inhabit various ecosystems as predators or parasites.
NATURE MICROBIOLOGY
(2023)
Article
Microbiology
Yang-Zhi Rao, Yu-Xian Li, Ze-Wei Li, Yan-Ni Qu, Yan-Ling Qi, Jian-Yu Jiao, Wen-Sheng Shu, Zheng-Shuang Hua, Wen-Jun Li
Summary: By using genome-resolved metagenomics, researchers discovered 28 Parvarchaeales-associated metagenome-assembled genomes (MAGs) and identified metabolic differences between Jingweiarchaeales and Parvarchaeales, as well as the adaptation of Parvarchaeales to acidic environments. The study also revealed unique genomic features of Jingweiarchaeum and Haiyanarchaeum that may contribute to their adaptation to high-temperature environments. Overall, this research is important for understanding the strategies and processes of how Candidatus Parvarchaeales microbes adapt to extreme environments.
Article
Biotechnology & Applied Microbiology
Lei Wang, Yan Qu, Wenjun Li, Kai Wang, Song Qin
Summary: The study aimed to investigate the repair effect of tilapia collagen on acute wounds and its effect on the expression level of related genes and their metabolic direction in the repair process. The wound healing effect was observed and evaluated using characterization, histology, and immunohistochemistry. Techniques such as RT-PCR, fluorescence tracer, and frozen section were used to observe the effect of fish collagen on gene expression and metabolic direction in wound repair.
FRONTIERS IN BIOENGINEERING AND BIOTECHNOLOGY
(2023)
Article
Biodiversity Conservation
Wenchao Li, Liju Huang, Lei Yang, Yanyan Liu, Huimei Chen, Wenjun Li
Summary: To study the phenotypic plasticity of the invasive weed Pedicularis kansuensis, we examined and compared its phenotypes at different levels of invasion. As the invasion level increased, the weed showed increased plasticity in certain traits such as inflorescence length, single-leaf thickness, and specific leaf area, while other traits like single-leaf area and crown width became less plastic. We also observed density-dependent effects during the invasion process, including changes in morphology, increased aboveground biomass, and decreased allocation of resources to certain parts of the plant (p < 0.05).
Article
Biotechnology & Applied Microbiology
Rabia Bushra, Bushra Uzair, Ahmad Ali, Sadia Manzoor, Saira Abbas, Iftikhar Ahmed
Summary: This study presents the first draft genome and phylogenetic analysis of a Pseudarthrobacter oxydans strain isolated from the rhizospheric soil of Avicenna marina, a mangrove plant. The genome has multiple biosynthesis pathways and contains genes responsible for plant growth-promoting traits. The strain exhibited tolerance to heavy metals and high salinity levels. The research contributes to our understanding of the genomic characteristics and potential applications of Pseudarthrobacter oxydans in sustainable agriculture and environmental restoration.
ELECTRONIC JOURNAL OF BIOTECHNOLOGY
(2023)
Article
Biotechnology & Applied Microbiology
Rabia Bushra, Iftikhar Ahmed, Jia-Ling Li, Zhenghan Lian, Shuai Li, Ahmad Ali, Bushra Uzair, Arshia Amin, Muhammad Ehsan, Yong-Hong Liu, Wen-Jun Li
Summary: This study utilizes amplicon sequencing to analyze the microbial diversity and composition in Pakistani mangrove forests. The results demonstrate a high level of species diversity and suggest that the differences in microbial community composition are influenced by the physicochemical attributes of the soil samples.
FOLIA MICROBIOLOGICA
(2023)