Article
Environmental Sciences
Kejin Chen, Rong He, Li'ao Wang, Lingyue Liu, Xin Huang, Juan Ping, Chuan Huang, Xiang Wang, Yuanyuan Liu
Summary: In shale gas mining areas, indigenous microorganisms can degrade organic pollutants such as petroleum hydrocarbons into CO2 and H2O through aerobic metabolism, but a large quantity of CO2 emissions can exacerbate the greenhouse effect. The experiment found that the removal rate of petroleum hydrocarbons was significantly lower under high-concentration pollution compared to low and medium concentrations, with the largest removal rate in the early stage of culture for each group's TPH concentration. Additionally, the main carbon fixation pathway identified in the study was the reductive citric acid cycle.
SCIENCE OF THE TOTAL ENVIRONMENT
(2022)
Article
Nutrition & Dietetics
Yanzhou Hu, Jia Xu, Yao Sheng, Junyu Liu, Haoyu Li, Mingzhang Guo, Wentao Xu, Yunbo Luo, Kunlun Huang, Xiaoyun He
Summary: The study revealed that Pleurotus ostreatus can prevent obesity, maintain glucose homeostasis, and beneficially modulate gut microbiota. It modified the composition and functions of gut microbiota in obese mice and made them similar to those in lean mice, contributing to weight loss.
Article
Environmental Sciences
Ze Ren, Shengkui Cao, Tao Chen, Cheng Zhang, Jinlei Yu
Summary: This study investigates the functional diversity, redundancy, and carbon metabolism potentials of different habitats in thermokarst landscapes on the Qinghai-Tibet Plateau. The results show significant differences between habitats, with PBCs and SBCs having higher taxonomic and functional diversity, while WBCs have lower functional redundancy. Metabolism pathways also vary in different habitats, indicating the importance of understanding the functional properties and carbon cycles in thermokarst landscapes.
SCIENCE OF THE TOTAL ENVIRONMENT
(2022)
Article
Environmental Sciences
Josue Alegria-Gomez, Jose Humberto Castanon-Gonzalez, Juan Alfredo Hernandez-Garcia, Elizabeth Gonzalez-Terreros, Irving Oswaldo Velazquez-Rios, Victor Manuel Ruiz-Valdiviezo
Summary: In this study, the composition patterns of microbial communities in the vertical distribution of La Encantada lake in Mexico were explored, and their relationship with physicochemical properties of the water was investigated. The results showed that the composition of microbial communities varied with depth and physicochemical parameters, which could play a role as biological factors in the trophic states of the lake.
ENVIRONMENTAL SCIENCE AND POLLUTION RESEARCH
(2023)
Article
Biotechnology & Applied Microbiology
Trina Ekawati Tallei, Fatimawali, Afriza Yelnetty, Diah Kusumawaty, Yunus Effendi, Moon Nyeo Park, Fahad A. Alhumaydhi, Talha Bin Emran, Bonglee Kim
Summary: In this study, the microbial communities and their functions during pineapple peel fermentation were analyzed using a metagenomic approach. It was found that microenvironmental differences have an effect on the microbial composition, and carbohydrate metabolism was the most prevalent metabolic pathway during the fermentation process. All bacteria found in the samples played significant roles in various metabolic processes.
FERMENTATION-BASEL
(2022)
Article
Immunology
Zhouyu Li, Yongguo Xiang, Yong Wang, Wenjuan Wan, Zi Ye, Shijie Zheng, Yanyi Chen, Liang Xiong, Lu Zhu, Yan Ji, Ke Hu
Summary: This study investigated the composition and function of ocular surface microbiome in healthy individuals from different altitudes. The microbial diversity and richness were significantly lower in highlanders, with distinct differences in bacterial community composition and function compared to lowlanders. The study provides insight into the unique characteristics of ocular microbiome in high altitude regions.
MICROBIAL PATHOGENESIS
(2021)
Article
Environmental Sciences
Dipika Malakar, Subbarayan Sarathbabu, Probodh Borah, Nachimuthu Senthil Kumar
Summary: This study analyzed the bacterial community in the gills of fish from the bank of the trans-border river of Brahmaputra, Northeast India using high-throughput sequencing technology, revealing pathogenic bacteria. The results provide foundational data for further research on pathogenic bacteria in fish.
ENVIRONMENTAL MONITORING AND ASSESSMENT
(2021)
Article
Microbiology
Mariia Pavlovska, Ievgeniia Prekrasna, Evgen Dykyi, Andrii Zotov, Artem Dzhulai, Alina Frolova, Jaroslav Slobodnik, Elena Stoica
Summary: The study focused on the taxonomic and functional composition of microbial communities in the Black Sea, revealing differences in both vertical and regional distribution. Primary producers and heterotrophic prokaryotes were prevalent in the normoxic zone, while heterotrophic and chemoautotrophic taxa dominated in the euxinic zone. Regional differentiation between the Ukrainian shelf and offshore zone was detected, yet vertical differentiation based on redox stratification was more pronounced.
Article
Evolutionary Biology
Daoxin Liu, Pengfei Song, Jingyan Yan, Haijing Wang, Zhenyuan Cai, Jiuxiang Xie, Tongzuo Zhang
Summary: This study compared the gut microbiome structure and functions of plateau zokors before and after being kept in captivity for 15 days, finding that although the diversity decreased significantly, the relative abundances and functions remained largely unchanged. Therefore, using wild-caught plateau zokors in gut microbial studies for short periods of time is acceptable.
EVOLUTIONARY BIOINFORMATICS
(2021)
Article
Food Science & Technology
Yufang Liu, Junna Cai, Fuxin Zhang
Summary: The study found that different types of milk have different effects on the intestinal microbiota of mice. Significant differences in nutrient components between breast milk, cow milk, and goat milk can alter the composition and functional features of the intestinal microbiota. The protein, minerals, and amino acid content of milk are correlated with specific bacterial groups in the intestinal microbiota.
LWT-FOOD SCIENCE AND TECHNOLOGY
(2021)
Article
Biology
Xiaoxia Xu, Surajit De Mandal, Hongxin Wu, Shaojie Zhu, Jinrong Kong, Sisi Lin, Fengliang Jin
Summary: The gut microbiota of S. frugiperda is significantly influenced by diet composition, impacting the immune gene expression and ultimately playing a crucial role in pest defense system. The study reveals the differences in gut microbiota and host immunity under different diets, providing important insights for understanding the interaction between insect gut microbiome and diet composition in pest defense.
Article
Neurosciences
Lian Dong, Qian Zheng, Yongran Cheng, Mengyun Zhou, Mingwei Wang, Jianwei Xu, Zucai Xu, Guofeng Wu, Yunli Yu, Lan Ye, Zhanhui Feng
Summary: This study aimed to investigate the intestinal flora of patients with epilepsy and its correlation with epilepsy. Through analysis of the gut microbiota of 71 subjects, significant differences were observed between the epilepsy group and the control group at the genus level. Correlation analysis indicated a significant positive correlation between certain bacterial strains and the occurrence of epilepsy. Functional prediction analysis also revealed significant differences in pathways between the groups. These findings suggest a potential association between the gut microbiota and the development of epilepsy.
FRONTIERS IN NEUROSCIENCE
(2022)
Article
Agricultural Engineering
Lan Gao, Danlian Huang, Min Cheng, Ming Yan, Zhen Wei, Ruihao Xiao, Li Du, Guangfu Wang, Ruijin Li, Sha Chen, Lingshi Yin
Summary: Electrolytic manganese residue poses potential threats to the environment and requires eco-friendly treatment. Composting has been found to effectively passivate heavy metals and mitigate their ecotoxicity. Inoculation of Phanerochaete chrysosporium promotes the passivation of manganese, prolongs the thermophilic period, and enriches the microbial community structure.
BIORESOURCE TECHNOLOGY
(2023)
Article
Biotechnology & Applied Microbiology
Dattatray S. Mongad, Nikeeta S. Chavan, Nitin P. Narwade, Kunal Dixit, Yogesh S. Shouche, Dhiraj P. Dhotre
Summary: 16S rRNA gene amplicon sequencing accurately characterizes microbial taxonomic abundances but lacks functional information. MicFunPred, a new tool, uses core genes to predict metagenomes, showing low False Positive Rate and performing faster with lower computational requirements compared to other tools.
Article
Soil Science
Shuang Liu, Jian Jin, Huanmin Yang, Peng Wang, Quan Liu, Yulan Huang, Xingmei Zhang, Kuide Yin
Summary: Feeding geese in cornfields can alter the composition and function of bacterial communities, leading to increased soil fertility and improved agricultural development. The study found that the relative abundance of beneficial bacteria in the goose-fed soil was higher, and the metabolic capacity of soil bacteria under the goose-feeding treatment was stronger compared to the control.
APPLIED SOIL ECOLOGY
(2022)
Article
Marine & Freshwater Biology
Tamara M. Stuij, Daniel F. R. Cleary, Newton C. M. Gomes, Rahul Mehrotra, Petra M. Visser, Arjen G. C. L. Speksnijder, Bert W. Hoeksema
Summary: This study reveals the bacterial diversity and composition of different mat morphotypes, identifies the most abundant community members and closely related organisms, and assesses the predictors of bacterial composition. The results show that the bacterial communities consist of a diverse and variable consortium, with mat morphotype, substrate type, and geographic location explaining only a small part of the total variation in composition.
Article
Plant Sciences
David E. Williams, Joel Cassel, Jin-Lin Zhu, Jian-Xiong Yang, Nicole J. de Voogd, Teatulohi Matainaho, Joseph M. Salvino, Yan Alexander Wang, Luis J. Montaner, Ian Tietjen, Raymond J. Andersen
Summary: Thorectidiols, isolated from the marine sponge Dactylospongia elegans, are symmetrical and unsymmetrical dimeric biphenyl meroterpenoid stereoisomers believed to be produced through oxidative phenol coupling of a co-occurring racemic monomer, thorectidol. Thorectidiol A, one member of the family, has been isolated and its structure determined through NMR, MS, and ECD analysis. Acetylation of the sponge extract led to the isolation of additional thorectidiol diacetate stereoisomers and the racemic monomer thorectidol acetate. Racemic thorectidiol A showed selective inhibition of the SARS-CoV-2 spike receptor binding domain (RBD) interaction with the host ACE2 receptor, with an IC50 = 1.0 +/- 0.7 μM.
JOURNAL OF NATURAL PRODUCTS
(2023)
Article
Chemistry, Medicinal
Joao F. Almeida, Matilde Marques, Vanessa Oliveira, Conceicao Egas, Dalila Mil-Homens, Romeu Viana, Daniel F. R. Cleary, Yusheng M. M. Huang, Arsenio M. Fialho, Miguel C. C. Teixeira, Newton C. M. Gomes, Rodrigo Costa, Tina Keller-Costa
Summary: This study investigated marine microbiomes to identify bacteria with rich secondary metabolism and antimicrobial activities. Genomic analysis of 70 representative isolates led to the identification of 466 biosynthetic gene clusters and the discovery of antimicrobial activities against various pathogens. These findings provide valuable resources for studying antimicrobial activities and biosynthesis of marine bacteria.
Article
Chemistry, Applied
Charifat Said Hassane, Florent Tintillier, Pierre-Eric Campos, Gaetan Herbette, Nicole J. de Voogd, Jamal Ouazzani, Mireille Fouillaud, Laurent Dufosse, Anne Gauvin-Bialecki
Summary: CDK7 and FynB protein kinases are important targets for the treatment of cancer and brain diseases due to their regulatory roles in cellular functions. Inhibition of these proteins has shown the potential to alter the onset or progression of these diseases. Through bioassay-guided fractionation, a marine sponge extract showed interesting kinase inhibitory activities, leading to the isolation of known and new polybrominated diphenyl ethers (PBDEs).
NATURAL PRODUCT RESEARCH
(2023)
Article
Zoology
Singgih afifa Putra, R. O. H. A. N. Ambo-rappe, J. A. M. A. L. U. D. D. I. N. Jompa, Nicole j. de Voogd
Summary: This study aimed to create a checklist of sponge species from Indonesia based on the World Porifera Database, comprising 731 species of four types. The species composition indicates higher regional endemism or poor study in some areas and freshwater habitats, calling for a taxonomic biodiversity baseline study to better understand the marine biodiversity in Indonesia.
Article
Microbiology
Antonio Louvado, Carolina Castro, Davide A. M. Silva, Vanessa Oliveira, Luis E. C. Conceicao, Daniel F. R. Cleary, Newton C. M. Gomes
Summary: Live feed enrichments are commonly used in fish larvicultures to enhance growth and survival. This study investigated the effects of two commercial rotifer enrichments on bacterial communities in turbot larvae and post-larval guts during larviculture. The results showed that the enrichments had significant effects on bacterial composition in turbot larvae at 10 days after hatching (DAH), but not in the larval gut communities or bacterioplankton communities. However, a more detailed analysis revealed differences in the abundance of Vibrionales, suggesting that rotifer diets can affect the colonization of Vibrio in post-larval turbot guts.
Article
Microbiology
Tamara Stuij, Daniel F. R. Cleary, Ana R. M. Polonia, Sumaitt Putchakarn, Ana C. C. Pires, Newton C. M. Gomes, Nicole J. de Voogd
Summary: This study compared mucus and gut-associated prokaryotic communities from seven nudibranch species with sediment and seawater from Thai coral reefs using high-throughput 16S rRNA gene sequencing. The mucus and gut-associated communities differed from sediment and seawater communities. Host phylogeny was a significant predictor of differences in mucus and gut-associated prokaryotic community composition.
CURRENT MICROBIOLOGY
(2023)
Article
Ecology
D. F. R. Cleary, N. J. de Voogd, T. M. Stuij, T. Swierts, V. Oliveira, A. R. M. Polonia, A. Louvado, N. C. M. Gomes, F. J. R. C. Coelho
Summary: The amount of available light is crucial for the growth and development of microbial communities. This study investigates the differences in prokaryotic communities associated with two sponge species, Cinachyrella kuekenthali and Xestospongia muta, collected from dimly lit and illuminated habitats. The biotope was found to be the major driver of variation in prokaryotic community composition, while the light habitat also influenced the composition of prokaryotic communities in both sponge species. Machine learning was used to identify features that distinguished specimens collected from dimly lit and illuminated habitats.
Article
Microbiology
D. F. R. Cleary, V Oliveira, N. C. M. Gomes, A. Bialecki, N. J. de Voogd
Summary: Calcareous sponges produce calcium carbonate spicules and have unique prokaryotic profiles with low abundances of certain bacterial phyla and high abundances of others. Further studies are needed to understand the drivers of calcareous sponge-associated bacterial communities and their potential as sources of novel microbes for biotechnological purposes.
FEMS MICROBIOLOGY ECOLOGY
(2023)