Article
Microbiology
Xinyang Huang, David L. Erickson, Jianghong Meng
Summary: There has been a surge of interest in the impact of microbial diversity on human health, food safety, and environmental functions. Accurately measuring the diversity and structure of these communities is crucial for understanding their effects. PhyloPlus, a web portal developed in this study, allows users to generate customized phylogenies for bacterial or archaeal communities, enabling more accurate descriptions and preventing misleading conclusions.
Article
Microbiology
Danrui Wang, Jiangtao Li, Lei Su, Wenli Shen, Kai Feng, Xi Peng, Zhujun Wang, Bo Zhao, Zheng Zhang, Zhaojing Zhang, Etienne Yergeau, Ye Deng
Summary: REMIRGE program was developed to retrieve full-length functional genes from shotgun metagenomic reads and explore phylogenetic diversity in cold seep sediments. The study revealed divergent phylogenetic diversity of functional groups and functional pathway preferences in deep-sea cold seeps, highlighting the potential of phylogenetic information for comprehensive functional profiles and uncovering new insights from shotgun metagenomic data.
Article
Agricultural Engineering
Sihan Zhou, Zhen Song, Zhanbiao Li, Rongye Qiao, Mengjie Li, Yifan Chen, Hui Guo
Summary: In this study, the pathways and mechanisms of nitrogen transformation driven by functional microbes carrying key genes in an ex situ fermentation system were explored. The abundance of bacterial and fungal communities were found to be primarily influenced by temperature and nitrogen content, respectively. Functional microbes carrying specific genes were identified to promote various nitrogen conversion processes. The results provide insights for potential optimization measures to reduce nitrogen loss during fermentation.
BIORESOURCE TECHNOLOGY
(2022)
Article
Soil Science
Lianyan Bu, Ziheng Peng, Jing Tian, Xinxin Zhang, Wenfeng Chen, Derong An, Gehong Wei, Honglei Wang
Summary: The desertification process leads to soil degradation, decreased soil carbon input, and increased environmental stress on soil microbes. This study found that the abundance and diversity of autotrophic microbes decreased during desertification, but the activity of soil microbial carbon fixation enzymes increased. Core autotrophic microbes drove the compositional difference of autotrophic microbes and affected soil carbon fixation activity, emphasizing their importance in maintaining carbon sequestration during desertification.
APPLIED SOIL ECOLOGY
(2023)
Article
Public, Environmental & Occupational Health
Dolyce H. W. Low, Lena Ch'ng, Yvonne C. F. Su, Martin Linster, Rong Zhang, Yan Zhuang, Mackenzie L. Kwak, Sophie A. Borthwick, Alan T. Hitch, Gavin J. D. Smith, Ian H. Mendenhall
Summary: CENC virus, a novel Orthonairovirus, has been detected in Asian house shrews in Singapore and is primarily transmitted by ectoparasites. Its discovery highlights the importance of surveillance of small mammals in Southeast Asia.
Article
Environmental Sciences
Fang Chen, Pan Lei, Peng He, Chunyao Gu, Yaozong Chen, Ke Zhang, Jianyu Zhu, Min Gan
Summary: The research revealed that conductive minerals enhance Cr(VI) reduction, especially in the presence of bacteria, showing a synergistic effect. Conductive minerals act as an electron shuttle, while insulative minerals accelerate Cr(VI) reduction by increasing adsorption sites.
Article
Multidisciplinary Sciences
Yunxi Liu, R. A. Leo Elworth, Michael D. Jochum, Kjersti M. Aagaard, Todd J. Treangen
Summary: Contaminant sequences in metagenomic samples can impact interpretation of microbiome studies, especially in low biomass environments. The authors propose a computational approach called Squeegee, which can detect microbial contamination and identify contaminants in publicly available datasets lacking negative controls.
NATURE COMMUNICATIONS
(2022)
Review
Environmental Sciences
Gill Gillenay Haciosmanoglu, Carmen Mejias, Julia Martin, Juan Luis Santos, Irene Aparicio, Esteban Alonso
Summary: Increased antibiotic use worldwide has caused concerns due to their health and environmental impacts. This paper reviews the recent progress in using natural and modified clay minerals as efficient and cost-effective adsorbents for the removal of antibiotics from water. The characteristics of clay minerals as adsorbents and the factors affecting the adsorption are explored, along with future trends and strategies to increase their adsorption capacity. The paper also discusses the application of these adsorbents at pilot scale and other related issues such as reuse, economic analysis, and life cycle assessment.
JOURNAL OF ENVIRONMENTAL MANAGEMENT
(2022)
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
Environmental Sciences
Xiaohua Shu, Minghao Yang, Haiyang Lin, Qian Zhang, Lishan Zhang, Jie Liu, Xuehong Zhang, Fujing Pan, Lizhen Xu
Summary: Low-molecular-weight organic acids (LMWOAs) in soil can affect the transport and behavior of microplastics (MPs) by interacting with mineral interfaces. This study investigated the effect of oxalic acid on mineral interfaces and its role in stabilizing MPs. The results showed that oxalic acid increased the stability of MPs on minerals and created new adsorption pathways, depending on the mineral bifunctionality induced by oxalic acid. In the presence of oxalic acid, the stability of hydrophilic and hydrophobic MPs on different minerals was significantly improved. Overall, these findings provide important insights into the environmental behavior of emerging pollutants and the role of organic acids in mediating their interactions with minerals.
SCIENCE OF THE TOTAL ENVIRONMENT
(2023)
Article
Environmental Sciences
Tatiane A. De Menezes, Mayanne A. M. De Freitas, Michele S. Lima, Ana Carolina Soares, Camille Leal, Mileane De S. Busch, Diogo A. Tschoeke, Luciana De O. Vidal, Georgia C. Atella, Ricardo H. Kruger, Joao Setubal, Agnaldo A. Vasconcelos, Michel M. De Mahiques, Eduardo Siegle, Nils Edvin Asp, Carlos Cosenza, Eduardo Hajdu, Carlos E. De Rezende, Cristiane C. Thompson, Fabiano L. Thompson
Summary: This study investigates the microbial composition of sponges in the Great Amazon Reef System and reveals that different types of sponges rely on different microbes for nutrition. LMA sponges depend on water column microbes, while HMA sponges rely on symbiotic fermentative and autotrophic microbes.
SCIENCE OF THE TOTAL ENVIRONMENT
(2022)
Article
Agronomy
Chinenyenwa Fortune Chukwuneme, Ayansina Segun Ayangbenro, Olubukola Oluranti Babalola, Funso Raphael Kutu
Summary: This study analyzed the functional diversity and metabolic potentials of microbial communities in the rhizosphere of former grassland and intensively cultivated land, revealing differences in the dominant functional categories and abundance between the two. However, no significant difference was observed in the alpha diversity studies between the two fields.
Article
Environmental Sciences
Feng-Hsun Chang, Jinny Wu Yang, Ariana Chih-Hsien Liu, Hsiao-Pei Lu, Gwo-Ching Gong, Fuh-Kwo Shiah, Chih-hao Hsieh
Summary: The study explores the impact of predator and prey alpha-diversity on each other's community assembly processes, which in turn determine their alpha-diversity. Alpha MPTI can hint at the occurrence of non-random/deterministic assembly processes.
FRONTIERS IN MARINE SCIENCE
(2021)
Article
Food Science & Technology
Ahmad Ud Din, Waqar Ahmad, Taj Malook Khan, Jun Wang, Jianbo Wu
Summary: This study aimed to characterize the microbial ecosystem of Zaopei Baijiu Daqu (ZBD) starter cultures for specific microbes with probiotic properties. The results revealed abundant beneficial microbes in the starter culture, opening up possibilities for further in-depth analysis and evaluation of their valuable roles in in vitro and in vivo studies.
Article
Microbiology
Ning Wang, Huixiu Li, Bo Wang, Jia Ding, Yingjie Liu, Yuquan Wei, Ji Li, Guo-Chun Ding
Summary: This study investigates the recruitment of rhizosphere microbiome from two composts by tomato, pepper, or maize. It finds that compost and plant species synergistically shape the composition of the rhizosphere microbiome and select for functional traits associated with competition on root exudates.
FRONTIERS IN MICROBIOLOGY
(2022)
Article
Biotechnology & Applied Microbiology
R. Kour, S. Ambardar, J. Vakhlu
LETTERS IN APPLIED MICROBIOLOGY
(2018)
Article
Biotechnology & Applied Microbiology
Shilpi Sharma, Yeshveer Singh, Praveen K. Verma, Jyoti Vakhlu
Summary: Efficient transformation system for genetic improvement is crucial in Crocus sativus due to its lack of sexual reproduction. This study established a successful protocol for the transformation of Crocus sativus using Agrobacterium rhizogenes ARqua1 strain with a high transformation efficiency. The protocol can be further utilized for gene transfer or gene editing in Crocus for its genetic improvement.
Review
Microbiology
Ritika Mansotra, Jyoti Vakhlu
Summary: Early detection of plant pathogens is crucial for managing crop yield and quality, and there is a need for the development of simple, rapid, and cost-effective diagnostic techniques. Existing diagnostic methods have limitations, and the development of handheld diagnostic devices that can be used directly in the field without specialized staff is necessary.
ARCHIVES OF MICROBIOLOGY
(2021)
Article
Biophysics
Sakshi Sharma, Monika Kumari, Jyoti Vakhlu
Summary: Despite limited scientific documentation, the microbiome of healing clay is gaining attention in the scientific community as a therapeutic force in skin disease management. This study explored the gene expression profile of Chamliyal clay using metatranscriptomics and found similarities to the microbial composition of healthy human skin. Pathogenic microbes were absent, and sulfur and iron metabolism processes were identified, which play a major role in skin disease management. The findings provide valuable insights into the potential of clay microbiome in managing skin disorders.
INTERNATIONAL JOURNAL OF BIOMETEOROLOGY
(2023)
Article
Plant Sciences
Tahir Ali, Nancy Bhagat, Shanu Magotra, Jyoti Vakhlu
Summary: The Bacillus sp. strain D5 (Bar D5) has been identified as a potential biostimulant for saffron cultivation due to its superior plant growth promoting activities and ability to enhance resistance against the devastating disease caused by Fusarium oxysporum.
JOURNAL OF PLANT GROWTH REGULATION
(2023)
