Article
Environmental Sciences
Ying Yang, Yu Shi, Dorsaf Kerfahi, Matthew C. Ogwu, Jianjun Wang, Ke Dong, Koichi Takahashi, Itumeleng Moroenyane, Jonathan M. Adams
Summary: The study reveals that the connectivity of fungal co-occurrence networks decreases with elevation, and climate plays a dominant role in regulating co-occurrence patterns, apparently acting indirectly through soil characteristics. Additionally, higher elevations have fewer keystone taxa than lower elevations.
SCIENCE OF THE TOTAL ENVIRONMENT
(2021)
Article
Environmental Sciences
Pingzhou Su, Pin Gao, Weimin Sun, Wenlong Gao, Fuqing Xu, Qi Wang, Enzong Xiao, Mohsen Soleimani, Xiaoxu Sun
Summary: This study identified key microbial populations in arsenic and antimony contaminated rice terraces and provided valuable information for remediation purposes.
ENVIRONMENTAL SCIENCE AND POLLUTION RESEARCH
(2022)
Article
Microbiology
Milan Varsadiya, Tim Urich, Gustaf Hugelius, Jiri Barta
Summary: By studying different types of permafrost-affected soil in the Western Canadian Arctic, it was found that fungal communities exhibit different relative proportions and topological roles in various soil horizons, indicating their varying sensitivity to environmental change. Some fungal taxa may shift their roles, potentially impacting carbon storage in permafrost-affected soil.
Article
Microbiology
Weibing Xun, Yunpeng Liu, Wei Li, Yi Ren, Wu Xiong, Zhihui Xu, Nan Zhang, Youzhi Miao, Qirong Shen, Ruifu Zhang
Summary: The study revealed that bacterial communities with higher phylogenetic diversity tend to be more stable, indicating that microbiomes with higher biodiversity are more resilient to disturbances. Functional gene co-occurrence network and machine learning classification analyses identified specialized metabolic functions, especially nitrogen metabolism and phosphonate and phosphinate metabolism, as key functions. Further taxonomic annotation revealed that these key functions are carried out by specific bacterial taxa, including Nitrospira and Gemmatimonas.
Article
Environmental Sciences
Lingxu Meng, Chunxue Xu, Fanlin Wu, Huhe
Summary: This study investigated the impact of interactions between microbial taxa on lignocellulose degradation during composting. The results showed that co-occurrence networks and bacterial-fungal interactions played significant roles in lignocellulose degradation, while microbial diversity had a relatively minor effect. Moreover, low-abundance taxa were found to influence microbial interactions driving lignocellulose degradation.
SCIENCE OF THE TOTAL ENVIRONMENT
(2022)
Article
Plant Sciences
Yanfen Zheng, Xiaobin Han, Donglin Zhao, Keke Wei, Yuan Yuan, Yiqiang Li, Minghong Liu, Cheng-Sheng Zhang
Summary: Recent studies have shown that there are different microbiomes between disease-suppressive and disease-conducive soils, with keystone species in suppressive soil playing a critical role in disease suppression. Pseudomonas strains, identified as keystone taxa, displayed strong inhibition on pathogens and reduced the incidence of bacterial wilt disease, providing a potential approach for crop protection against pathogen infection.
FRONTIERS IN PLANT SCIENCE
(2021)
Article
Environmental Sciences
Qingxin Meng, Shuang Liu, Yue Guo, Yunlong Hu, Zhidan Yu, Ayodeji Bello, Zhigang Wang, Weihui Xu, Xiuhong Xu
Summary: This study used co-occurrence network analysis to explore the interspecific relationships within and between bacterial and fungal communities during composting of cow manure. The findings showed that the interactions within bacterial communities were tighter and more responsive to environmental changes, while the fungal network had a better buffer capacity. The detection of keystone taxa validated the connectivity of modules and networks.
ENVIRONMENTAL SCIENCE AND POLLUTION RESEARCH
(2023)
Article
Ecology
Zhenyue Lin, Xinqing Zheng, Jianming Chen
Summary: This study investigates the response of the coral microbiome to oceanic pH changes caused by anthropogenic climate change. The results show that both ocean acidification and alkalization disrupt the functional cores of the microbiome, affecting the carbon cycling and health of the coral holobiont. While bacterial species richness does not vary significantly among pH treatments, the community compositions show significant differences. Seawater alkalization leads to a stronger taxonomic shift and an increase in pathogens compared to acidification. The study highlights the importance of understanding the functional ecological role of the microbiome in coral resilience.
Article
Microbiology
Kai Zhu, Weitao Jia, Yu Mei, Shengjun Wu, Ping Huang
Summary: Changes in water regime significantly influence the microbial mechanisms that regulate soil respiration in larger soil aggregates. The shift from flooding to drying enhances microbial respiration and decreases with aggregate size. Keystone taxa in bacterial networks during flooding were Acidobacteriales, Gemmatimonadales, Anaerolineales, and Cytophagales, while during drying they were Rhizobiales, Gemmatimonadales, Sphingomonadales, and Solirubrobacterales. The shift from flooding to drying also altered fungal community composition and network properties, influencing aggregate-scale soil respiration.
FRONTIERS IN MICROBIOLOGY
(2023)
Article
Endocrinology & Metabolism
Diego A. Esquivel-Hernandez, Yoscelina Estrella Martinez-Lopez, Jean Paul Sanchez-Castaneda, Daniel Neri-Rosario, Cristian Padron-Manrique, David Giron-Villalobos, Cristian Mendoza-Ortiz, Osbaldo Resendis-Antonio
Summary: This study used the SparCC method to analyze the association networks of gut microbiota in Mexican patients with type 2 diabetes (T2D). The results showed that the association between bacteria decreased as the disease progressed, indicating the high sensitivity of the microbial community in T2D patients. Several genera were identified as potential drivers of T2D progression and could serve as biomarkers for different stages of T2D in a Mexican cohort. This study provides a computational pipeline to link ecological networks and clinical stages in T2D and contributes to the advancement of precision medicine.
FRONTIERS IN ENDOCRINOLOGY
(2023)
Review
Computer Science, Information Systems
G. I. Choudhary, P. Franti
Summary: This study developed a novel technique based on a temporal disease occurrence network to analyze and predict disease progression. The results showed that the proposed method had improved performance compared to other methods, providing valuable information for physicians about the sequential development of diseases in patients.
INTERNATIONAL JOURNAL OF MEDICAL INFORMATICS
(2023)
Article
Soil Science
Haiping Zheng, Tianjie Yang, Yanzhuo Bao, Panpan He, Keming Yang, Xinlan Mei, Zhong Wei, Yangchun Xu, Qirong Shen, Samiran Banerjee
Summary: This study shows that forestland has the highest litter decomposition rate, which is attributed to microbial communities with higher ligninolytic enzyme activities and diversity, and a less complex but more specialized network. Keystone taxa, such as Chryseobacterium in bacteria and Fusarium, Aspergillus, and Penicillium in fungi, play important roles in litter decomposition, and can be used for manipulating lignocellulose decomposition in soil ecosystems.
SOIL BIOLOGY & BIOCHEMISTRY
(2021)
Article
Agronomy
Wen Guo, Jian Zhang, Xin Sui, Xuan Hu, Gang Lei, Yumei Zhou, Mai-He Li, Lianghua Qi
Summary: This study investigated the soil bacterial communities in both rhizosphere soil and bulk soil under different varieties of Phyllostachys edulis using 16S rRNA gene sequences. The results showed significant differences in bacterial diversity, composition, and potential keystone taxa between rhizosphere soil and bulk soil. The co-occurrence network analysis identified 16 potential keystone taxa involved in biochemical carbon and nitrogen cycles.
Article
Engineering, Environmental
Sandrine Veloso, David Amouroux, Laurent Lanceleur, Christine Cagnon, Mathilde Monperrus, Jonathan Deborde, Cristiana Cravo Laureau, Robert Duran
Summary: The fluctuation of environmental conditions in estuaries drives the structure of microbial communities, which play a key role in ecosystem functioning. In this study, the microbial communities in the Adour Estuary were investigated using gene sequencing and chemical analysis. The results showed a strong seasonal organization and spatial distribution of microbial communities, influenced by biogeochemical parameters and micropollutants. Network analysis revealed specific modules linked to pollutant types, providing important insights into estuarine microbial ecology.
JOURNAL OF HAZARDOUS MATERIALS
(2023)
Article
Environmental Sciences
Guofan Zhu, Ruijun Du, Daolin Du, Jiazhong Qian, Mao Ye
Summary: Chlordane exposure affects the bacterial composition in the earthworm gut more significantly than in indigenous soil microbial communities. Keystone species such as Flavobacterium, Candidatus Nitrososphaera, and Acinetobacter remain stable in both the earthworm gut and bacterial communities despite varying chlordane concentrations, with higher abundance in the low-concentration treatment group. Keystone species have greater network connectivity and capability to degrade pesticides and transform carbon and nitrogen compared to non-keystone species, indicating their importance in resisting chlordane stress and maintaining microbial equilibrium in soil.
ENVIRONMENTAL POLLUTION
(2021)
Article
Fisheries
Hunter S. Bailey, Ashley N. Fincannon, Lee A. Fuiman
Summary: This study investigated the transfer of fatty acids from broodstock diets to eggs and the time needed for the eggs to equilibrate to the diet in Southern flounder. The findings indicate that different diet treatments significantly affect the fatty acid composition of eggs, and it takes 8-16 weeks for the eggs to adapt to changes in the adult diet. These results are important for improving broodstock diets and feeding protocols in stock-enhancement programs.
Article
Fisheries
Yu Liu, Mingtao Lei, Hector Victor, Yan Wang
Summary: This study confirms the feasibility of replacing raw fish diet with a formulated diet in commercial farming of large yellow croaker, which can increase fish survival and yield, and reduce feed cost and body lipid deposition.
Article
Fisheries
Xiaoyan Zhang, Lize San, Yucong Yang, Yuehong Tao, Jiangong Ren, Yufeng Liu, Zhongwei He, Jiashuo Di, Ziteng Pei, Guixing Wang, Jilun Hou
Summary: Gynogenesis is an effective technique for establishing homogeneous lines and confirming potential chromosomal mechanisms of sex determination in fish. This study successfully induced gynogenetic families in Thamnaconus modestus and established a complete method for gynogenesis induction.
Article
Fisheries
Julieta C. Martinelli, Megan Considine, Helen R. Casendino, Carolyn M. Tarpey, Isadora Jimenez-Hidalgo, Jacqueline L. Padilla-Gamino, Teri L. King, Lorenz Hauser, Steven Rumrill, Chelsea L. Wood
Summary: Shell-boring polychaetes have caused significant damage to mariculture operations worldwide, particularly in the US Pacific region. This study provides a comprehensive dataset on the prevalence, species distribution, and environmental associations of these parasites, highlighting the impact of season, culturing methods, and environmental factors on infestation.
Article
Fisheries
Juan Gao, Xueshan Li, Kangle Lu, Kai Song, Jian Zhang, Ling Wang, Chunxiao Zhang
Summary: This study investigated the effects of dietary protein levels on growth performance, antioxidant capacity, digestive enzyme activity, and metamorphosis rate of bullfrog tadpoles. The optimal dietary protein level for bullfrog tadpoles was estimated to be 42.49%-46.50% of the diet.
Article
Fisheries
Qiang Li, Lijun Duan, Dongsheng Jin, Yuxin Chen, Yirong Lou, Qianjin Zhou, Zhongjie Xu, Fangjie Chen, Hongxian Chen, Guizong Xu, Maocang Yan, Guanjun Yang, Jianfei Lu, Yanjun Zhang, Jiong Chen
Summary: This study developed a centrifugal microfluidic chip with on-chip RPA to detect five pathogenic microorganisms. The chip enabled the parallel analysis of six genetic markers from a single sample and allowed for the highly automated detection of multiple samples. Compared with PCR and DNA sequencing, the on-chip RPA assay showed high sensitivity and specificity for detecting multiple pathogens in shrimp aquaculture.
Article
Fisheries
Xingchen Huo, Pengxu Wang, Fengxia Zhao, Qian Liu, Qingqing Tian, Lingjie Tang, Maolin Lv, Zhaohui Wei, Chunrong Yang, Jianguo Su
Summary: Bacterial diseases in aquaculture ponds have negative effects on sustainable development. The use of composite I20 biotherapy has been shown to effectively treat bacterial diseases in bullfrog ponds, providing a new strategy for controlling bacterial diseases in aquaculture.
Article
Fisheries
Peng Yin, Takaya Saito, Per Gunnar Fjelldal, Bjorn Tharandur Bjornsson, Sofie Charlotte Remo, Sandeep Sharma, Rolf Erik Olsen, Kristin Hamre
Summary: This study aims to investigate the effect of seasonal changes in temperature and photoperiod on the redox metabolism of Atlantic salmon at the molecular level. The research findings suggest that the changing photoperiod and temperature influenced the redox metabolism of Atlantic salmon, highlighting the importance of oxidative status in the ecological implications.
Article
Fisheries
Nicholas Oppong Mensah, Jeffery Kofi Asare, Emmanuel Tetteh-Doku Mensah, Ernest Christlieb Amrago, Frank Osei Tutu, Anthony Donkor
Summary: This study investigates aquaculture farmers' preference for climate-smart aquaculture insurance products, the challenges they face, and their preferred insurance coverage. The results show that farmers prefer Climate-Induced Aquaculture Stock Mortality Insurance and the most significant constraint is the delay in claim settlement.
Article
Fisheries
Qiu-Ping Chai, Pei Wu, Wei-Dan Jiang, Yang Liu, Hong-Mei Ren, Xiao-Wan Jin, Lin Feng, Xiao-Qiu Zhou
Summary: The study found that appropriate levels of potassium diformate (KDF) can enhance the immune defense and mediate the inflammatory process in fish, possibly through the regulation of T cell differentiation via JAK-STAT and NF-kappa B signaling pathways.
Article
Fisheries
Tian Zhu, Haomin Jia, Haopeng Zhang, Yujing Xiao, Cui Han, Jiaxin Yang
Summary: Chicken manure has significant effects on the cultivation of Chlorella and rotifers. The optimal amount of chicken manure extract for continuous cultivation is 10 mLL-1. Chicken manure can promote the growth of Chlorella and improve the fatty acid composition, indirectly enhancing the growth condition and fatty acid content of rotifers.
Article
Fisheries
Zheng Luo, Yang Yu, Zhenning Bao, Fuhua Li
Summary: This study analyzed the heritability and genetic correlation of two growth traits in Pacific white shrimp and evaluated the genomic prediction using different genomic selection models. The results showed that the NeuralNet model had the highest prediction accuracy and better prospects for predicting shrimp growth traits.
Article
Fisheries
Alberto Ruiz, Ignasi Sanahuja, Karl B. Andree, Dolors Furones, Paul G. Holhorea, Josep A. Calduch-Giner, Jose J. Pastor, Marc Vinas, Jaume Perez-Sanchez, Sofia Morais, Enric Gisbert
Summary: Supplementing diets with a combination of spice oleoresins can reduce lipid accumulation and inflammation in farmed fish. The combination of spice oleoresins also has an immunomodulatory effect on the fish's intestinal immune system, potentially offering anti-inflammatory benefits.
Article
Fisheries
Beibei Zhao, Renhui Mei, Le Li, Di Hu, Lei Li
Summary: This study reveals that JfCXCL8_L1a and JfCXCL8_L1b have different immune pathways, and JfCXCL8_L1b plays a significant role in enhancing the adaptive immunity of T cell-dependent antigen.
Article
Fisheries
Yuhang Liu, Danying Cao, Nan Wu, Xuyang Zhao, Qingsong Zhu, Lian Su, Fatima Altaf, Qianqian Zhang, Haokun Liu, Yongming Li, Bruno Hamish Unger, Yingyin Cheng, Wanting Zhang, Aihua Li, Yaping Wang, Xiao-Qin Xia
Summary: Based on previous research, sinomenine has been found to protect mucosal immunity in farmed fish species by preventing intestinal pathological changes and regulating gene expression related to inflammation. It also enhances immune homeostasis and controls the growth of pathogenic bacteria.