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Sun J, Zhou H, Cheng H, Chen Z, Wang Y. Bacterial abundant taxa exhibit stronger environmental adaption than rare taxa in the Arctic Ocean sediments. MARINE ENVIRONMENTAL RESEARCH 2024; 199:106624. [PMID: 38943698 DOI: 10.1016/j.marenvres.2024.106624] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Subscribe] [Scholar Register] [Received: 04/27/2024] [Revised: 06/20/2024] [Accepted: 06/25/2024] [Indexed: 07/01/2024]
Abstract
Marine bacteria influence Earth's environmental dynamics in fundamental ways by controlling the biogeochemistry and productivity of the oceans. However, little is known about the survival strategies of their abundant and rare taxa, especially in polar marine environments. Here, bacterial environmental adaptation, community assembly processes, and co-occurrence patterns between abundant and rare taxa were compared in the Arctic Ocean sediments. Results indicated that the diversity of rare taxa is significantly higher than that of abundant taxa, whereas the distance-decay rate of rare taxa community similarity is over 1.5 times higher than that of abundant taxa. Furthermore, abundant taxa exhibited broader environmental breadth and stronger phylogenetic signals compared to rare taxa. Additionally, the community assembly processes of the abundant taxa were predominantly governed by 81% dispersal limitation, while rare taxa were primarily influenced by 48% heterogeneous selection. The co-occurrence network further revealed the abundant taxa formed a more complex network to enhance their environmental adaptability. This study revealed the differences in environmental responses and community assembly processes between bacterial abundant and rare taxa in polar ocean sediments, providing some valuable insights for understanding their environmental adaptation strategies in marine ecosystems.
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Affiliation(s)
- Jianxing Sun
- School of Minerals Processing and Bioengineering, Central South University, Changsha, 410083, Hunan, PR China
| | - Hongbo Zhou
- School of Minerals Processing and Bioengineering, Central South University, Changsha, 410083, Hunan, PR China; Key Laboratory of Biohydrometallurgy of Ministry of Education, Changsha, 410083, Hunan, PR China
| | - Haina Cheng
- School of Minerals Processing and Bioengineering, Central South University, Changsha, 410083, Hunan, PR China; Key Laboratory of Biohydrometallurgy of Ministry of Education, Changsha, 410083, Hunan, PR China
| | - Zhu Chen
- School of Minerals Processing and Bioengineering, Central South University, Changsha, 410083, Hunan, PR China; Key Laboratory of Biohydrometallurgy of Ministry of Education, Changsha, 410083, Hunan, PR China
| | - Yuguang Wang
- School of Minerals Processing and Bioengineering, Central South University, Changsha, 410083, Hunan, PR China; Key Laboratory of Biohydrometallurgy of Ministry of Education, Changsha, 410083, Hunan, PR China.
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Zhang C, Ndungu CN, Feng L, Huang J, Ba S, Liu W, Cai M. Plant diversity is more important than soil microbial diversity in explaining soil multifunctionality in Qinghai-Tibetan plateau wetlands. JOURNAL OF ENVIRONMENTAL MANAGEMENT 2024; 365:121509. [PMID: 38897088 DOI: 10.1016/j.jenvman.2024.121509] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Subscribe] [Scholar Register] [Received: 02/18/2024] [Revised: 06/11/2024] [Accepted: 06/16/2024] [Indexed: 06/21/2024]
Abstract
The Qinghai-Tibetan Plateau harbors rich and diverse wetlands that provide multiple ecological functions simultaneously. Although the relationships between biodiversity and wetland functioning have been well studied in recent decades, the links between the multiple features of plant and microbial communities and soil multifunctionality (SMF) remain unknown in the high-altitude wetlands that are extremely sensitive to human disturbance. Here, using the single function, averaging, weighted, and multiple-threshold methods, we calculated the SMF of Qinghai-Tibetan wetlands based on 15 variables associated with soil nutrient status, nutrient cycle, and greenhouse gas emission. We then related SMF to multidimensional (species, phylogenetic, and functional) diversity of plants and soil microorganisms and microbial network modules. The results showed that plant diversity explained more variance in SMF than soil microbial diversity, and plant species richness and phylogenetic distance were positive predictors of SMF. Bacterial network modules were more positively related to SMF than fungal network modules, and the alpha diversity of bacterial network modules contributed more to SMF than the diversity of the whole bacterial community. Pediococcus, Hirsutella, and Rhodotorula were biomarkers for SMF and had significant relationships with nitrogen mineralization and greenhouse gas emissions. Together, these results highlight the importance of plant diversity and bacterial network modules in determining the SMF, which are crucial to predicting the response of ecosystem functioning to biodiversity loss under intensifying anthropogenic activities.
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Affiliation(s)
- Caifang Zhang
- CAS Key Laboratory of Aquatic Botany and Watershed Ecology, Wuhan Botanical Garden, Chinese Academy of Sciences, Wuhan, 430074, China; University of Chinese Academy of Sciences, Beijing, 100049, China
| | - Caroline Njambi Ndungu
- CAS Key Laboratory of Aquatic Botany and Watershed Ecology, Wuhan Botanical Garden, Chinese Academy of Sciences, Wuhan, 430074, China; University of Chinese Academy of Sciences, Beijing, 100049, China
| | - Lian Feng
- School of Ecology and Environment, Tibet University, Lhasa 850000, China
| | - Jieya Huang
- School of Ecology and Environment, Tibet University, Lhasa 850000, China
| | - Sang Ba
- School of Ecology and Environment, Tibet University, Lhasa 850000, China; Center for Carbon Neutrality in the Earth's Third Pole, Tibet University, Lhasa 850000, China
| | - Wenzhi Liu
- Center for Carbon Neutrality in the Earth's Third Pole, Tibet University, Lhasa 850000, China; Danjiangkou Wetland Ecosystem Field Scientific Observation and Research Station, Chinese Academy of Sciences & Hubei Province, Wuhan, 430074, China.
| | - Miaomiao Cai
- CAS Key Laboratory of Aquatic Botany and Watershed Ecology, Wuhan Botanical Garden, Chinese Academy of Sciences, Wuhan, 430074, China; Danjiangkou Wetland Ecosystem Field Scientific Observation and Research Station, Chinese Academy of Sciences & Hubei Province, Wuhan, 430074, China.
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Feng F, Yang Y, Liu Q, Wu S, Yun Z, Xu X, Jiang Y. Insights into the characteristics of changes in dissolved organic matter fluorescence components on the natural attenuation process of toluene. JOURNAL OF HAZARDOUS MATERIALS 2024; 476:134952. [PMID: 38944985 DOI: 10.1016/j.jhazmat.2024.134952] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Subscribe] [Scholar Register] [Received: 02/18/2024] [Revised: 06/10/2024] [Accepted: 06/16/2024] [Indexed: 07/02/2024]
Abstract
Natural attenuation (NA) is of great significance for the remediation of contaminated groundwater, and how to identify NA patterns of toluene in aquifers more quickly and effectively poses an urgent challenge. In this study, the NA of toluene in two typical soils was conducted by means of soil column experiment. Based on column experiments, dissolved organic matter (DOM) was rapidly identified using fluorescence spectroscopy, and the relationship between DOM and the NA of toluene was established through structural equation modeling analysis. The adsorption rates of toluene in clay and sandy soil were 39 % and 26 %, respectively. The adsorption capacity and total NA capacity of silty clay were large. The occurrence of fluorescence peaks of protein-like components and specific products indicated the occurrence of biodegradation. Arenimonas, Acidovorax and Brevundimonas were the main degrading bacteria identified in Column A, while Pseudomonas, Azotobacter and Mycobacterium were the main ones identified in Column B. The pH, ORP, and Fe(II) were the most important factors affecting the composition of microbial communities, which in turn affected the NA of toluene. These results provide a new way to quickly identify NA of toluene.
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Affiliation(s)
- Fan Feng
- College of Water Sciences, Beijing Normal University, Beijing 100875, China; State Key Laboratory of Environmental Criteria and Risk Assessment, Chinese Research Academy of Environmental Sciences, Beijing 100012, China; State Environmental Protection Key Laboratory of Simulation and Control of Groundwater Pollution, Chinese Research Academy of Environmental Sciences, Beijing 100012, China
| | - Yu Yang
- State Key Laboratory of Environmental Criteria and Risk Assessment, Chinese Research Academy of Environmental Sciences, Beijing 100012, China; State Environmental Protection Key Laboratory of Simulation and Control of Groundwater Pollution, Chinese Research Academy of Environmental Sciences, Beijing 100012, China
| | - Qiyuan Liu
- State Key Laboratory of Environmental Criteria and Risk Assessment, Chinese Research Academy of Environmental Sciences, Beijing 100012, China; State Environmental Protection Key Laboratory of Simulation and Control of Groundwater Pollution, Chinese Research Academy of Environmental Sciences, Beijing 100012, China
| | - Shuxuan Wu
- College of Water Sciences, Beijing Normal University, Beijing 100875, China; State Key Laboratory of Environmental Criteria and Risk Assessment, Chinese Research Academy of Environmental Sciences, Beijing 100012, China; State Environmental Protection Key Laboratory of Simulation and Control of Groundwater Pollution, Chinese Research Academy of Environmental Sciences, Beijing 100012, China
| | - Zhichao Yun
- State Key Laboratory of Environmental Criteria and Risk Assessment, Chinese Research Academy of Environmental Sciences, Beijing 100012, China; State Environmental Protection Key Laboratory of Simulation and Control of Groundwater Pollution, Chinese Research Academy of Environmental Sciences, Beijing 100012, China
| | - Xiangjian Xu
- State Key Laboratory of Environmental Criteria and Risk Assessment, Chinese Research Academy of Environmental Sciences, Beijing 100012, China; State Environmental Protection Key Laboratory of Simulation and Control of Groundwater Pollution, Chinese Research Academy of Environmental Sciences, Beijing 100012, China
| | - Yonghai Jiang
- State Key Laboratory of Environmental Criteria and Risk Assessment, Chinese Research Academy of Environmental Sciences, Beijing 100012, China; State Environmental Protection Key Laboratory of Simulation and Control of Groundwater Pollution, Chinese Research Academy of Environmental Sciences, Beijing 100012, China.
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Sun Z, Yao Z, Gao P, Zhou K, Li Y, Wei Y, Lai Q. Effects of Fishery Utilization on the Physicochemical Index and Microbial Community Composition in Saline-Alkaline Water. ACS OMEGA 2024; 9:18872-18881. [PMID: 38708222 PMCID: PMC11064000 DOI: 10.1021/acsomega.3c08437] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Grants] [Track Full Text] [Download PDF] [Figures] [Subscribe] [Scholar Register] [Received: 10/25/2023] [Revised: 03/29/2024] [Accepted: 04/02/2024] [Indexed: 05/07/2024]
Abstract
Fishery utilization of idle saline-alkaline water resources offers various benefits including reducing surrounding soil salinity, improving the ecological environment, increasing arable land area, and providing economic advantages to the fishery industry. However, for decades, the characteristics and regulatory mechanisms of microbial communities that affect fishery utilization have not been clear, which restricts their application. In this study, high-throughput 16S rRNA amplicon sequencing was employed to analyze the bacterial community in these water resources. The sequencing yielded high-quality sequences (2,765,063), resulting in the identification of 18,761 bacterial operational taxonomic units (OTUs). Analysis revealed that the type of saline-alkaline water had a more significant influence on the bacterial community compared to seasonal variations within the aquaculture period. The Chao index for saline-alkaline ponds (ASW) was significantly lower (P < 0.05) than for still saline-alkaline water (SSW) and flowing saline-alkaline water (FSW), while the Shannon index for ASW was also significantly lower (P < 0.05) compared to FSW. When comparing ASW to nonaquaculture saline-alkaline water, a decrease in Proteobacteria to 26.87% was noted, particularly α-proteobacteria and γ-proteobacteria, accompanied by a rapid increase in Actinobacteria and Cyanobacteria to 28.60%. Networkx analysis further revealed that ASW significantly increased competition and amensalism from secondary saline-alkaline water microorganisms, resulting in a more solitary bacterial community composition as an adaptive strategy to cope with intense environmental pressures. Key bacterial species such as Pseudomonas, Hydrogenophaga, and Flavobacterium were found to be involved in hydrogen-cycling, nitrogen-cycling, and carbon-cycling, respectively, with all three exhibiting high abundance in FSW. Consequently, FSW demonstrates significant advantages in biogeochemical cycling, pollutant degradation, and the utilization of indigenous probiotic bacteria. Although the surface of abandoned secondary saline-alkaline land was covered with white salt particles, the fishery utilization of saline-alkaline water with low salinity levels (4.0-5.5), and the presence of nitrate and phosphate were identified as primary determinants of bacterial community composition. Nevertheless, a comparison of coastal high-salinity ponds indicated that salinity still selectively affects bacterial communities to some extent. Overall, our study provides valuable insights into the microbial regulation of nitrite during saline-alkaline water aquaculture, thereby aiding in the efficient utilization of secondary saline-alkaline water resources for fisheries.
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Affiliation(s)
- Zhen Sun
- East China Sea
Fisheries
Research Institute, Chinese Academy of Fisheries Sciences, 300 Jungong Road, Shanghai 200090, China
| | - Zongli Yao
- East China Sea
Fisheries
Research Institute, Chinese Academy of Fisheries Sciences, 300 Jungong Road, Shanghai 200090, China
| | - Pengcheng Gao
- East China Sea
Fisheries
Research Institute, Chinese Academy of Fisheries Sciences, 300 Jungong Road, Shanghai 200090, China
| | - Kai Zhou
- East China Sea
Fisheries
Research Institute, Chinese Academy of Fisheries Sciences, 300 Jungong Road, Shanghai 200090, China
| | - Yan Li
- East China Sea
Fisheries
Research Institute, Chinese Academy of Fisheries Sciences, 300 Jungong Road, Shanghai 200090, China
| | - Yuxing Wei
- East China Sea
Fisheries
Research Institute, Chinese Academy of Fisheries Sciences, 300 Jungong Road, Shanghai 200090, China
| | - Qifang Lai
- East China Sea
Fisheries
Research Institute, Chinese Academy of Fisheries Sciences, 300 Jungong Road, Shanghai 200090, China
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Xia M, Xia Y, Sun Y, Wang J, Lu J, Wang X, Xia D, Xu X, Sun B. Gut microbiome is associated with personality traits of free-ranging Tibetan macaques ( Macaca thibetana). Front Microbiol 2024; 15:1381372. [PMID: 38711972 PMCID: PMC11070476 DOI: 10.3389/fmicb.2024.1381372] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 02/03/2024] [Accepted: 04/03/2024] [Indexed: 05/08/2024] Open
Abstract
Recent studies have emphasized that there is a strong link between the gut microbiome and the brain that affects social behavior and personality in animals. However, the interface between personality and the gut microbiome in wild primates remains poorly understood. Here, we used high-throughput sequencing and ethological methods in primate behavioral ecology to investigate the relationship between gut microbiome and personality in Tibetan macaques (Macaca thibetana). The behavioral assessment results indicated three personality dimensions including socialization, shyness, and anxiety. There was significant variation in alpha diversity only for shyness, with a significantly lower alpha diversity indices (including Shannon, Chao1, and PD) for bold individuals than for shy individuals. Using regression models to control for possible confounding factors, we found that the relative abundance of three genera, Akkermansia, Dialister, and Asteroleplasma, was significantly and positively correlated with the sociability scores in the macaques. In addition, Oscillospiraceae exhibited a positive correlation with scores for Shy Dimension. Furthermore, we found that the predicted functional genes for propionate and pyruvate, porphyrin and chlorophyll metabolic pathways related to animal behavior, were significant enriched in shyness group. We propose that the gut microbiome may play an important role in the formation of personality of Tibetan macaques.
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Affiliation(s)
- Mengyi Xia
- School of Resources and Environmental Engineering, Anhui University, Hefei, China
- International Collaborative Research Center for Huangshan Biodiversity and Tibetan Macaque Behavioral Ecology, Anhui University, Hefei, China
| | - Yingna Xia
- School of Resources and Environmental Engineering, Anhui University, Hefei, China
- International Collaborative Research Center for Huangshan Biodiversity and Tibetan Macaque Behavioral Ecology, Anhui University, Hefei, China
| | - Yu Sun
- School of Resources and Environmental Engineering, Anhui University, Hefei, China
- International Collaborative Research Center for Huangshan Biodiversity and Tibetan Macaque Behavioral Ecology, Anhui University, Hefei, China
| | - Jingjing Wang
- School of Resources and Environmental Engineering, Anhui University, Hefei, China
- International Collaborative Research Center for Huangshan Biodiversity and Tibetan Macaque Behavioral Ecology, Anhui University, Hefei, China
| | - Jiakai Lu
- School of Resources and Environmental Engineering, Anhui University, Hefei, China
- International Collaborative Research Center for Huangshan Biodiversity and Tibetan Macaque Behavioral Ecology, Anhui University, Hefei, China
| | - Xi Wang
- School of Resources and Environmental Engineering, Anhui University, Hefei, China
- International Collaborative Research Center for Huangshan Biodiversity and Tibetan Macaque Behavioral Ecology, Anhui University, Hefei, China
| | - Dongpo Xia
- International Collaborative Research Center for Huangshan Biodiversity and Tibetan Macaque Behavioral Ecology, Anhui University, Hefei, China
- School of Life Sciences, Anhui University, Hefei, China
| | - Xiaojuan Xu
- International Collaborative Research Center for Huangshan Biodiversity and Tibetan Macaque Behavioral Ecology, Anhui University, Hefei, China
- School of Biology and Food Engineering, Hefei Normal University, Hefei, China
| | - Binghua Sun
- School of Resources and Environmental Engineering, Anhui University, Hefei, China
- International Collaborative Research Center for Huangshan Biodiversity and Tibetan Macaque Behavioral Ecology, Anhui University, Hefei, China
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Xu W, Sun X, Mi L, Wang K, Gu Z, Wang M, Shu C, Bai X, Zhang J, Geng L. Plants recruit insecticidal bacteria to defend against herbivore attacks. Microbiol Res 2024; 281:127597. [PMID: 38266597 DOI: 10.1016/j.micres.2023.127597] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 08/14/2023] [Revised: 12/01/2023] [Accepted: 12/28/2023] [Indexed: 01/26/2024]
Abstract
Pest feeding affects the rhizobacteria community. The rhizomicrobiota activates salicylic acid and jasmonic acid signaling pathways to help plants deal with pest infestation. However, whether plants can recruit special pesticidal microorganisms to deal with attack from herbivores is unclear. A system composed of peanuts and first-instar larvae of Holotrichia parallela were used to analyze whether peanuts truly enrich the insecticidal bacteria after feeding by larvae, and whether inoculation of the enriched bacteria promotes the resistance of plants to herbivore. In this study, high-throughput sequencing of 16 S rRNA gene amplicons was used to demonstrate that infestation of the subterranean pest H. parallela quickly changed the rhizosphere bacterial community structure within 24 h, and the abundance of Enterobacteriaceae, especially Enterobacter, was manifestly enriched. Root feeding induced rhizobacteria to form a more complex co-occurrence network than the control. Rhizosphere bacteria were isolated, and 4 isolates with high toxicity against H. parallela larvae were obtained by random forest analysis. In a back-inoculation experiment using a split-root system, green fluorescent protein (GFP)-labeled Enterobacter sp. IPPBiotE33 was observed to be enriched in uneaten peanut roots. Additionally, supplementation with IPPBiotE33 alleviated the adverse effects of H. parallela on peanuts. Our findings indicated that herbivore infestation could induce plants to assemble bacteria with specific larvicidal activity to address threats.
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Affiliation(s)
- Wenyu Xu
- State Key Laboratory for Biology of Plant Diseases and Insect Pests, Institute of Plant Protection, Chinese Academy of Agricultural Sciences, Beijing, China
| | - Xiaoxiao Sun
- State Key Laboratory for Biology of Plant Diseases and Insect Pests, Institute of Plant Protection, Chinese Academy of Agricultural Sciences, Beijing, China
| | - Liang Mi
- State Key Laboratory for Biology of Plant Diseases and Insect Pests, Institute of Plant Protection, Chinese Academy of Agricultural Sciences, Beijing, China; College of Life Sciences, Northeast Agricultural University, Harbin, China
| | - Kui Wang
- School of Plant Protection, Anhui Agricultural University, Hefei, China
| | - Ziqiong Gu
- State Key Laboratory for Biology of Plant Diseases and Insect Pests, Institute of Plant Protection, Chinese Academy of Agricultural Sciences, Beijing, China
| | - Meiling Wang
- College of Plant Protection, Shanxi Agricultural University, Taigu, China
| | - Changlong Shu
- State Key Laboratory for Biology of Plant Diseases and Insect Pests, Institute of Plant Protection, Chinese Academy of Agricultural Sciences, Beijing, China
| | - Xi Bai
- College of Life Sciences, Northeast Agricultural University, Harbin, China
| | - Jie Zhang
- State Key Laboratory for Biology of Plant Diseases and Insect Pests, Institute of Plant Protection, Chinese Academy of Agricultural Sciences, Beijing, China
| | - Lili Geng
- State Key Laboratory for Biology of Plant Diseases and Insect Pests, Institute of Plant Protection, Chinese Academy of Agricultural Sciences, Beijing, China.
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Wan P, Zhou Z, Yuan Z, Wei H, Huang F, Li Z, Li FM, Zhang F. Fungal community composition changes and reduced bacterial diversity drive improvements in the soil quality index during arable land restoration. ENVIRONMENTAL RESEARCH 2024; 244:117931. [PMID: 38103774 DOI: 10.1016/j.envres.2023.117931] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 10/17/2023] [Revised: 12/08/2023] [Accepted: 12/10/2023] [Indexed: 12/19/2023]
Abstract
Arable land is facing the growing challenge of land degradation due to intensive use and this is beginning to affect global food security. However, active and passive restoration can improve soil characteristics and reshape microbial communities. Despite the increasing focus on changes in microbial communities during restoration, the mechanisms underlying how microbes drive the soil quality index (SQI) in arable land restoration remain unclear. In this study, we selected conventional farmland (CF, heavily intensified) and two restoration strategies (AR, artificial restoration; NR, natural restoration), with the same context (including soil texture, climate, etc.), and measured the microbial indicators over 2 years to investigate the mechanisms driving SQI improvement on restored arable land. The AR and NR treatments resulted in a 50% and 58% increase in SQI, respectively, compared to CF as soil nutrient levels increased, resulting in higher microbial biomasses and enzyme activities. Microbial abundance on the AR land was approximately two times greater than on the NR land due to the introduction of legumes. Bacterial diversity declined, while fungi developed in a more diverse direction under the restoration strategies. The AR and NR areas were mainly enriched with rhizobium (Microvirga, Bradyrhizobium), which contribute to healthy plant growth. The pathogenic fungi (Gibberella, Fusarium, Volutella) were more abundant in the CF area and the plant pathogen guild was about five times higher in the restored areas. Following arable land restoration, microbial life history strategies shifted from r-to K-strategists due to the higher proportion of recalcitrant SOC (DOC/SOC decreased by 18%-30%). The altered microbial community in the restored areas created new levels of functionality, with a 2.6%-4.3% decrease in bacterial energy metabolism (oxidative phosphorylation, C fixation, and N metabolism decreased by 7%, 4%, and 6%, respectively). Structural equation modelling suggested that restoration strategy affected SQI either directly by increasing total soil nutrient levels or indirectly by altering the microbial community and that fungal community composition and bacterial diversity made the largest contributions to SQI. These results provided new insights into soil quality improvement from a microbial perspective and can help guide future arable land restoration.
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Affiliation(s)
- Pingxing Wan
- State Key Laboratory of Herbage Improvement and Grassland Agro-ecosystems, College of Ecology, Lanzhou University, Lanzhou, Gansu, 730000, China
| | - Zhongke Zhou
- State Key Laboratory of Herbage Improvement and Grassland Agro-ecosystems, College of Ecology, Lanzhou University, Lanzhou, Gansu, 730000, China
| | - Ziqiang Yuan
- State Key Laboratory of Herbage Improvement and Grassland Agro-ecosystems, College of Ecology, Lanzhou University, Lanzhou, Gansu, 730000, China
| | - Huihui Wei
- State Key Laboratory of Herbage Improvement and Grassland Agro-ecosystems, College of Ecology, Lanzhou University, Lanzhou, Gansu, 730000, China
| | - Fuqiang Huang
- State Key Laboratory of Herbage Improvement and Grassland Agro-ecosystems, College of Ecology, Lanzhou University, Lanzhou, Gansu, 730000, China
| | - Zhansheng Li
- Asia Hub, Sanya Institute of Nanjing Agricultural University, Yazhou Bay Science and Technology City, Sanya, Hainan, 572000, China
| | - Feng-Min Li
- State Key Laboratory of Herbage Improvement and Grassland Agro-ecosystems, College of Ecology, Lanzhou University, Lanzhou, Gansu, 730000, China; College of Agriculture, Nanjing Agricultural University, Nanjing, 210095, China
| | - Feng Zhang
- State Key Laboratory of Herbage Improvement and Grassland Agro-ecosystems, College of Ecology, Lanzhou University, Lanzhou, Gansu, 730000, China.
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Vlasselaer L, Crauwels S, Lievens B, De Coninck B. Unveiling the microbiome of hydroponically cultivated lettuce: impact of Phytophthora cryptogea infection on plant-associated microorganisms. FEMS Microbiol Ecol 2024; 100:fiae010. [PMID: 38317643 PMCID: PMC10872686 DOI: 10.1093/femsec/fiae010] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 08/18/2023] [Revised: 12/08/2023] [Accepted: 02/02/2024] [Indexed: 02/07/2024] Open
Abstract
Understanding the complex interactions between plants and their associated microorganisms is crucial for optimizing plant health and productivity. While microbiomes of soil-bound cultivated crops are extensively studied, microbiomes of hydroponically cultivated crops have received limited attention. To address this knowledge gap, we investigated the rhizosphere and root endosphere of hydroponically cultivated lettuce. Additionally, we sought to explore the potential impact of the oomycete pathogen Phytophthora cryptogea on these microbiomes. Root samples were collected from symptomatic and nonsymptomatic plants in three different greenhouses. Amplicon sequencing of the bacterial 16S rRNA gene revealed significant alterations in the bacterial community upon P. cryptogea infection, particularly in the rhizosphere. Permutational multivariate analysis of variance (perMANOVA) revealed significant differences in microbial communities between plants from the three greenhouses, and between symptomatic and nonsymptomatic plants. Further analysis uncovered differentially abundant zero-radius operational taxonomic units (zOTUs) between symptomatic and nonsymptomatic plants. Interestingly, members of Pseudomonas and Flavobacterium were positively associated with symptomatic plants. Overall, this study provides valuable insights into the microbiome of hydroponically cultivated plants and highlights the influence of pathogen invasion on plant-associated microbial communities. Further research is required to elucidate the potential role of Pseudomonas and Flavobacterium spp. in controlling P. cryptogea infections within hydroponically cultivated lettuce greenhouses.
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Affiliation(s)
- Liese Vlasselaer
- Plant Health and Protection Laboratory, Division of Crop Biotechnics, Department of Biosystems, KU Leuven, Willem de Croylaan 42, B-3001 Leuven, Belgium
- KU Leuven Plant Institute, Kasteelpark Arenberg 31, B-3001 Leuven, Belgium
| | - Sam Crauwels
- KU Leuven Plant Institute, Kasteelpark Arenberg 31, B-3001 Leuven, Belgium
- Laboratory for Process Microbial Ecology and Bioinspirational Management, Center of Microbial and Plant Genetics, Department of Microbial and Molecular Systems, KU Leuven, Willem de Croylaan 46, B-3001 Leuven, Belgium
| | - Bart Lievens
- KU Leuven Plant Institute, Kasteelpark Arenberg 31, B-3001 Leuven, Belgium
- Laboratory for Process Microbial Ecology and Bioinspirational Management, Center of Microbial and Plant Genetics, Department of Microbial and Molecular Systems, KU Leuven, Willem de Croylaan 46, B-3001 Leuven, Belgium
| | - Barbara De Coninck
- Plant Health and Protection Laboratory, Division of Crop Biotechnics, Department of Biosystems, KU Leuven, Willem de Croylaan 42, B-3001 Leuven, Belgium
- KU Leuven Plant Institute, Kasteelpark Arenberg 31, B-3001 Leuven, Belgium
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Li H, Cai L, Wang L, Wang Y, Xu J, Zhang R. The structure and assembly mechanisms of T4-like cyanophages community in the South China Sea. Microbiol Spectr 2024; 12:e0200223. [PMID: 38193726 PMCID: PMC10846272 DOI: 10.1128/spectrum.02002-23] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 05/13/2023] [Accepted: 11/27/2023] [Indexed: 01/10/2024] Open
Abstract
Marine ecosystems contain an immense diversity of phages, many of which infect cyanobacteria (cyanophage) that are largely responsible for primary productivity. To characterize the genetic diversity and biogeographic distribution of the marine T4-like cyanophage community in the northern South China Sea, the T4-like cyanophage portal protein gene (g20) was amplified. Phylogenetic analysis revealed that marine T4-like cyanophages were highly diverse, with g20 operational taxonomic units being affiliated with five defined clades (Clusters I-V). Cluster II had a wide geographic distribution, Cluster IV was the most abundant in the open sea, and Cluster I was dominant in coastal shelf environments. Our results showed T4-like cyanophages (based on g20) community was generally shaped via heterogeneous selection. Highly variable environmental factors (such as salinity and temperature) can heterogeneously select different cyanophage communities. Nevertheless, the dominant drivers of the T4-like cyanophage community based on the g20 and g23 (T4-like phage major capsid protein gene) were different, probably due to different coverages by the primer sets. Furthermore, the community assembly processes of T4-like cyanophages were affected by host traits (abundance and distribution), viral traits (latent period, burst size, and host range), and environmental properties (temperature and salinity).IMPORTANCECyanophages are abundant and ubiquitous in the oceans, altering population structures and evolution of cyanobacteria, which account for a large portion of global carbon fixation, through host mortality, horizontal gene transfer, and the modulation of host metabolism. However, little is known about the biogeography and ecological drivers that shape the cyanophage community. Here, we use g20 and g23 genes to examine the biogeographic patterns and the assembly mechanisms of T4-like cyanophage community in the northern part of the South China Sea. The different coverages of primer sets might lead to the different dominant drivers of T4-like cyanophage community based on g20 and g23 genes. Our results showed that characteristics of viral traits (latent period, burst size, and host range) and host traits (abundance and distribution) were found to either limit or enhance the biogeographic distribution of T4-like cyanophages. Overall, both virus and host properties are critical to consider when determining rules of community assembly for viruses.
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Affiliation(s)
- Huifang Li
- Jiangsu Institute of Marine Resources Development, Jiangsu Ocean University, Lianyungang, China
- State Key Laboratory of Marine Environmental Science, College of Ocean and Earth Sciences, Xiamen University, Xiamen, China
| | - Lanlan Cai
- Department of Ocean Science, The Hong Kong University of Science and Technology, Hong Kong, China
| | - Long Wang
- State Key Laboratory of Marine Environmental Science, College of Ocean and Earth Sciences, Xiamen University, Xiamen, China
| | - Yu Wang
- State Key Laboratory of Marine Environmental Science, College of Ocean and Earth Sciences, Xiamen University, Xiamen, China
| | - Juntian Xu
- Jiangsu Institute of Marine Resources Development, Jiangsu Ocean University, Lianyungang, China
| | - Rui Zhang
- State Key Laboratory of Marine Environmental Science, College of Ocean and Earth Sciences, Xiamen University, Xiamen, China
- Institute for Advanced Study, Shenzhen University, Shenzhen, China
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10
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Esposito A, Del Duca S, Vitali F, Bigiotti G, Mocali S, Semenzato G, Papini A, Santini G, Mucci N, Padula A, Greco C, Nasanbat B, Davaakhuu G, Bazarragchaa M, Riga F, Augugliaro C, Cecchi L, Fani R, Zaccaroni M. The Great Gobi A Strictly Protected Area: Characterization of Soil Bacterial Communities from Four Oases. Microorganisms 2024; 12:320. [PMID: 38399724 PMCID: PMC10891509 DOI: 10.3390/microorganisms12020320] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 12/31/2023] [Revised: 01/30/2024] [Accepted: 02/01/2024] [Indexed: 02/25/2024] Open
Abstract
Understanding how microbial communities survive in extreme environmental pressure is critical for interpreting ecological patterns and microbial diversity. Great Gobi A Strictly Protected Area represents an intriguing model for studying the bacterial community since it is a protected and intact wild area of the Mongolian desert. In this work, the composition of a bacterial community of the soil from four oases was characterized by extracting total DNA and sequencing through the Illumina NovaSeq platform. In addition, the soil's chemical and physical properties were determined, and their influence on shaping the microbial communities was evaluated. The results showed a high variability of bacterial composition among oases. Moreover, combining specific chemical and physical parameters significantly shapes the bacterial community among oases. Data obtained suggested that the oases were highly variable in physiochemical parameters and bacterial communities despite the similar extreme climate conditions. Moreover, core functional microbiome were constituted by aerobic chemoheterotrophy and chemoheterotrophy, mainly contributed by the most abundant bacteria, such as Actinobacteriota, Pseudomonadota, and Firmicutes. This result supposes a metabolic flexibility for sustaining life in deserts. Furthermore, as the inhabitants of the extreme regions are likely to produce new chemical compounds, isolation of key taxa is thus encouraged.
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Affiliation(s)
- Antonia Esposito
- Council for Agricultural Research and Economics, Research Centre for Agriculture and Environment, 50125 Florence, Italy; (A.E.); (S.D.D.); (F.V.); (G.B.); (S.M.)
- Department of Biology, University of Florence, Via Madonna del Piano 6, Sesto Fiorentino, 50019 Florence, Italy; (G.S.); (A.P.); (G.S.)
| | - Sara Del Duca
- Council for Agricultural Research and Economics, Research Centre for Agriculture and Environment, 50125 Florence, Italy; (A.E.); (S.D.D.); (F.V.); (G.B.); (S.M.)
| | - Francesco Vitali
- Council for Agricultural Research and Economics, Research Centre for Agriculture and Environment, 50125 Florence, Italy; (A.E.); (S.D.D.); (F.V.); (G.B.); (S.M.)
| | - Gaia Bigiotti
- Council for Agricultural Research and Economics, Research Centre for Agriculture and Environment, 50125 Florence, Italy; (A.E.); (S.D.D.); (F.V.); (G.B.); (S.M.)
| | - Stefano Mocali
- Council for Agricultural Research and Economics, Research Centre for Agriculture and Environment, 50125 Florence, Italy; (A.E.); (S.D.D.); (F.V.); (G.B.); (S.M.)
| | - Giulia Semenzato
- Department of Biology, University of Florence, Via Madonna del Piano 6, Sesto Fiorentino, 50019 Florence, Italy; (G.S.); (A.P.); (G.S.)
| | - Alessio Papini
- Department of Biology, University of Florence, Via Madonna del Piano 6, Sesto Fiorentino, 50019 Florence, Italy; (G.S.); (A.P.); (G.S.)
| | - Giacomo Santini
- Department of Biology, University of Florence, Via Madonna del Piano 6, Sesto Fiorentino, 50019 Florence, Italy; (G.S.); (A.P.); (G.S.)
| | - Nadia Mucci
- Unit for Conservation Genetics (BIO-CGE), Institute for Environmental Protection and Research, Via Ca’ Fornacetta, 9, Ozzano dell’Emilia, 40064 Bologna, Italy; (N.M.); (A.P.); (C.G.)
| | - Anna Padula
- Unit for Conservation Genetics (BIO-CGE), Institute for Environmental Protection and Research, Via Ca’ Fornacetta, 9, Ozzano dell’Emilia, 40064 Bologna, Italy; (N.M.); (A.P.); (C.G.)
| | - Claudia Greco
- Unit for Conservation Genetics (BIO-CGE), Institute for Environmental Protection and Research, Via Ca’ Fornacetta, 9, Ozzano dell’Emilia, 40064 Bologna, Italy; (N.M.); (A.P.); (C.G.)
| | - Battogtokh Nasanbat
- Institute of Biology, Mongolian Academy of Sciences, Peace Avenue-54B, Bayanzurkh District, Ulaanbaatar 13330, Mongolia; (B.N.); (G.D.)
| | - Gantulga Davaakhuu
- Institute of Biology, Mongolian Academy of Sciences, Peace Avenue-54B, Bayanzurkh District, Ulaanbaatar 13330, Mongolia; (B.N.); (G.D.)
| | - Munkhtsetseg Bazarragchaa
- Department of Molecular Biology and Genetics, School of Bio-Medicine, Mongolian National University of Medical Sciences, Ulaanbaatar 14210, Mongolia;
| | - Francesco Riga
- Italian Institute for Environmental Protection and Research (ISPRA), Via Brancati 48, 00144 Rome, Italy;
| | | | - Lorenzo Cecchi
- Natural History Museum, Botanical Collections “Filippo Parlatore”—Via Giorgio la Pira 4, 50121 Florence, Italy;
| | - Renato Fani
- Department of Biology, University of Florence, Via Madonna del Piano 6, Sesto Fiorentino, 50019 Florence, Italy; (G.S.); (A.P.); (G.S.)
| | - Marco Zaccaroni
- Department of Biology, University of Florence, Via Madonna del Piano 6, Sesto Fiorentino, 50019 Florence, Italy; (G.S.); (A.P.); (G.S.)
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11
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Xing W, Hu N, Li Z, Feng L, Zhang W, Du Preez G, Zhang H, Li D, Lu S, Chang SX, Zhang Q, Lou Y. Soil enzyme profile analysis for indicating decomposer micro-food web. IMETA 2024; 3:e161. [PMID: 38868509 PMCID: PMC10989158 DOI: 10.1002/imt2.161] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Grants] [Track Full Text] [Figures] [Subscribe] [Scholar Register] [Received: 09/29/2023] [Revised: 10/19/2023] [Accepted: 10/28/2023] [Indexed: 06/14/2024]
Abstract
Highly diverse exoenzymes mediate the energy flow from substrates to the multitrophic microbiota within the soil decomposer micro-food web. Here, we used a "soil enzyme profile analysis" approach to establish a series of enzyme profile indices; those indices were hypothesized to reflect micro-food web features. We systematically evaluated the shifts in enzyme profile indices in relation to the micro-food web features in the restoration of an abandoned cropland to a natural area. We found that enzymatic C:N stoichiometry and decomposability index were significantly associated with substrate availability. Furthermore, the higher Shannon diversity index in the exoenzyme profile, especially for the C-degrading hydrolase, corresponded to a greater microbiota community diversity. The increased complexity and stability of the exoenzyme network reflected similar changes with the micro-food web networks. In addition, the gross activity of the enzyme profile as a parameter for soil multifunctionality, effectively predicted the substrate content, microbiota community size, diversity, and network complexity. Ultimately, the proposed enzymic channel index was closely associated with the traditional decomposition channel indices derived from microorganisms and nematodes. Our results showed that soil enzyme profile analysis reflected very well the decomposer food web features. Our study has important implications for projecting future climate change or anthropogenic disturbance impacts on soil decomposer micro-food web features by using soil enzyme profile analysis.
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Affiliation(s)
- Wen Xing
- Guangxi Key Laboratory of Health Care Food Science and Technology, School of Food and Biological EngineeringHezhou UniversityHezhouChina
- Institute of Environment and Sustainable Development in AgricultureChinese Academy of Agricultural SciencesBeijingChina
| | - Ning Hu
- Guangxi Key Laboratory of Health Care Food Science and Technology, School of Food and Biological EngineeringHezhou UniversityHezhouChina
| | - Zhongfang Li
- Guangxi Key Laboratory of Health Care Food Science and Technology, School of Food and Biological EngineeringHezhou UniversityHezhouChina
| | | | - Weidong Zhang
- Institute of Applied EcologyChinese Academy of SciencesShenyangChina
| | - Gerhard Du Preez
- Unit for Environmental Sciences and ManagementNorth‐West UniversityPotchefstroomSouth Africa
| | - Huimin Zhang
- Institute of Agricultural Resources and Regional PlanningChinese Academy of Agricultural SciencesBeijingChina
| | - Dongchu Li
- Institute of Agricultural Resources and Regional PlanningChinese Academy of Agricultural SciencesBeijingChina
| | | | - Scott X. Chang
- Department of Renewable ResourcesUniversity of AlbertaEdmontonAlbertaCanada
| | - Qingwen Zhang
- Institute of Environment and Sustainable Development in AgricultureChinese Academy of Agricultural SciencesBeijingChina
| | - Yilai Lou
- Institute of Environment and Sustainable Development in AgricultureChinese Academy of Agricultural SciencesBeijingChina
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12
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Niu X, Wang H, Wang T, Zhang P, Zhang H, Wang H, Kong X, Xie S, Xu J. The combination of multiple environmental stressors strongly alters microbial community assembly in aquatic ecosystems. JOURNAL OF ENVIRONMENTAL MANAGEMENT 2024; 350:119594. [PMID: 37995485 DOI: 10.1016/j.jenvman.2023.119594] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Subscribe] [Scholar Register] [Received: 03/23/2023] [Revised: 10/14/2023] [Accepted: 11/10/2023] [Indexed: 11/25/2023]
Abstract
Microorganisms play a critical role in maintaining the delicate balance of ecosystem services. However, the assembly processes that shape microbial communities are vulnerable to a range of environmental stressors, such as climate change, eutrophication, and the use of herbicides. Despite the importance of these stressors, little is known about their cumulative impacts on microbial community assembly in aquatic ecosystems. To address this knowledge gap, we established 48 mesocosm experiments that simulated shallow lake ecosystems and subjected them to warming (including continuous warming (W) and heat waves (H)), glyphosate-based herbicides (G), and nutrient loading (E). Our study revealed that in the control group, both deterministic and stochastic processes codominated the assembly of microbial communities in water, whereas in sediment, the processes were primarily stochastic. Interestingly, the effects of multiple stress factors on assembly in these two habitats were completely opposite. Specifically, stressors promoted the dominance of stochastic processes in water but increased the importance of deterministic processes in sediment. Furthermore, warming amplified the effects of herbicides but exerted an opposite and stronger influence on assembly compared to nutrients, emphasizing the complexity of these mechanisms and the significance of considering multiple stressors. The interaction of some factors significantly affected assembly (p < 0.05), with the effects of WEG being most pronounced in water. Both water and sediment exhibited homogeneous assembly of microbial communities (mean NTI >0), but the phylogenetic clustering of microbial communities in water was more closely related (NTI >2). Our research revealed the response model of microbial community assembly in aquatic ecosystems to multiple environmental stresses, such as agricultural pollution, climate change, and eutrophication, and indicated that microbial community changes in sediment may be an important predictor of lake ecosystem development. This provides scientific evidence that better environmental management can reduce impacts on aquatic ecosystems under the threat of future warming.
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Affiliation(s)
- Xiaofeng Niu
- School of Marine Biology and Fisheries, State Key Laboratory of Marine Resource Utilization in South China Sea, Hainan University, Haikou, Hainan, 570228, PR China; Institute of Hydrobiology, Chinese Academy of Sciences, Wuhan, 430072, PR China
| | - Huan Wang
- School of Marine Biology and Fisheries, State Key Laboratory of Marine Resource Utilization in South China Sea, Hainan University, Haikou, Hainan, 570228, PR China; Institute of Hydrobiology, Chinese Academy of Sciences, Wuhan, 430072, PR China.
| | - Tao Wang
- Institute of Hydrobiology, Chinese Academy of Sciences, Wuhan, 430072, PR China
| | - Peiyu Zhang
- Institute of Hydrobiology, Chinese Academy of Sciences, Wuhan, 430072, PR China
| | - Huan Zhang
- Institute of Hydrobiology, Chinese Academy of Sciences, Wuhan, 430072, PR China
| | - Hongxia Wang
- Institute of Hydrobiology, Chinese Academy of Sciences, Wuhan, 430072, PR China
| | - Xianghong Kong
- Institute of Hydrobiology, Chinese Academy of Sciences, Wuhan, 430072, PR China
| | - Songguang Xie
- School of Marine Biology and Fisheries, State Key Laboratory of Marine Resource Utilization in South China Sea, Hainan University, Haikou, Hainan, 570228, PR China; Institute of Hydrobiology, Chinese Academy of Sciences, Wuhan, 430072, PR China
| | - Jun Xu
- School of Marine Biology and Fisheries, State Key Laboratory of Marine Resource Utilization in South China Sea, Hainan University, Haikou, Hainan, 570228, PR China; Institute of Hydrobiology, Chinese Academy of Sciences, Wuhan, 430072, PR China.
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13
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Iqbal A, Maqsood Ur Rehman M, Sajjad W, Degen AA, Rafiq M, Jiahuan N, Khan S, Shang Z. Patterns of bacterial communities in the rhizosphere and rhizoplane of alpine wet meadows. ENVIRONMENTAL RESEARCH 2024; 241:117672. [PMID: 37980986 DOI: 10.1016/j.envres.2023.117672] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 08/31/2023] [Revised: 10/18/2023] [Accepted: 11/13/2023] [Indexed: 11/21/2023]
Abstract
Wet meadows, a type of wetland, are vulnerable to climate change and human activity, impacting soil properties and microorganisms that are crucial to the ecosystem processes of wet meadows. To decipher the ecological mechanisms and processes involved in wet meadows, it is necessary to examine the bacterial communities associated with plant roots. To gain valuable insight into the microbial dynamics of alpine wet meadows, we used Illumina MiSeq sequencing to investigate how environmental factors shape the bacterial communities thriving in the rhizosphere and rhizoplane of three plant species: Cremanthodium ellisii, Caltha scaposa, and Cremanthodium lineare. The most abundant bacterial phyla in rhizosphere and rhizoplane were Proteobacteria > Firmicutes > Actinobacteria, while Macrococcus, Lactococcus, and Exiguobacterium were the most abundant bacterial genera between rhizosphere and rhizoplane. The mantel test, network, and structure equation models revealed that bacterial communities of rhizosphere were shaped by total nitrogen (TN), soil water content (SWC), soil organic carbon (SOC), microbial biomass carbon (MBC), microbial biomass nitrogen (MBN), pH, however, rhizoplane bacterial communities exhibited varying results. The bacterial communities exhibited significant heterogeneity, with stochastic process predominating in both the rhizosphere and rhizoplane. PICRUSt2 and FAPROTAX analysis revealed substantial differences in key biogeochemical cycles and metabolic functional predictions. It was concluded that root compartments significantly influenced the bacterial communities, although plant species and elevation asserted varying effects. This study portrays how physicochemical properties, plant species, and elevations can shift the overall structure and functional repertoire of bacterial communities in alpine wet meadows.
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Affiliation(s)
- Awais Iqbal
- State Key Laboratory of Herbage Improvement and Grassland Agro-ecosystems, College of Ecology, Lanzhou University, Lanzhou, 730000, China
| | - Muhammad Maqsood Ur Rehman
- State Key Laboratory of Herbage Improvement and Grassland Agro-ecosystems, College of Ecology, Lanzhou University, Lanzhou, 730000, China
| | - Wasim Sajjad
- State Key Laboratory of Cryospheric Science, Northwest Institute of Eco-Environment and Resources, Chinese Academy of Sciences, Lanzhou, 730000, China
| | - Abraham Allan Degen
- Desert Animal Adaptations and Husbandry, Wyler Department of Dryland Agriculture, Blaustein Institutes for Desert Research, Ben-Gurion University of the Negev, Beer Sheva, 8410500, Israel
| | - Muhammad Rafiq
- Department of Microbiology, Faculty of Life Sciences and Informatics, Baluchistan University of IT, Engineering and Management Sciences, Quetta, Pakistan
| | - Niu Jiahuan
- Department of Health and Environmental Sciences, Xian Jiaotong-Liverpool University, Suzhou, 215123, China
| | - Salman Khan
- State Key Laboratory of Herbage Improvement and Grassland Agro-ecosystems, College of Ecology, Lanzhou University, Lanzhou, 730000, China
| | - Zhanhuan Shang
- State Key Laboratory of Herbage Improvement and Grassland Agro-ecosystems, College of Ecology, Lanzhou University, Lanzhou, 730000, China.
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14
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Yan X, Chen L, Peng P, Yang F, Dai L, Zhang H, Zhao F. Dual role of birnessite on the modulation of acid production and reinforcement of interspecific electron transfer in anaerobic digestion. THE SCIENCE OF THE TOTAL ENVIRONMENT 2024; 906:167842. [PMID: 37848138 DOI: 10.1016/j.scitotenv.2023.167842] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 08/08/2023] [Revised: 09/24/2023] [Accepted: 10/12/2023] [Indexed: 10/19/2023]
Abstract
Achieving efficient anaerobic digestion of highly loaded substrates is one of the most challenging problems in the field of waste resourcing. Here, the addition of birnessite (2.0 g/L) to kitchen wastewater increased the acetate and final methane yields by 40.53 and 99.18 %, respectively, while reducing the yields of propionate and butyrate by 38.17 and 48.86 %, respectively. There were two main pathways for birnessite to enhance anaerobic digestion, one of which is to act as an electron acceptor, by inducing an alteration in the ratio of reduced-state coenzyme I in the microorganism, allowing the acid production process to proceed towards deeper oxidation. Another pathway enhances the interspecific electron transfer between bacteria and archaea and improves methane yield by optimizing the metabolic relationship. The Kyoto Encyclopedia of Genes and Genomes (KEGG) functional predictions suggest that the extracellular electron transport pathway of the microorganism is enhanced with the addition of birnessite and that its intracellular metabolic pathway is biased towards the nicotinamide adenine dinucleotide (NADH) generation pathway. This work demonstrated that anaerobic digestion facilitation by metallic minerals was not monolithic; that is, different properties of the minerals were employed to intensify the different stages of anaerobic digestion and obtain an amplification cascade.
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Affiliation(s)
- Xinyu Yan
- CAS Key Laboratory of Urban Pollutant Conversion, Institute of Urban Environment, Chinese Academy of Science, 1799 Jimei Road, Xiamen 361021, Fujian, China; University of Chinese Academy of Sciences, 19 Yuquan Road, 100049 Beijing, China
| | - Lixiang Chen
- CAS Key Laboratory of Urban Pollutant Conversion, Institute of Urban Environment, Chinese Academy of Science, 1799 Jimei Road, Xiamen 361021, Fujian, China
| | - Pin Peng
- CAS Key Laboratory of Urban Pollutant Conversion, Institute of Urban Environment, Chinese Academy of Science, 1799 Jimei Road, Xiamen 361021, Fujian, China; University of Chinese Academy of Sciences, 19 Yuquan Road, 100049 Beijing, China
| | - Fan Yang
- CAS Key Laboratory of Urban Pollutant Conversion, Institute of Urban Environment, Chinese Academy of Science, 1799 Jimei Road, Xiamen 361021, Fujian, China
| | - Liping Dai
- CAS Key Laboratory of Urban Pollutant Conversion, Institute of Urban Environment, Chinese Academy of Science, 1799 Jimei Road, Xiamen 361021, Fujian, China; University of Chinese Academy of Sciences, 19 Yuquan Road, 100049 Beijing, China
| | - Han Zhang
- Institute of Urban Environment, Chinese Academy of Science, 1799 Jimei Road, Xiamen 361021, Fujian, China
| | - Feng Zhao
- CAS Key Laboratory of Urban Pollutant Conversion, Institute of Urban Environment, Chinese Academy of Science, 1799 Jimei Road, Xiamen 361021, Fujian, China.
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15
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Zhang G, Bai J, Tebbe CC, Huang L, Jia J, Wang W, Wang X, Zhao Q, Wen L, Kong F, Xi M, He Q. Habitat-specific responses of soil organic matter decomposition to Spartina alterniflora invasion along China's coast. ECOLOGICAL APPLICATIONS : A PUBLICATION OF THE ECOLOGICAL SOCIETY OF AMERICA 2024; 34:e2741. [PMID: 36103141 DOI: 10.1002/eap.2741] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Subscribe] [Scholar Register] [Received: 04/30/2022] [Revised: 07/03/2022] [Accepted: 07/06/2022] [Indexed: 06/15/2023]
Abstract
Plant invasions cause a fundamental change in soil organic matter (SOM) turnover. Disentangling the biogeographic patterns and key drivers of SOM decomposition and its temperature sensitivity (Q10 ) under plant invasion is a prerequisite for making projections of global carbon feedback. We collected soil samples along China's coast across saltmarshes to mangrove ecosystems invaded by the smooth cordgrass (Spartina alterniflora Loisel.). Microcosm experiments were carried out to determine the patterns of SOM decomposition and its thermal response. Soil microbial biomass and communities were also characterized accordingly. SOM decomposition constant dramatically decreased along the mean annual temperature gradient, whereas the cordgrass invasion retarded this change (significantly reduced slope, p < 0.05). The response of Q10 to invasion and the soil microbial quotient peaked at midlatitude saltmarshes, which can be explained by microbial metabolism strategies. Climatic variables showed strong negative controls on the Q10 , whereas dissolved carbon fraction exerted a positive influence on its spatial variance. Higher microbial diversity appeared to weaken the temperature-related response of SOM decomposition, with apparent benefits for carbon sequestration. Inconsistent responses to invasion were exhibited among habitat types, with SOM accumulation in saltmarshes but carbon loss in mangroves, which were explained, at least in part, by the SOM decomposition patterns under invasion. This study elucidates the geographic pattern of SOM decomposition and its temperature sensitivity in coastal ecosystems and underlines the importance of interactions between climate, soil, and microbiota for stabilizing SOM under plant invasion.
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Affiliation(s)
- Guangliang Zhang
- State Key Laboratory of Water Environment Simulation, School of Environment, Beijing Normal University, Beijing, People's Republic of China
| | - Junhong Bai
- State Key Laboratory of Water Environment Simulation, School of Environment, Beijing Normal University, Beijing, People's Republic of China
| | | | - Laibin Huang
- Department of Land, Air and Water Resources, University of California-Davis, Davis, California, USA
| | - Jia Jia
- Henan Key Laboratory of Ecological Environment Protection and Restoration of Yellow River Basin, Yellow River Institute of Hydraulic Research, Zhengzhou, People's Republic of China
| | - Wei Wang
- State Key Laboratory of Water Environment Simulation, School of Environment, Beijing Normal University, Beijing, People's Republic of China
| | - Xin Wang
- State Key Laboratory of Water Environment Simulation, School of Environment, Beijing Normal University, Beijing, People's Republic of China
| | - Qingqing Zhao
- Qilu University of Technology (Shandong Academy of Sciences), Ji'nan, People's Republic of China
- Ecology Institute of Shandong Academy of Sciences, Ji'nan, People's Republic of China
| | - Lixiang Wen
- State Key Laboratory of Water Environment Simulation, School of Environment, Beijing Normal University, Beijing, People's Republic of China
| | - Fanlong Kong
- College of Environmental Science and Engineering, Qingdao University, Qingdao, People's Republic of China
| | - Min Xi
- College of Environmental Science and Engineering, Qingdao University, Qingdao, People's Republic of China
| | - Qiang He
- Coastal Ecology Lab, MOE Key Laboratory for Biodiversity Science and Ecological Engineering, National Observation and Research Station for Wetland Ecosystems of the Yangtze Estuary (Shanghai), School of Life Sciences, Fudan University, Shanghai, People's Republic of China
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16
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Alsharif SM, Waznah MS, Ismaeil M, El-Sayed WS. 16S rDNA-based diversity analysis of bacterial communities associated with soft corals of the Red Sea, Al Rayyis, White Head, KSA. JOURNAL OF TAIBAH UNIVERSITY FOR SCIENCE 2023. [DOI: 10.1080/16583655.2022.2156762] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 03/06/2023]
Affiliation(s)
- Sultan M. Alsharif
- Department of Biology, College of Science, Taibah University, Al-Madinah, Kingdom of Saudi Arabia
| | - Moayad S. Waznah
- Department of Biology, College of Science, Taibah University, Al-Madinah, Kingdom of Saudi Arabia
| | - Mohamed Ismaeil
- Microbiology Department, Faculty of Science, Ain Shams University, Cairo, Egypt
| | - Wael S. El-Sayed
- Microbiology Department, Faculty of Science, Ain Shams University, Cairo, Egypt
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17
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Yu R, Luo J, Liu L, Peng X. Hypoglycemic Effect of Edible Fungi Polysaccharides Depends on Their Metabolites from the Fermentation of Human Fecal Microbiota. Foods 2023; 13:97. [PMID: 38201125 PMCID: PMC10778959 DOI: 10.3390/foods13010097] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Grants] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 11/28/2023] [Revised: 12/15/2023] [Accepted: 12/25/2023] [Indexed: 01/12/2024] Open
Abstract
Edible fungi polysaccharides are widely sourced and have various physiological activities, including hypoglycemic. Current studies mainly focus on the hypoglycemic activity of polysaccharides themselves, while the strength of the hypoglycemic activity of edible fungi polysaccharides from different sources remained elusive. This study compared the hypoglycemic activity of different edible fungi polysaccharides after in vitro fermentation by fecal bacteria, combined with non-targeted metabolomics and 16S rDNA analysis, to screen out potential key metabolites related to the hypoglycemic activity. The results show that the fermentation supernatants of all four edible fungi polysaccharides significantly increased the glucose consumption and glycogen synthesis of IR-HepG2, also up-regulated the level of hexokinase and down-regulated the level of phosphoenolpyruvate carboxylase. All fermentation supernatants could alleviate the insulin resistance of IR-HepG2 cells by regulating the expression levels of genes related to the IRS-1/PI3K/Akt signaling pathway. Gingerglycolipid A, sphinganine 1-phosphate, matricin, tricarballylic acid, N-carbamoylputrescine, nomega-acetylhistamine, tyramine, and benzamide could be considered as potential key metabolites to evaluate the hypoglycemic effects. Their levels were strongly positively correlated with the abundance of Candidatus_Stoquefichu, Faecalibacterium, Coprococcus, Bacteroides, Eubacterium_ventriosum_group, Anaerostipes, Parabacteroides, and Agathobacter. These metabolites and microorganisms are closely related to the hypoglycemic activity of edible fungi polysaccharides.
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Affiliation(s)
| | | | | | - Xichun Peng
- Department of Food Science and Engineering, Jinan University, Guangzhou 510632, China
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Wang L, Hu T, Li Y, Zhao Z, Zhu M. Unraveling the interplay between antibiotic resistance genes and microbial communities in water and sediments of the intensive tidal flat aquaculture. ENVIRONMENTAL POLLUTION (BARKING, ESSEX : 1987) 2023; 339:122734. [PMID: 37838320 DOI: 10.1016/j.envpol.2023.122734] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 07/21/2023] [Revised: 09/18/2023] [Accepted: 10/11/2023] [Indexed: 10/16/2023]
Abstract
Tidal flats are formed valuably resources by the interaction of terrestrial and marine processes. Aquaculture on tidal flats has brought significant economic profits, but the over usage of antibiotics has resulted in the prevalence antibiotic resistance genes (ARGs) which pose serious threats to ecosystems. However, ARG abundances and bacterial community assemblies in the overlying water and sediments of tidal flat aquaculture areas have not been fully explored. Thus, antibiotic concentrations, ARG abundances, microbial communities and the influences of environmental factors in the Jiangsu tidal flat aquaculture ponds were investigated using high-throughput sequencing and qPCR. The concentrations of antibiotics at sampling ranged from not detectable to 2322.4 ng g-1, and sulfamethazine and ciprofloxacin were the dominant antibiotics. The sul1 and sul2 abundances were highest and the ARG abundances were higher in sediment than in water. Meanwhile, bacterial community diversities and structures were significantly different (P < 0.05) between water and sediment samples. Network analysis identified Sphingomonadacear, Pseudomonas, and Xanthobacteraceae as potential ARG-carrying pathogens. A positive correlation between ARGs and intI1 indicated that horizontal gene transfer occurred in water, while antibiotics and TN significantly influenced ARG abundances in sediment. Neutral modeling showed that deterministic and stochastic processes contributed most to the bacterial community assemblies of water and sediment samples, respectively. This study comprehensively illustrates the prevalence of ARGs in intensive tidal flat aquaculture regions and provides an effective foundation for the management of antibiotics usage.
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Affiliation(s)
- Linqiong Wang
- College of Oceanography, Hohai University, Xikang Road #1, Nanjing, China
| | - Tong Hu
- College of Environment, Hohai University, Xikang Road #1, Nanjing, China
| | - Yi Li
- College of Environment, Hohai University, Xikang Road #1, Nanjing, China.
| | - Zhe Zhao
- College of Oceanography, Hohai University, Xikang Road #1, Nanjing, China
| | - Mengjie Zhu
- College of Environment, Hohai University, Xikang Road #1, Nanjing, China
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Chen B, Yu K, Fu L, Wei Y, Liang J, Liao Z, Qin Z, Yu X, Deng C, Han M, Ma H. The diversity, community dynamics, and interactions of the microbiome in the world's deepest blue hole: insights into extreme environmental response patterns and tolerance of marine microorganisms. Microbiol Spectr 2023; 11:e0053123. [PMID: 37861344 PMCID: PMC10883803 DOI: 10.1128/spectrum.00531-23] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 02/03/2023] [Accepted: 09/08/2023] [Indexed: 10/21/2023] Open
Abstract
IMPORTANCE This study comprehensively examined the community dynamics, functional profiles, and interactions of the microbiome in the world's deepest blue hole. The findings revealed a positive correlation between the α-diversities of Symbiodiniaceae and archaea, indicating the potential reliance of Symbiodiniaceae on archaea in an extreme environment resulting from a partial niche overlap. The negative association between the α-diversity and β-diversity of the bacterial community suggested that the change rule of the bacterial community was consistent with the Anna Karenina effects. The core microbiome comprised nine microbial taxa, highlighting their remarkable tolerance and adaptability to sharp environmental gradient variations. Bacteria and archaea played significant roles in carbon, nitrogen, and sulfur cycles, while fungi contributed to carbon metabolism. This study advanced our understanding of the community dynamics, response patterns, and resilience of microorganisms populating the world's deepest blue hole, thereby facilitating further ecological and evolutional exploration of microbiomes in diverse extreme environments.
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Affiliation(s)
- Biao Chen
- Guangxi Laboratory on the Study of Coral Reefs in the South China Sea, Coral Reef Research Center of China, School of Marine Sciences, Guangxi University , Nanning, China
- Southern Marine Science and Engineering Guangdong Laboratory (Zhuhai) , Zhuhai, China
| | - Kefu Yu
- Guangxi Laboratory on the Study of Coral Reefs in the South China Sea, Coral Reef Research Center of China, School of Marine Sciences, Guangxi University , Nanning, China
- Southern Marine Science and Engineering Guangdong Laboratory (Zhuhai) , Zhuhai, China
| | - Liang Fu
- Sansha Track Ocean Coral Reef Conservation Research Institute Co. Ltd. , Qionghai, China
| | - Yuxin Wei
- Guangxi Laboratory on the Study of Coral Reefs in the South China Sea, Coral Reef Research Center of China, School of Marine Sciences, Guangxi University , Nanning, China
| | - Jiayuan Liang
- Guangxi Laboratory on the Study of Coral Reefs in the South China Sea, Coral Reef Research Center of China, School of Marine Sciences, Guangxi University , Nanning, China
| | - Zhiheng Liao
- Guangxi Laboratory on the Study of Coral Reefs in the South China Sea, Coral Reef Research Center of China, School of Marine Sciences, Guangxi University , Nanning, China
- Key Laboratory of Environmental Change and Resource Use in Beibu Gulf, Ministry of Education, Nanning Normal University , Nanning, China
| | - Zhenjun Qin
- Guangxi Laboratory on the Study of Coral Reefs in the South China Sea, Coral Reef Research Center of China, School of Marine Sciences, Guangxi University , Nanning, China
| | - Xiaopeng Yu
- Guangxi Laboratory on the Study of Coral Reefs in the South China Sea, Coral Reef Research Center of China, School of Marine Sciences, Guangxi University , Nanning, China
| | - Chuanqi Deng
- Guangxi Laboratory on the Study of Coral Reefs in the South China Sea, Coral Reef Research Center of China, School of Marine Sciences, Guangxi University , Nanning, China
| | - Minwei Han
- Guangxi Laboratory on the Study of Coral Reefs in the South China Sea, Coral Reef Research Center of China, School of Marine Sciences, Guangxi University , Nanning, China
| | - Honglin Ma
- Key Laboratory of Environmental Change and Resource Use in Beibu Gulf, Ministry of Education, Nanning Normal University , Nanning, China
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20
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Deng W, Zhao Z, Li Y, Cao R, Chen M, Tang K, Wang D, Fan W, Hu A, Chen G, Chen CTA, Zhang Y. Strategies of chemolithoautotrophs adapting to high temperature and extremely acidic conditions in a shallow hydrothermal ecosystem. MICROBIOME 2023; 11:270. [PMID: 38049915 PMCID: PMC10696704 DOI: 10.1186/s40168-023-01712-w] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Subscribe] [Scholar Register] [Received: 06/24/2023] [Accepted: 10/27/2023] [Indexed: 12/06/2023]
Abstract
BACKGROUND Active hydrothermal vents create extreme conditions characterized by high temperatures, low pH levels, and elevated concentrations of heavy metals and other trace elements. These conditions support unique ecosystems where chemolithoautotrophs serve as primary producers. The steep temperature and pH gradients from the vent mouth to its periphery provide a wide range of microhabitats for these specialized microorganisms. However, their metabolic functions, adaptations in response to these gradients, and coping mechanisms under extreme conditions remain areas of limited knowledge. In this study, we conducted temperature gradient incubations of hydrothermal fluids from moderate (pH = 5.6) and extremely (pH = 2.2) acidic vents. Combining the DNA-stable isotope probing technique and subsequent metagenomics, we identified active chemolithoautotrophs under different temperature and pH conditions and analyzed their specific metabolic mechanisms. RESULTS We found that the carbon fixation activities of Nautiliales in vent fluids were significantly increased from 45 to 65 °C under moderately acidic condition, while their heat tolerance was reduced under extremely acidic conditions. In contrast, Campylobacterales actively fixed carbon under both moderately and extremely acidic conditions under 30 - 45 °C. Compared to Campylobacterales, Nautiliales were found to lack the Sox sulfur oxidation system and instead use NAD(H)-linked glutamate dehydrogenase to boost the reverse tricarboxylic acid (rTCA) cycle. Additionally, they exhibit a high genetic potential for high activity of cytochrome bd ubiquinol oxidase in oxygen respiration and hydrogen oxidation at high temperatures. In terms of high-temperature adaption, the rgy gene plays a critical role in Nautiliales by maintaining DNA stability at high temperature. Genes encoding proteins involved in proton export, including the membrane arm subunits of proton-pumping NADH: ubiquinone oxidoreductase, K+ accumulation, selective transport of charged molecules, permease regulation, and formation of the permeability barrier of bacterial outer membranes, play essential roles in enabling Campylobacterales to adapt to extremely acidic conditions. CONCLUSIONS Our study provides in-depth insights into how high temperature and low pH impact the metabolic processes of energy and main elements in chemolithoautotrophs living in hydrothermal ecosystems, as well as the mechanisms they use to adapt to the extreme hydrothermal conditions. Video Abstract.
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Affiliation(s)
- Wenchao Deng
- State Key Laboratory of Marine Environmental Sciences, Xiamen University, Xiamen, 361101, China.
- Key Laboratory of Marine Ecological Conservation and Restoration, Third Institute of Oceanography, Ministry of Natural Resources, Xiamen, 361005, China.
| | - Zihao Zhao
- Department of Functional and Evolutionary Ecology, Bio-Oceanography and Marine Biology Unit, University of Vienna, Djerassiplatz 1, 1030, Vienna, Austria
| | - Yufang Li
- Fisheries College, Jimei University, Xiamen, 361021, China
| | - Rongguang Cao
- State Key Laboratory of Marine Environmental Sciences, Xiamen University, Xiamen, 361101, China
| | - Mingming Chen
- State Key Laboratory of Marine Environmental Sciences, Xiamen University, Xiamen, 361101, China
| | - Kai Tang
- State Key Laboratory of Marine Environmental Sciences, Xiamen University, Xiamen, 361101, China
| | - Deli Wang
- State Key Laboratory of Marine Environmental Sciences, Xiamen University, Xiamen, 361101, China
| | - Wei Fan
- Ocean College, Zhejiang University, Zhoushan, 316000, China
| | - Anyi Hu
- CAS Key Laboratory of Urban Pollutant Conversion, Institute of Urban Environment, Chinese Academy of Sciences, Xiamen, 361021, China
| | - Guangcheng Chen
- Key Laboratory of Marine Ecological Conservation and Restoration, Third Institute of Oceanography, Ministry of Natural Resources, Xiamen, 361005, China
| | - Chen-Tung Arthur Chen
- Department of Oceanography, National Sun Yat-Sen University, Kaohsiung Taiwan, China
| | - Yao Zhang
- State Key Laboratory of Marine Environmental Sciences, Xiamen University, Xiamen, 361101, China.
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21
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Ren Y, Chen J, Fu S, Bu W, Xue H. Changes in the gut bacterial community affect miRNA profiles in Riptortus pedestris under different rearing conditions. COMPARATIVE BIOCHEMISTRY AND PHYSIOLOGY. PART D, GENOMICS & PROTEOMICS 2023; 48:101135. [PMID: 37688974 DOI: 10.1016/j.cbd.2023.101135] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 06/08/2023] [Revised: 08/04/2023] [Accepted: 08/31/2023] [Indexed: 09/11/2023]
Abstract
Insects possess complex and dynamic gut microbial system, which contributes to host nutrient absorption, reproduction, energy metabolism, and protection against stress. However, there are limited data on interactions of host-gut bacterial microbiota through miRNA (microRNA) regulation in a significant pest, Riptortus pedestris. Here, we performed the 16S rRNA amplicon sequencing and small RNA sequencing from the R. pedestris gut under three environmental conditions and antibiotic treatment, suggesting that we obtained a large amount of reads by assembly, filtration and quality control. The 16S rRNA amplicon sequencing results showed that the abundance and diversity of gut bacterial microbiota were significantly changed between antibiotic treatment and other groups, and they are involved in metabolism and biosynthesis-related function based on functional prediction. Furthermore, we identified different numbers of differentially expressed unigenes (DEGs) and differentially expressed miRNAs (DEMs) based on high-quality mappable reads, which were enriched in various immune-related pathways, including Toll-like receptor, RIG-I-like receptor, NOD-like receptor, JAK/STAT, PI3K/Akt, NF-κB, MAPK signaling pathways, and so forth, using GO and KEGG enrichment analysis. Later on, the identified miRNAs and their target genes in the R. pedestris gut were predicted and randomly selected to construct an interaction network. Finally, our study indicated that alterations in the gut bacterial microbiota are significantly positively or negatively associated with DEMs of the Toll/Imd signaling pathway with Pearson correlation analysis. Taken together, the results of our study lay the foundation for further deeply understanding the interactions between the gut microbiota and immune responses in R. pedestris through miRNA regulation, and provide the new basis for pest management in hemipteran pests.
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Affiliation(s)
- Yipeng Ren
- Institute of Entomology, College of Life Sciences, Nankai University, Tianjin 300071, PR China.
| | - Juhong Chen
- Institute of Entomology, College of Life Sciences, Nankai University, Tianjin 300071, PR China.
| | - Siying Fu
- Institute of Entomology, College of Life Sciences, Nankai University, Tianjin 300071, PR China.
| | - Wenjun Bu
- Institute of Entomology, College of Life Sciences, Nankai University, Tianjin 300071, PR China.
| | - Huaijun Xue
- Institute of Entomology, College of Life Sciences, Nankai University, Tianjin 300071, PR China.
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22
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Kurokawa M, Higashi K, Yoshida K, Sato T, Maruyama S, Mori H, Kurokawa K. Metagenomic Thermometer. DNA Res 2023; 30:dsad024. [PMID: 37940329 PMCID: PMC10660216 DOI: 10.1093/dnares/dsad024] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 05/29/2023] [Revised: 10/06/2023] [Accepted: 11/03/2023] [Indexed: 11/10/2023] Open
Abstract
Various microorganisms exist in environments, and each of them has its optimal growth temperature (OGT). The relationship between genomic information and OGT of each species has long been studied, and one such study revealed that OGT of prokaryotes can be accurately predicted based on the fraction of seven amino acids (IVYWREL) among all encoded amino-acid sequences in its genome. Extending this discovery, we developed a 'Metagenomic Thermometer' as a means of predicting environmental temperature based on metagenomic sequences. Temperature prediction of diverse environments using publicly available metagenomic data revealed that the Metagenomic Thermometer can predict environmental temperatures with small temperature changes and little influx of microorganisms from other environments. The accuracy of the Metagenomic Thermometer was also confirmed by a demonstration experiment using an artificial hot water canal. The Metagenomic Thermometer was also applied to human gut metagenomic samples, yielding a reasonably accurate value for human body temperature. The result further suggests that deep body temperature determines the dominant lineage of the gut community. Metagenomic Thermometer provides a new insight into temperature-driven community assembly based on amino-acid composition rather than microbial taxa.
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Affiliation(s)
- Masaomi Kurokawa
- Genome Evolution Laboratory, National Institute of Genetics, 1111 Yata, Mishima, Shizuoka 411-8540, Japan
| | - Koichi Higashi
- Genome Evolution Laboratory, National Institute of Genetics, 1111 Yata, Mishima, Shizuoka 411-8540, Japan
- Department of Biological Information, Tokyo Institute of Technology, 2-12-1 Ookayama, Meguro-ku, Tokyo 152-8550, Japan
| | - Keisuke Yoshida
- Department of Biological Information, Tokyo Institute of Technology, 2-12-1 Ookayama, Meguro-ku, Tokyo 152-8550, Japan
| | - Tomohiko Sato
- Earth-Life Science Institute, Tokyo Institute of Technology, 2-12-1 Ookayama, Meguro-ku, Tokyo 152-8551, Japan
| | - Shigenori Maruyama
- Earth-Life Science Institute, Tokyo Institute of Technology, 2-12-1 Ookayama, Meguro-ku, Tokyo 152-8551, Japan
| | - Hiroshi Mori
- Genome Evolution Laboratory, National Institute of Genetics, 1111 Yata, Mishima, Shizuoka 411-8540, Japan
- Genome Diversity Laboratory, National Institute of Genetics, 1111 Yata, Mishima, Shizuoka 411-8540, Japan
- Department of Biological Information, Tokyo Institute of Technology, 2-12-1 Ookayama, Meguro-ku, Tokyo 152-8550, Japan
| | - Ken Kurokawa
- Genome Evolution Laboratory, National Institute of Genetics, 1111 Yata, Mishima, Shizuoka 411-8540, Japan
- Department of Biological Information, Tokyo Institute of Technology, 2-12-1 Ookayama, Meguro-ku, Tokyo 152-8550, Japan
- Earth-Life Science Institute, Tokyo Institute of Technology, 2-12-1 Ookayama, Meguro-ku, Tokyo 152-8551, Japan
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23
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O'Connor J, Mickan BS, Gurung SK, Siddique KHM, Leopold M, Bolan NS. Enhancing nutrient recovery from food waste anaerobic digestate. BIORESOURCE TECHNOLOGY 2023; 390:129869. [PMID: 37844804 DOI: 10.1016/j.biortech.2023.129869] [Citation(s) in RCA: 2] [Impact Index Per Article: 2.0] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 09/14/2023] [Revised: 10/06/2023] [Accepted: 10/11/2023] [Indexed: 10/18/2023]
Abstract
The study synthesised the raw liquid fraction of digestate into a nutrient rich solid digestate through acidification whilst preventing nitrogen loss through ammonium volatilisation during evaporation. To stabilise ammonium in the digestate, it was acidified with sulphuric, nitric, and phosphoric acid to produce solid digestate with ammonium sulphate, ammonium nitrate and ammonium phosphate, respectively. These treatments were compared against urea ammonium nitrate, raw digestate, and unacidified solid digestate. To evaluate the effect of these transformed digestate products in soil, a plant growth experiment (Kikuyu; Cenchrus clandestinus) was conducted, and characterised, plant growth, soil chemistry, and rhizosphere bacterial communities. Plant growth was enhanced by all digestate treatments compared to control and urea ammonium nitrate. Ammonium phosphate solid digestate plant growth was significantly higher than all other acidified treatments due to the high P content. Moreover, digestate-amended soil had elevated Proteobacteria and putative denitrification genes.
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Affiliation(s)
- James O'Connor
- UWA School of Agriculture and Environment, The University of Western Australia, Perth, WA 6009, Australia; Cooperative Research Centre for High Performance Soil, Newcastle, Callaghan, NSW, 2308, Australia; The UWA Institute of Agriculture, The University of Western Australia, Perth, WA 6001, Australia.
| | - Bede S Mickan
- UWA School of Agriculture and Environment, The University of Western Australia, Perth, WA 6009, Australia; The UWA Institute of Agriculture, The University of Western Australia, Perth, WA 6001, Australia; Richgro Garden Products, 203 Acourt Rd, Jandakot, WA 6164, Australia
| | - Sun K Gurung
- UWA School of Agriculture and Environment, The University of Western Australia, Perth, WA 6009, Australia; The UWA Institute of Agriculture, The University of Western Australia, Perth, WA 6001, Australia
| | - Kadambot H M Siddique
- UWA School of Agriculture and Environment, The University of Western Australia, Perth, WA 6009, Australia; The UWA Institute of Agriculture, The University of Western Australia, Perth, WA 6001, Australia
| | - Matthias Leopold
- UWA School of Agriculture and Environment, The University of Western Australia, Perth, WA 6009, Australia; The UWA Institute of Agriculture, The University of Western Australia, Perth, WA 6001, Australia
| | - Nanthi S Bolan
- UWA School of Agriculture and Environment, The University of Western Australia, Perth, WA 6009, Australia; Cooperative Research Centre for High Performance Soil, Newcastle, Callaghan, NSW, 2308, Australia; The UWA Institute of Agriculture, The University of Western Australia, Perth, WA 6001, Australia
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24
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Lin Z, He M, Zhong C, Li Y, Tang S, Kang X, Wu Z. Responses of gut microbiota in crocodile lizards ( Shinisaurus crocodilurus) to changes in temperature. Front Microbiol 2023; 14:1263917. [PMID: 38033565 PMCID: PMC10684959 DOI: 10.3389/fmicb.2023.1263917] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Grants] [Track Full Text] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 07/20/2023] [Accepted: 10/16/2023] [Indexed: 12/02/2023] Open
Abstract
The gut microbiota plays an essential role in maintaining the health and fitness of the host organism. As a critical environmental variable, temperature exerts significant effects on animal survival and reproduction. Elevated temperatures can influence the composition and function of the animal gut microbiota, which may have potentially detrimental effects on the host. The crocodile lizard (Shinisaurus crocodilurus) is an ancient and currently endangered reptile species due to human hunting and habitat destruction. Given the predicted shifts in global temperatures in the next century, it is important to understand how warming affects the gut microbiota of these vulnerable lizards, which remains unclear. To determine how the microbial communities change in crocodile lizards in response to warming, we analyzed the gut microbiota under five temperature conditions (22°C, 24°C, 26°C, 28°C, and 30°C) using 16S rRNA high-throughput sequencing. Results showed that the dominant phyla, Proteobacteria and Bacteroidetes, in gut microbiota were not significantly affected by temperature variations, but increasing temperature altered the structure and increased the community richness of the gut microbiota. In addition, warming changed the abundance of Pseudomonas aeruginosa and Actinobacteria, which may have negative effects on the physiological health of the crocodile lizards. Functional prediction analysis demonstrated that the functional pathways enriched in crocodile lizards were mainly related to metabolism, with no significant differences observed in these pathways at KEGG pathway level 1 after warming. These results provide valuable insights into the ecological adaptations and regulatory mechanisms employed by crocodile lizards in response to warming, which may be of benefit for their conservation.
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Affiliation(s)
- Zhengzhong Lin
- Key Laboratory of Ecology of Rare and Endangered Species and Environmental Protection, Guangxi Normal University, Ministry of Education, Guilin, China
- Guangxi Key Laboratory of Rare and Endangered Animal Ecology, Guangxi Normal University, Guilin, China
| | - Mingxian He
- College of Food and Biochemical Engineering, Guangxi Science and Technology Normal University, Guangxi, China
| | - Chunying Zhong
- College of Vocational and Technical Education, Guangxi Science and Technology Normal University, Guangxi, China
| | - Yuhui Li
- Key Laboratory of Ecology of Rare and Endangered Species and Environmental Protection, Guangxi Normal University, Ministry of Education, Guilin, China
- Guangxi Key Laboratory of Rare and Endangered Animal Ecology, Guangxi Normal University, Guilin, China
| | - Sanqi Tang
- Key Laboratory of Ecology of Rare and Endangered Species and Environmental Protection, Guangxi Normal University, Ministry of Education, Guilin, China
- Guangxi Key Laboratory of Rare and Endangered Animal Ecology, Guangxi Normal University, Guilin, China
| | - Xindan Kang
- Key Laboratory of Ecology of Rare and Endangered Species and Environmental Protection, Guangxi Normal University, Ministry of Education, Guilin, China
- Guangxi Key Laboratory of Rare and Endangered Animal Ecology, Guangxi Normal University, Guilin, China
| | - Zhengjun Wu
- Key Laboratory of Ecology of Rare and Endangered Species and Environmental Protection, Guangxi Normal University, Ministry of Education, Guilin, China
- Guangxi Key Laboratory of Rare and Endangered Animal Ecology, Guangxi Normal University, Guilin, China
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25
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Jenkins SN, Middleton JA, Huang Z, Mickan BS, Andersen MO, Wheat L, Waite IS, Abbott LK. Combining frass and fatty acid co-products derived from Black soldier fly larvae farming shows potential as a slow release fertiliser. THE SCIENCE OF THE TOTAL ENVIRONMENT 2023; 899:165371. [PMID: 37422234 DOI: 10.1016/j.scitotenv.2023.165371] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 12/15/2022] [Revised: 06/15/2023] [Accepted: 07/05/2023] [Indexed: 07/10/2023]
Abstract
Use of black soldier fly larvae (BSFL) to process large volumes of organic waste is an emerging industry to produce protein. A co-product of this industry, the larval faeces (frass), has potential to be used as an organic fertiliser in a circular economy. However, BSFL frass has a high ammonium (N-NH4+) content which could result in nitrogen (N) loss following its application to land. One solution is to process the frass by combining it with solid fatty acids (FA) that have previously been used to manufacture slow-release inorganic fertilisers. We investigated the slow-releasing effect of N after combining BSFL frass with three FAs - lauric, myristic and stearic acid. Soil was amended with the three forms of FA processed (FA-P) frass, unprocessed frass or a control and incubated for 28 days. The impact of treatments on soil properties and soil bacterial communities were characterised during the incubation. Lower N-NH4+ concentrations occurred in soil treated with FA-P frass compared to unprocessed frass, and N-NH4+ release was slowest for lauric acid processed frass. Initially, all frass treatments caused a large shift in the soil bacterial community towards a dominance of fast-growing r-strategists that were correlated with increased organic carbon levels. FA-P frass appeared to enhance the immobilisation of N-NH4+ (from frass) by diverting it into microbial biomass. Unprocessed and stearic acid processed frass became enriched by slow-growing K-strategist bacteria at the latter stages of the incubation. Consequently, when frass was combined with FAs, FA chain length played an important role in regulating the composition of r-/K- strategists in soil and N and carbon cycling. Modifying frass with FAs could be developed into a slow release fertiliser leading to reduced soil N loss, improved fertiliser use efficiency, increased profitability and lower production costs.
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Affiliation(s)
- Sasha N Jenkins
- School of Agriculture and Environment, The University of Western Australia, Perth, WA 6000, Australia.
| | - Jen A Middleton
- School of Agriculture and Environment, The University of Western Australia, Perth, WA 6000, Australia
| | - ZhouDa Huang
- School of Agriculture and Environment, The University of Western Australia, Perth, WA 6000, Australia
| | - Bede S Mickan
- School of Agriculture and Environment, The University of Western Australia, Perth, WA 6000, Australia
| | - Morten O Andersen
- School of Agriculture and Environment, The University of Western Australia, Perth, WA 6000, Australia; The Department of Green Technology, University of Southern Denmark, 5230 Odense M, Denmark
| | - Luke Wheat
- Future Green Solutions, Moresby, WA 6530, Australia
| | - Ian S Waite
- School of Agriculture and Environment, The University of Western Australia, Perth, WA 6000, Australia
| | - Lynette K Abbott
- School of Agriculture and Environment, The University of Western Australia, Perth, WA 6000, Australia
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26
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Fernández-Guisuraga JM, Marcos E, Sáenz de Miera LE, Ansola G, Pinto R, Calvo L. Short-term responses of ecosystem multifunctionality to fire severity are modulated by fire-induced impacts on plant and soil microbial communities. THE SCIENCE OF THE TOTAL ENVIRONMENT 2023; 898:165477. [PMID: 37451468 DOI: 10.1016/j.scitotenv.2023.165477] [Citation(s) in RCA: 2] [Impact Index Per Article: 2.0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 05/09/2023] [Revised: 07/08/2023] [Accepted: 07/09/2023] [Indexed: 07/18/2023]
Abstract
This study represents a first attempt to shed light into the mechanisms that modulate the response of ecosystem multifunctionality (EMF) to fire severity in post-fire landscapes. We specifically investigated the role played by fire-induced changes on above and belowground communities in the modulation of EMF responses at short-term after fire. For this purpose, we estimated EMF using an averaging approach from three ecosystem functions (carbon regulation, decomposition and soil fertility) and their standardized functional indicators in field plots burned at low and high fire severity 1-year after a wildfire occurred in a Mediterranean ecosystem in the central region of Spain. Plant taxonomic and functional richness, and the bacterial and fungal taxonomic richness, were measured in the plots as community properties with a potential intermediate control over fire severity effects on EMF. The ecological effects of fire severity on above and belowground communities were important in shaping EMF as evidenced by Structural Equation Modeling (SEM). Indeed, the evidenced shrinkage exerted by high fire severity on EMF at short-term after fire was not direct, but modulated by fire-induced effects on the plant functional richness and the microbial taxonomic richness. However, EMF variation was more strongly modulated by indirect effects of fire severity on the biodiversity of soil microbial communities, than by the effects on the plant communities. Particularly, the fungal community exerted the strongest intermediate control (standardized SEM β coefficient = 0.62), which can be linked to the differential response of bacterial (β = -0.36) and fungal (β = -0.84) communities to fire severity evidenced here. Our findings demonstrate that the effects of fire severity on above and belowground communities are important drivers of short-term ecosystem functioning. Efforts tailored to secure the provision of multiple functions should be focused on promoting the recovery on soil microbial communities under high-severity scenarios.
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Affiliation(s)
- José Manuel Fernández-Guisuraga
- Centro de Investigação e de Tecnologias Agroambientais e Biológicas, Universidade de Trás-os-Montes e Alto Douro, 5000-801 Vila Real, Portugal; Departamento de Biodiversidad y Gestión Ambiental, Facultad de Ciencias Biológicas y Ambientales, Universidad de León, 24071 León, Spain.
| | - Elena Marcos
- Departamento de Biodiversidad y Gestión Ambiental, Facultad de Ciencias Biológicas y Ambientales, Universidad de León, 24071 León, Spain
| | - Luis E Sáenz de Miera
- Departamento de Biología Molecular, Facultad de Ciencias Biológicas y Ambientales, Universidad de León, 24071 León, Spain
| | - Gemma Ansola
- Departamento de Biodiversidad y Gestión Ambiental, Facultad de Ciencias Biológicas y Ambientales, Universidad de León, 24071 León, Spain
| | - Rayo Pinto
- Departamento de Biodiversidad y Gestión Ambiental, Facultad de Ciencias Biológicas y Ambientales, Universidad de León, 24071 León, Spain
| | - Leonor Calvo
- Departamento de Biodiversidad y Gestión Ambiental, Facultad de Ciencias Biológicas y Ambientales, Universidad de León, 24071 León, Spain
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Li Y, Wang F, Yang H, Li H, Hu C. Balanced biogeographic and local environmental effects determine the patterns of microbial diversity in biocrusts at multi-scales. Front Microbiol 2023; 14:1284864. [PMID: 38029206 PMCID: PMC10666793 DOI: 10.3389/fmicb.2023.1284864] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 08/29/2023] [Accepted: 10/23/2023] [Indexed: 12/01/2023] Open
Abstract
Introduction Biodiversity maintenance and its underlying mechanisms are central issues of ecology. However, predicting the composition turnovers of microbial communities at multiple spatial scales remains greatly challenging because they are obscured by the inconsistent impacts of climatic and local edaphic conditions on the assembly process. Methods Based on the Illumina MeSeq 16S/18S rRNA sequencing technology, we investigated soil bacterial and eukaryotic communities in biocrusts with different successional levels at a subcontinental scale of Northern China. Results Results showed that irrespective of spatial scale, bacterial α diversity increased but eukaryotic diversity decreased with the primary succession, whereas both β diversities decreased at the subcontinental scale compared with smaller scales, indicating that the biogeographic pattern of soil microorganisms was balanced by successional convergence and distance decay effect. We found that the convergence of bacterial and eukaryotic communities was attributed to the turnovers of generalist and specialist species, respectively. In this process, edaphic and climatic factors showed unique roles in the changes of diversity at local/subcontinental scales. Moreover, the taxonomic diversity tended to be more susceptible to climatic and edaphic conditions, while biotic factors (photosynthesis and pigments) were more important to phylogenetic diversity. Conclusion Taken together, our study provided comprehensive insights into understanding the pattern of microbial diversity at multiple spatial scales of drylands.
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Affiliation(s)
- Yuanlong Li
- Hunan Provincial Key Laboratory of Carbon Neutrality and Intelligent Energy, School of Resource and Environment, Hunan University of Technology and Business, Changsha, China
- Key Laboratory of Algal Biology, Institute of Hydrobiology, Chinese Academy of Sciences, Wuhan, China
| | - Fengdi Wang
- Institute of Hematology, Union Hospital, Tongji Medical College, Huazhong University of Science and Technology, Wuhan, China
| | - Haijian Yang
- Key Laboratory of Algal Biology, Institute of Hydrobiology, Chinese Academy of Sciences, Wuhan, China
| | - Hua Li
- Key Laboratory of Algal Biology, Institute of Hydrobiology, Chinese Academy of Sciences, Wuhan, China
| | - Chunxiang Hu
- Key Laboratory of Algal Biology, Institute of Hydrobiology, Chinese Academy of Sciences, Wuhan, China
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Tang L, Yan L, Jia H, Xiong Y, Ma X, Chu H, Sun Z, Wang L, Shalitanati M, Li K, Hu D, Zhang D. Gut microbial community structure and function of Przewalski's horses varied across reintroduced sites in China. Integr Zool 2023; 18:1027-1040. [PMID: 36606497 DOI: 10.1111/1749-4877.12699] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 01/07/2023]
Abstract
Host-associated microbiota can significantly impact host fitness. Therefore, naturally occurring variations in microbiota may influence the health and persistence of their hosts. This finding is particularly important in reintroduced animals, as they typically experience habitat changes during translocations. However, little is known about how microbiomes are altered in response to conservation translocation. Here, we accessed the gut microbiome of Przewalski's horse (Equus przewalskii) populations in China from three nature reserves (i.e. Xinjiang Kalamaili Nature Reserve, KNR; Dunhuang Xihu National Nature Reserve, DXNNR; and Anxi Extreme-arid Desert Nature Reserve, AENR) using 16s rRNA gene and metagenome sequencing. The results showed that the microbial composition and function differed significantly across locations, while a subset of core taxa was consistently present in most of the samples. The abundance of genes encoding microbe-produced enzymes involved in the metabolism of carbohydrates, especially for glycoside hydrolases, was significantly higher in open-spaced KNR populations than in more confined AENR individuals. This study offers detailed and significant differential characters related to the microbial community and metabolic pathways in various reintroduced sites of Przewalski's horse, which might provide a basis for future microecological and conservation research on endangered reintroduced animals.
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Affiliation(s)
- Liping Tang
- School of Ecology and Nature Conservation, Beijing Forestry University, Beijing, China
| | - Liping Yan
- School of Ecology and Nature Conservation, Beijing Forestry University, Beijing, China
| | - Huiping Jia
- School of Ecology and Nature Conservation, Beijing Forestry University, Beijing, China
| | - Yu Xiong
- School of Ecology and Nature Conservation, Beijing Forestry University, Beijing, China
| | - Xinping Ma
- Xinjiang Mountain Ungulate Nature Reserve Management Center, Urumqi, China
| | - Hongjun Chu
- Institute of Forestry Ecology, Xinjiang Academy of Forestry Sciences, Urumqi, China
| | - Zhicheng Sun
- Administrative Bureau of Dunhuang Xihu National Nature Reserve, Dunhuang, China
| | - Liang Wang
- Administration of Gansu Anxi Extra-arid Desert National Nature Reserve, Guazhou, China
- School of Life Sciences, Lanzhou University, Lanzhou, China
| | - Mubalake Shalitanati
- Xinjiang Uygur Autonomous Region Wild Horse Breeding Research Center, Urumqi, China
| | - Kai Li
- School of Ecology and Nature Conservation, Beijing Forestry University, Beijing, China
| | - Defu Hu
- School of Ecology and Nature Conservation, Beijing Forestry University, Beijing, China
| | - Dong Zhang
- School of Ecology and Nature Conservation, Beijing Forestry University, Beijing, China
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Jahajeeah D, Ranghoo-Sanmukhiya M, Schäfer G. Metabolic Profiling, Antiviral Activity and the Microbiome of Some Mauritian Soft Corals. Mar Drugs 2023; 21:574. [PMID: 37999398 PMCID: PMC10672535 DOI: 10.3390/md21110574] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 09/14/2023] [Revised: 10/29/2023] [Accepted: 10/30/2023] [Indexed: 11/25/2023] Open
Abstract
Soft corals, recognized as sessile marine invertebrates, rely mainly on chemical, rather than physical defense, by secreting intricate secondary metabolites with plausible pharmaceutical implication. Their ecological niche encompasses a diverse community of symbiotic microorganisms which potentially contribute to the biosynthesis of these bioactive metabolites. The emergence of new viruses and heightened viral resistance underscores the urgency to explore novel pharmacological reservoirs. Thus, marine organisms, notably soft corals and their symbionts, have drawn substantial attention. In this study, the chemical composition of four Mauritian soft corals: Sinularia polydactya, Cespitularia simplex, Lobophytum patulum, and Lobophytum crassum was investigated using LC-MS techniques. Concurrently, Illumina 16S metagenomic sequencing was used to identify the associated bacterial communities in the named soft corals. The presence of unique biologically important compounds and vast microbial communities found therein was further followed up to assess their antiviral effects against SARS-CoV-2 and HPV pseudovirus infection. Strikingly, among the studied soft corals, L. patulum displayed an expansive repertoire of unique metabolites alongside a heightened bacterial consort. Moreover, L. patulum extracts exerted some promising antiviral activity against SARS-CoV-2 and HPV pseudovirus infection, and our findings suggest that L. patulum may have the potential to serve as a therapeutic agent in the prevention of infectious diseases, thereby warranting further investigation.
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Affiliation(s)
- Deeya Jahajeeah
- Department of Agricultural & Food Science, Faculty of Agriculture, University of Mauritius, Reduit 80837, Mauritius;
- International Centre for Genetic Engineering and Biotechnology, Cape Town 7925, South Africa;
| | - Mala Ranghoo-Sanmukhiya
- Department of Agricultural & Food Science, Faculty of Agriculture, University of Mauritius, Reduit 80837, Mauritius;
| | - Georgia Schäfer
- International Centre for Genetic Engineering and Biotechnology, Cape Town 7925, South Africa;
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Liu M, Xu X, Sun C, Zheng X, Zhou Q, Song C, Xu P, Gao Q, Liu B. Tea Tree Oil Improves Energy Metabolism, Non-Specific Immunity, and Microbiota Diversity via the Intestine-Hepatopancreas Axis in Macrobrachium rosenbergii under Low Fish Meal Diet Administration. Antioxidants (Basel) 2023; 12:1879. [PMID: 37891958 PMCID: PMC10604904 DOI: 10.3390/antiox12101879] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Grants] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 09/16/2023] [Revised: 10/07/2023] [Accepted: 10/10/2023] [Indexed: 10/29/2023] Open
Abstract
Tea tree oil (TTO) is an essential plant oil with diverse antibacterial and antioxidant properties; however, whether the role played by TTO in low fish meal (LF) diets induced the observed effects in the farmed crustaceans remains unclear. Therefore, this study used Macrobrachium rosenbergii as the model crustacean, and an 8-week feeding experiment with NF (normal fish meal), LF (soybean meal replacing 40% fish meal), and LFT (LF with 200 mg/kg TTO) diets was conducted to evaluate the positive effects of TTO under the LF diet. Compared to the NF diet, the LF diet reduced hemolymph antioxidant capacity and non-specific immunity, and induced hepatopancreas apoptosis and damage. However, in comparison with LF, LTF significantly ameliorated morphological impairment in the hepatopancreas, improved hepatopancreas energy metabolism by upregulating the Bcl-2/Bax and Akt/mTOR pathways, and enhanced antioxidant and non-specific immune capacity by activating the NF-κB/NO pathway. In addition, LFT repaired intestinal barrier injury and the imbalance of intestinal microbiota induced by the LF diet. Moreover, the Pearson correlation revealed the variations of the above indicators, which were related to the abundance changes of Klebsiella, Clostridium sensu stricto 12, Thermobifida, Bifidobacterium, and Alistipes, indicating that these microbes might serve as prospective targets for the intestine-hepatopancreas axis to affect hepatopancreas apoptosis, metabolism, and non-specific immunity. In summary, 200 mg/kg TTO supplementation mediated gut microbiota and positively improved energy metabolism and non-specific immunity, thereby alleviating hepatopancreas dysplasia and damage induced by the LF diet in M. rosenbergii.
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Affiliation(s)
- Mingyang Liu
- Wuxi Fisheries College, Nanjing Agricultural University, Wuxi 214081, China; (M.L.); (X.X.); (C.S.); (Q.Z.)
- Key Laboratory of Freshwater Fisheries and Germplasm Resources Utilization, Ministry of Agriculture and Rural Affairs, Freshwater Fisheries Research Center, Chinese Academy of Fishery Sciences, Wuxi 214081, China; (X.Z.); (C.S.)
| | - Xiaodi Xu
- Wuxi Fisheries College, Nanjing Agricultural University, Wuxi 214081, China; (M.L.); (X.X.); (C.S.); (Q.Z.)
- Key Laboratory of Freshwater Fisheries and Germplasm Resources Utilization, Ministry of Agriculture and Rural Affairs, Freshwater Fisheries Research Center, Chinese Academy of Fishery Sciences, Wuxi 214081, China; (X.Z.); (C.S.)
| | - Cunxin Sun
- Wuxi Fisheries College, Nanjing Agricultural University, Wuxi 214081, China; (M.L.); (X.X.); (C.S.); (Q.Z.)
- Key Laboratory of Freshwater Fisheries and Germplasm Resources Utilization, Ministry of Agriculture and Rural Affairs, Freshwater Fisheries Research Center, Chinese Academy of Fishery Sciences, Wuxi 214081, China; (X.Z.); (C.S.)
| | - Xiaochuan Zheng
- Key Laboratory of Freshwater Fisheries and Germplasm Resources Utilization, Ministry of Agriculture and Rural Affairs, Freshwater Fisheries Research Center, Chinese Academy of Fishery Sciences, Wuxi 214081, China; (X.Z.); (C.S.)
| | - Qunlan Zhou
- Wuxi Fisheries College, Nanjing Agricultural University, Wuxi 214081, China; (M.L.); (X.X.); (C.S.); (Q.Z.)
- Key Laboratory of Freshwater Fisheries and Germplasm Resources Utilization, Ministry of Agriculture and Rural Affairs, Freshwater Fisheries Research Center, Chinese Academy of Fishery Sciences, Wuxi 214081, China; (X.Z.); (C.S.)
| | - Changyou Song
- Key Laboratory of Freshwater Fisheries and Germplasm Resources Utilization, Ministry of Agriculture and Rural Affairs, Freshwater Fisheries Research Center, Chinese Academy of Fishery Sciences, Wuxi 214081, China; (X.Z.); (C.S.)
| | - Pao Xu
- Wuxi Fisheries College, Nanjing Agricultural University, Wuxi 214081, China; (M.L.); (X.X.); (C.S.); (Q.Z.)
- Key Laboratory of Freshwater Fisheries and Germplasm Resources Utilization, Ministry of Agriculture and Rural Affairs, Freshwater Fisheries Research Center, Chinese Academy of Fishery Sciences, Wuxi 214081, China; (X.Z.); (C.S.)
| | - Qiang Gao
- Key Laboratory of Healthy Freshwater Aquaculture, Ministry of Agriculture and Rural Affairs, Key Laboratory of Fish Health and Nutrition of Zhejiang Province, Zhejiang Institute of Freshwater Fisheries, Huzhou 313001, China
| | - Bo Liu
- Wuxi Fisheries College, Nanjing Agricultural University, Wuxi 214081, China; (M.L.); (X.X.); (C.S.); (Q.Z.)
- Key Laboratory of Freshwater Fisheries and Germplasm Resources Utilization, Ministry of Agriculture and Rural Affairs, Freshwater Fisheries Research Center, Chinese Academy of Fishery Sciences, Wuxi 214081, China; (X.Z.); (C.S.)
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Srivastava K, Mickan BS, O'Connor J, Gurung SK, Moheimani NR, Jenkins SN. Development of a controlled release fertilizer by incorporating lauric acid into microalgal biomass: Dynamics on soil biological processes for efficient utilisation of waste resources. JOURNAL OF ENVIRONMENTAL MANAGEMENT 2023; 344:118392. [PMID: 37384987 DOI: 10.1016/j.jenvman.2023.118392] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 01/16/2023] [Revised: 05/10/2023] [Accepted: 06/11/2023] [Indexed: 07/01/2023]
Abstract
Utilisation of microalgae to extract nutrients from the effluent of anaerobic digestion of food waste is an emerging technology. A by-product of this process is the microalgal biomass which has potential to be used as an organic bio-fertilizer. However, microalgal biomass are rapidly mineralized when applied to soil which may result in N loss. One solution is to emulsify microalgal biomass with lauric acid (LA) to delay the release of mineral N. This study aimed to investigate whether combining LA with microalgae to develop a new fertilizer product with a controlled release function of mineral N when applied to soil, and any potential impacts the bacterial community structure and activity. The treatments were applied to soil emulsified with LA and were combined with either microalgae or urea at rates of 0%, 12.5%, 25% and 50% LA, untreated microalgae or urea and unamended control were incubated at 25 °C and 40% water holding capacity for 28 days. Quantification of soil chemistry (NH4+-N, NO3--N, pH and EC), microbial biomass carbon, CO2 production and bacterial diversity were characterised at 0, 1, 3, 7, 14 and 28 days. The NH4+-N and NO3--N concentration decreased with increasing rate of LA combined microalgae indicating that both N mineralization and nitrification were impacted. As a function of time, NH4+-N concentration increased up to 7 days for the microalgae at lower rates of LA, and then slowly decreased for 14 and 28 days, with an inverse relationship with soil NO3-N. Aligning with soil chemistry, an observed decrease in the predicted nitrification genes amoA·amoB and relative abundance of ammonia oxidizing bacteria (Nitrosomonadaceae) and nitrifying bacteria (Nitrospiraceae) with an increasing rate of LA with microalgae provides further support for possible inhibition of nitrification. The MBC and CO2 production was higher in the soil amended with increasing rates of LA combined microalgae and there was an increase in the relative abundance of fast-growing heterotrophs. Treating microalgae by emulsification with LA has the potential to control the release of N by increasing immobilization over nitrification and therefore it might be possible to engineer microalgae to match plant nutrient growth requirements whilst recovering waste from waste resources.
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Affiliation(s)
- Kautilya Srivastava
- UWA School of Agriculture and Environment and UWA Institute of Agriculture, The University of Western Australia, Perth, 6000, WA, Australia
| | - Bede S Mickan
- UWA School of Agriculture and Environment and UWA Institute of Agriculture, The University of Western Australia, Perth, 6000, WA, Australia; Richgro Garden Products, 203 Acourt Rd, Jandakot, WA, 6164, Australia.
| | - James O'Connor
- UWA School of Agriculture and Environment and UWA Institute of Agriculture, The University of Western Australia, Perth, 6000, WA, Australia
| | - Sun Kumar Gurung
- UWA School of Agriculture and Environment and UWA Institute of Agriculture, The University of Western Australia, Perth, 6000, WA, Australia
| | - Navid R Moheimani
- Algae R&D Centre, Discipline of Environmental and Conservation Sciences, Murdoch University, WA, 6150, Australia; Centre for Water, Energy and Waste, Harry Butler Institute, Murdoch University, Murdoch, WA, 6150, Australia
| | - Sasha N Jenkins
- UWA School of Agriculture and Environment and UWA Institute of Agriculture, The University of Western Australia, Perth, 6000, WA, Australia
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Wang Y, Long Z, Zhang Y, Li X, Zhang X, Su H. Host genetic background rather than diet-induced gut microbiota shifts of sympatric black-necked crane, common crane and bar-headed goose. Front Microbiol 2023; 14:1270716. [PMID: 37933251 PMCID: PMC10625752 DOI: 10.3389/fmicb.2023.1270716] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Grants] [Track Full Text] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 08/01/2023] [Accepted: 09/19/2023] [Indexed: 11/08/2023] Open
Abstract
Introduction Gut microbiota of wild birds are affected by many factors, and host genetic background and diet are considered to be two important factors affecting their structure and function. Methods In order to clarify how these two factors influence the gut microbiota, this study selected the sympatric and closely related and similar-sized Black-necked Crane (Grus nigricollis) and Common Crane (Grus grus), as well as the distantly related and significantly different-sized Bar-headed Goose (Anser indicus). The fecal samples identified using sanger sequencing as the above three bird species were subjected to high-throughput sequencing of rbcL gene and 16S rRNA gene to identify the feeding types phytophagous food and gut microbiota. Results The results showed significant differences in food diversity between black-necked cranes and Common Cranes, but no significant differences in gut microbiota, Potatoes accounted for approximately 50% of their diets. Bar-headed Geese mainly feed on medicinal plants such as Angelica sinensis, Alternanthera philoxeroides, and Ranunculus repens. Black-necked cranes and Common Cranes, which have a high-starch diet, have a similar degree of enrichment in metabolism and synthesis functions, which is significantly different from Bar-headed Geese with a high-fiber diet. The differences in metabolic pathways among the three bird species are driven by food. The feeding of medicinal plants promotes the health of Bar-headed Geese, indicating that food influences the functional pathways of gut microbiota. Spearman analysis showed that there were few gut microbiota related to food, but almost all metabolic pathways were related to food. Conclusion The host genetic background is the dominant factor determining the composition of the microbiota. Monitoring the changes in gut microbiota and feeding types of wild birds through bird feces is of great reference value for the conservation of other endangered species.
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Affiliation(s)
- Yeying Wang
- Key Laboratory of State Forestry Administration on Biodiversity Conservation in Karst Mountainous Area of Southwestern of China, School of Life Sciences, Guizhou Normal University, Guiyang, Guizhou, China
- Research Center for Biodiversity and Natural Conservation, Guizhou University, Guiyang, Guizhou, China
- Guizhou Caohai Observation and Research Station for Wet Ecosystem, National Forestry and Grassland Administration, Bijie, Guizhou, China
| | - Zhengmin Long
- Key Laboratory of State Forestry Administration on Biodiversity Conservation in Karst Mountainous Area of Southwestern of China, School of Life Sciences, Guizhou Normal University, Guiyang, Guizhou, China
| | - Yu Zhang
- Key Laboratory of State Forestry Administration on Biodiversity Conservation in Karst Mountainous Area of Southwestern of China, School of Life Sciences, Guizhou Normal University, Guiyang, Guizhou, China
| | - Xianyu Li
- Key Laboratory of State Forestry Administration on Biodiversity Conservation in Karst Mountainous Area of Southwestern of China, School of Life Sciences, Guizhou Normal University, Guiyang, Guizhou, China
| | - Xu Zhang
- Research Center for Biodiversity and Natural Conservation, Guizhou University, Guiyang, Guizhou, China
| | - Haijun Su
- Research Center for Biodiversity and Natural Conservation, Guizhou University, Guiyang, Guizhou, China
- Guizhou Caohai Observation and Research Station for Wet Ecosystem, National Forestry and Grassland Administration, Bijie, Guizhou, China
- College of Forestry, Guizhou University, Guiyang, Guizhou, China
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Nie L, Wan W. Nutrient-cycling functional gene diversity mirrors phosphorus transformation during chicken manure composting. BIORESOURCE TECHNOLOGY 2023; 386:129504. [PMID: 37468004 DOI: 10.1016/j.biortech.2023.129504] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 06/12/2023] [Revised: 07/12/2023] [Accepted: 07/16/2023] [Indexed: 07/21/2023]
Abstract
Elucidating ecological mechanism underlying phosphorus transformation mediated by phosphate-solubilizing bacteria (PSB) during manure composting is an important but rarely investigated subject. The research objective is to disentangle ecological functions of the inoculation of PSB Pseudomonas sp. WWJ-22 during chicken manure composting based on gene quantification and amplicon sequencing. There are large dynamic changes in phosphorus fractions, gene abundances, and bacterial community structure. The PSB addition notably increased available phosphorus from 0.29-0.89 g kg-1 to 0.49-1.39 g kg-1 and significantly affected phosphorus fractionation. The PSB inoculation significantly affected composition of nutrient-cycling functional genes (NCFGs), and notably influenced bacterial community composition and function. Compost bacteria showed significant phylogenetic signals in response to phosphorus fractions, and stochastic processes dominated bacterial community assembly. Results emphasized that PSB addition increased functional redundancy, phylogenetic conservatism, and stochasticity-dominated assembly of bacterial community. Overall, findings highlight NCFG diversity can be a bio-indicator to mirror phosphorus transformation.
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Affiliation(s)
- Liang Nie
- National Key Laboratory of Agricultural Microbiology, Huazhong Agricultural University, Wuhan 430070, PR China
| | - Wenjie Wan
- Key Laboratory of Aquatic Botany and Watershed Ecology Wuhan Botanical Garden, Chinese Academy of Sciences, Wuhan 430070, PR China; Danjiangkou Wetland Ecosystem Field Scientific Observation and Research Station, Chinese Academy of Sciences & Hubei Province, Wuhan 430070, PR China.
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Khan S, Han C, Iqbal A, Guan C, Zhao C. Impact of Elevational Gradients and Chemical Parameters on Changes in Soil Bacterial Diversity Under Semiarid Mountain Region. J Microbiol 2023; 61:903-915. [PMID: 37995085 DOI: 10.1007/s12275-023-00085-x] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 02/16/2023] [Revised: 09/18/2023] [Accepted: 09/24/2023] [Indexed: 11/24/2023]
Abstract
Elevation gradients, often regarded as "natural experiments or laboratories", can be used to study changes in the distribution of microbial diversity related to changes in environmental conditions that typically occur over small geographical scales. We obtained bacterial sequences using MiSeq sequencing and clustered them into operational taxonomic units (OTUs). The total number of reads obtained by the bacterial 16S rRNA sequencing analysis was 1,090,555, with an average of approximately 45,439 reads per sample collected from various elevations. The current study observed inconsistent bacterial diversity patterns in samples from the lowest to highest elevations. 983 OTUs were found common among all the elevations. The most unique OTUs were found in the soil sample from elevation_2, followed by elevation_1. Soil sample collected at elevation_6 had the least unique OTUs. Actinobacteria, Protobacteria, Chloroflexi were found most abundant bacterial phyla in current study. Ammonium nitrogen (NH4+-N), and total phosphate (TP) are the main factors influencing bacterial diversity at elevations_1. pH was the main factor influencing the bacterial diversity at elevations_2, elevation_3 and elevation_4. Our results provide new visions on forming and maintaining soil microbial diversity along an elevational gradient and have implications for microbial responses to environmental change in semiarid mountain ecosystems.
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Affiliation(s)
- Salman Khan
- State Key Laboratory of Grassland Agro-Ecosystems, School of Life Sciences, Lanzhou University, Lanzhou, 730000, Gansu, People's Republic of China
- Gansu Provincial Field Scientific Observation and Research Station of Mountain Ecosystems, Lanzhou, 730000, Gansu, People's Republic of China
| | - Chun Han
- State Key Laboratory of Grassland Agro-Ecosystems, School of Life Sciences, Lanzhou University, Lanzhou, 730000, Gansu, People's Republic of China
- Gansu Provincial Field Scientific Observation and Research Station of Mountain Ecosystems, Lanzhou, 730000, Gansu, People's Republic of China
| | - Awais Iqbal
- State Key Laboratory of Grassland Agro-Ecosystems, School of Life Sciences, Lanzhou University, Lanzhou, 730000, Gansu, People's Republic of China
| | - Chao Guan
- State Key Laboratory of Grassland Agro-Ecosystems, School of Life Sciences, Lanzhou University, Lanzhou, 730000, Gansu, People's Republic of China
- Gansu Provincial Field Scientific Observation and Research Station of Mountain Ecosystems, Lanzhou, 730000, Gansu, People's Republic of China
| | - Changming Zhao
- State Key Laboratory of Grassland Agro-Ecosystems, School of Life Sciences, Lanzhou University, Lanzhou, 730000, Gansu, People's Republic of China.
- Gansu Provincial Field Scientific Observation and Research Station of Mountain Ecosystems, Lanzhou, 730000, Gansu, People's Republic of China.
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Wang W, Sheng Y. Enhanced nitrogen removal in low-carbon saline wastewater by adding functional bacteria into Sesuvium portulacastrum constructed wetlands. ECOTOXICOLOGY AND ENVIRONMENTAL SAFETY 2023; 263:115234. [PMID: 37418946 DOI: 10.1016/j.ecoenv.2023.115234] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 03/22/2023] [Revised: 06/07/2023] [Accepted: 07/04/2023] [Indexed: 07/09/2023]
Abstract
Functional bacterial communities (FBC) have members of different taxonomic biochemical groups, such as N2-fixation, nitrification and denitrification. This study explored the mechanism of the FBC from an upflow three-dimensional biofilm electrode reactor on enhancing the nitrogen removal efficiencies in a Sesuvium potulacastum (S. potulacastum) constructed wetland. There were high abundances of denitrifying bacteria detected in the FBC, and they had potential metabolic processes for nitrogen reduction. In the constructed wetland, cellular nitrogen compounds of S. potulacastum were enriched by overexpressed differentially expressed genes (DEGs), and the napA, narG, nirK, nirS, qnorB, and NosZ genes related to the denitrification process had more copies under FBC treatment. Nitrogen metabolism in root bacterial communities (RBCs) was activated in the FBC group compared with the control group without FBC. Finally, these FBCs improved the removal efficiencies of DTN (dissolved total nitrogen), NO3¯-N, NO2¯-N, and NH4+-N by 84.37 %, 87.42 %, 67.51 %, and 92.57 %, respectively, and their final concentrations met the emission standards of China. These findings indicate that adding FBC into S. potulacastum-constructed wetlands would result in high nitrogen removal efficiencies from wastewater and have large potential applications in further water treatment technology.
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Affiliation(s)
- Wenjing Wang
- Research Center for Coastal Environment Engineering Technology of Shandong Province, Yantai Institute of Coastal Zone Research, Chinese Academy of Sciences, Yantai, Shandong, China
| | - Yanqing Sheng
- Research Center for Coastal Environment Engineering Technology of Shandong Province, Yantai Institute of Coastal Zone Research, Chinese Academy of Sciences, Yantai, Shandong, China.
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Yang Y, Zhang W, Liu W, He D, Wan W. Irreversible community difference between bacterioplankton generalists and specialists in response to lake dredging. WATER RESEARCH 2023; 243:120344. [PMID: 37482008 DOI: 10.1016/j.watres.2023.120344] [Citation(s) in RCA: 2] [Impact Index Per Article: 2.0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 05/10/2023] [Revised: 07/10/2023] [Accepted: 07/11/2023] [Indexed: 07/25/2023]
Abstract
Understanding response of bacterioplankton community responsible for maintaining ecological functions of aquatic ecosystems to environmental disturbance is an important subject. However, it remains largely unclear how bacterioplankton generalists and specialists respond to dredging disturbance. Illumina MiSeq sequencing and statistical analyses were used to evaluate landscape patterns, evolutionary potentials, environmental adaptability, and community assembly processes of generalists and specialists in response to dredging in eutrophic Lake Nanhu. The Proteobacteria and Actinobacteria dominated bacterioplankton communities of generalists and specialists, and abundances of Proteobacteria decreased and Actinobacteria increased after dredging. The generalists displayed higher phylogenetic distance, richness difference, speciation rate, extinction rate, and diversification rate as well as stronger environmental adaptation than that of specialists. In contrast, the specialists rather than generalists showed higher community diversity, taxonomic distance, and species replacement as well as closer phylogenetic clustering. Stochastic processes dominated community assemblies of generalists and specialists, and stochasticity exhibited a larger effect on community assembly of generalists rather than specialists. Our results emphasized that lake dredging could change landscape patterns of bacterioplankton generalists and specialists, whereas the short-term dredging conducted within one year was unable to reverse community difference between generalists and specialists. Our findings extend our understanding of how bacterioplankton generalists and specialists responding to dredging disturbance, and these findings might in turn call on long-term dredging for better ecological restoration of eutrophic lakes.
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Affiliation(s)
- Yuyi Yang
- Key Laboratory of Aquatic Botany and Watershed Ecology Wuhan Botanical Garden, Chinese Academy of Sciences, Wuhan 430070, China; Danjiangkou Wetland Ecosystem Field Scientific Observation and Research Station, Chinese Academy of Sciences & Hubei Province, Wuhan 430070, China
| | - Weihong Zhang
- Key Laboratory of Aquatic Botany and Watershed Ecology Wuhan Botanical Garden, Chinese Academy of Sciences, Wuhan 430070, China; Danjiangkou Wetland Ecosystem Field Scientific Observation and Research Station, Chinese Academy of Sciences & Hubei Province, Wuhan 430070, China
| | - Wenzhi Liu
- Key Laboratory of Aquatic Botany and Watershed Ecology Wuhan Botanical Garden, Chinese Academy of Sciences, Wuhan 430070, China; Danjiangkou Wetland Ecosystem Field Scientific Observation and Research Station, Chinese Academy of Sciences & Hubei Province, Wuhan 430070, China
| | - Donglan He
- College of Life Science, South-Central Minzu University, Wuhan 430070, China
| | - Wenjie Wan
- Key Laboratory of Aquatic Botany and Watershed Ecology Wuhan Botanical Garden, Chinese Academy of Sciences, Wuhan 430070, China; Danjiangkou Wetland Ecosystem Field Scientific Observation and Research Station, Chinese Academy of Sciences & Hubei Province, Wuhan 430070, China.
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Jiang M, Tian Y, Guo R, Li S, Guo J, Zhang T. Effects of warming and nitrogen addition on soil fungal and bacterial community structures in a temperate meadow. Front Microbiol 2023; 14:1231442. [PMID: 37502394 PMCID: PMC10369075 DOI: 10.3389/fmicb.2023.1231442] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Grants] [Track Full Text] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 05/30/2023] [Accepted: 06/26/2023] [Indexed: 07/29/2023] Open
Abstract
Soil microbial communities have been influenced by global changes, which might negatively regulate aboveground communities and affect nutrient resource cycling. However, the influence of warming and nitrogen (N) addition and their combined effects on soil microbial community composition and structure are still not well understood. To explore the effect of warming and N addition on the composition and structure of soil microbial communities, a five-year field experiment was conducted in a temperate meadow. We examined the responses of soil fungal and bacterial community compositions and structures to warming and N addition using ITS gene and 16S rRNA gene MiSeq sequencing methods, respectively. Warming and N addition not only increased the diversity of soil fungal species but also affected the soil fungal community structure. Warming and N addition caused significant declines in soil bacterial richness but had few impacts on bacterial community structure. The changes in plant species richness affected the soil fungal community structure, while the changes in plant cover also affected the bacterial community structure. The response of the soil bacterial community structure to warming and N addition was lower than that of the fungal community structure. Our results highlight that the influence of global changes on soil fungal and bacterial community structures might be different, and which also might be determined, to some extent, by plant community, soil physicochemical properties, and climate characteristics at the regional scale.
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Affiliation(s)
- Ming Jiang
- College of Life Science and Technology, Mudanjiang Normal University, Mudanjiang, China
- Key Laboratory of Vegetation Ecology, Ministry of Education, Jilin Songnen Grassland Ecosystem National Observation and Research Station, Changchun, China
| | - Yibo Tian
- Key Laboratory of Vegetation Ecology, Ministry of Education, Jilin Songnen Grassland Ecosystem National Observation and Research Station, Changchun, China
| | - Rui Guo
- Institute of Environment and Sustainable Development in Agriculture, Chinese Academy of Agricultural Sciences, Key Laboratory of Dryland Agriculture, Ministry of Agriculture, Beijing, China
| | - Shuying Li
- Forestry and Grassland Bureau of Aohan Banner, Chifeng, China
| | - Jixun Guo
- Key Laboratory of Vegetation Ecology, Ministry of Education, Jilin Songnen Grassland Ecosystem National Observation and Research Station, Changchun, China
| | - Tao Zhang
- Key Laboratory of Vegetation Ecology, Ministry of Education, Jilin Songnen Grassland Ecosystem National Observation and Research Station, Changchun, China
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Feng F, Jiang Y, Jia Y, Lian X, Shang C, Zhao M. Exogenous-organic-matter-driven mobilization of groundwater arsenic. ENVIRONMENTAL SCIENCE AND ECOTECHNOLOGY 2023; 15:100243. [PMID: 36896144 PMCID: PMC9989647 DOI: 10.1016/j.ese.2023.100243] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Subscribe] [Scholar Register] [Received: 09/20/2022] [Revised: 01/21/2023] [Accepted: 01/24/2023] [Indexed: 06/18/2023]
Abstract
The potential release capacity of arsenic (As) from sediment was evaluated under a high level of exogenous organic matter (EOM) with both bioreactive and chemically reactive organic matters (OMs). The OMs were characterized by FI, HIX, BIX, and SUVA254 fluorescence indices showing the biological activities were kept at a high level during the experimental period. At the genus level, Fe/Mn/As-reducing bacteria (Geobacter, Pseudomonas, Bacillus, and Clostridium) and bacteria (Paenibacillus, Acidovorax, Delftia, and Sphingomonas) that can participate in metabolic transformation using EOM were identified. The reducing condition occurs which promoted As, Fe, and Mn releases at very high concentrations of OM. However, As release increased during the first 15-20 days, followed by a decline contributed by secondary iron precipitation. The degree of As release may be limited by the reactivity of Fe (hydro)oxides. The EOM infiltration enhances As and Mn releases in aqueous conditions causing the risk of groundwater pollution, which could occur in specific sites such as landfills, petrochemical sites, and managed aquifer recharge projects.
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Affiliation(s)
- Fan Feng
- State Key Laboratory of Environmental Criteria and Risk Assessment, Chinese Research Academy of Environmental Sciences, Beijing, 100012, China
- State Environmental Protection Key Laboratory of Simulation and Control of Groundwater Pollution, Chinese Research Academy of Environmental Sciences, Beijing, 100012, China
- College of Water Sciences, Beijing Normal University, Beijing, 100875, China
| | - Yonghai Jiang
- State Key Laboratory of Environmental Criteria and Risk Assessment, Chinese Research Academy of Environmental Sciences, Beijing, 100012, China
- State Environmental Protection Key Laboratory of Simulation and Control of Groundwater Pollution, Chinese Research Academy of Environmental Sciences, Beijing, 100012, China
| | - Yongfeng Jia
- State Key Laboratory of Environmental Criteria and Risk Assessment, Chinese Research Academy of Environmental Sciences, Beijing, 100012, China
- State Environmental Protection Key Laboratory of Simulation and Control of Groundwater Pollution, Chinese Research Academy of Environmental Sciences, Beijing, 100012, China
| | - Xinying Lian
- State Key Laboratory of Environmental Criteria and Risk Assessment, Chinese Research Academy of Environmental Sciences, Beijing, 100012, China
- State Environmental Protection Key Laboratory of Simulation and Control of Groundwater Pollution, Chinese Research Academy of Environmental Sciences, Beijing, 100012, China
| | - Changjian Shang
- State Key Laboratory of Environmental Criteria and Risk Assessment, Chinese Research Academy of Environmental Sciences, Beijing, 100012, China
- State Environmental Protection Key Laboratory of Simulation and Control of Groundwater Pollution, Chinese Research Academy of Environmental Sciences, Beijing, 100012, China
| | - Meng Zhao
- State Key Laboratory of Environmental Criteria and Risk Assessment, Chinese Research Academy of Environmental Sciences, Beijing, 100012, China
- State Environmental Protection Key Laboratory of Simulation and Control of Groundwater Pollution, Chinese Research Academy of Environmental Sciences, Beijing, 100012, China
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Gao D, Kong C, Liao H, Junaid M, Pan T, Chen X, Wang Q, Wang X, Wang J. Interactive effects of polystyrene nanoplastics and 6:2 chlorinated polyfluorinated ether sulfonates on the histomorphology, oxidative stress and gut microbiota in Hainan Medaka (Oryzias curvinotus). THE SCIENCE OF THE TOTAL ENVIRONMENT 2023; 880:163307. [PMID: 37030384 DOI: 10.1016/j.scitotenv.2023.163307] [Citation(s) in RCA: 9] [Impact Index Per Article: 9.0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Subscribe] [Scholar Register] [Received: 02/22/2023] [Revised: 03/30/2023] [Accepted: 04/01/2023] [Indexed: 05/27/2023]
Abstract
Nanoplastics adsorb surrounding organic contaminants in the environment, which alters the physicochemical properties of contaminants and affects associated ecotoxicological effects on aquatic life. The current work aims to explore the individual and combined toxicological implications of polystyrene nanoplastics (80 nm) and 6:2 chlorinated polyfluorinated ether sulfonate (Cl-PFAES, trade name: F-53B) in an emerging freshwater fish model Hainan Medaka (Oryzias curvinotus). Therefore, O. curvinotus were exposed to 200 μg/L of PS-NPs or 500 μg/L of F-53B in the single or mixture exposure for 7 days to investigate the effects on fluorescence accumulation, tissue damage, antioxidant capacity and intestinal flora. The PS-NPs fluorescence intensity was significantly higher in the single exposure treatment than it in combined exposure treatment (p < 0.01). Histopathological results showed that exposure to PS-NPs or F-53B inflicted varying degree of damages to the gill, liver, and intestine, and these damage were also present in the corresponding tissues of the combined treatment group, illustrating a stronger extent of destruction of these tissues by the combined treatment. Compared to the control group, combined exposure group elevated the malondialdehyde (MDA) content, superoxide dismutase (SOD) and catalase (CAT) activities except in the gill. In addition, the adverse contribution of PS-NPs and F-53B on the enteric flora in the single and combined exposure groups was mainly characterised in the form of reductions in the number of probiotic bacteria (Firmicutes) and this reduction was aggravated by the combined exposure group. Collectively, our results indicated that the toxicological effects of PS-NPs and F-53B on pathology, antioxidant capacity and microbiomics of medaka may be modulated by the interaction of two contaminants with mutually interactive effects. And our work offers fresh information on the combined toxicity of PS-NPs and F-53B to aquatic creatures along with a molecular foundation for the environmental toxicological mechanism.
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Affiliation(s)
- Dandan Gao
- College of Marine Sciences, South China Agricultural University, Guangzhou 510642, China
| | - Chunmiao Kong
- College of Marine Sciences, South China Agricultural University, Guangzhou 510642, China
| | - Hongping Liao
- College of Marine Sciences, South China Agricultural University, Guangzhou 510642, China
| | - Muhammad Junaid
- College of Marine Sciences, South China Agricultural University, Guangzhou 510642, China
| | - Ting Pan
- College of Marine Sciences, South China Agricultural University, Guangzhou 510642, China
| | - Xikun Chen
- College of Marine Sciences, South China Agricultural University, Guangzhou 510642, China
| | - Qiuping Wang
- College of Marine Sciences, South China Agricultural University, Guangzhou 510642, China
| | - Xu Wang
- Institute of Quality Standard and Monitoring Technology for Agro-Products of Guangdong Academy of Agricultural Sciences, Guangzhou 510640, China.
| | - Jun Wang
- College of Marine Sciences, South China Agricultural University, Guangzhou 510642, China; Institute of Eco-Environmental Research, Guangxi Academy of Sciences, Nanning 530007, China; Southern Marine Science and Engineering Guangdong Laboratory (Zhuhai), Guangzhou 510006, China.
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Kong J, Feng J, Sun L, Zhang S. Evaluating the Reproducibility of Amplicon Sequencing Data Derived from Deep-Sea Cold Seep Sediment-Associated Microbiota. Microbiol Spectr 2023; 11:e0404822. [PMID: 37074190 PMCID: PMC10269476 DOI: 10.1128/spectrum.04048-22] [Citation(s) in RCA: 1] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 10/05/2022] [Accepted: 03/24/2023] [Indexed: 04/20/2023] Open
Abstract
Benefiting from the rapid developments and wide applications of high-throughput sequencing, great advancements have been made in investigating microbiota, which are highly diverse and play key roles in both element cycling and the energy flow of ecosystems. There have been inherent limitations of amplicon sequencing that could introduce uncertainty and raise concerns about the accuracy and reproducibility of this technology. However, studies focusing on the reproducibility of amplicon sequencing are limited, especially in characterizing microbial communities in deep-sea sediments. To evaluate reproducibility, 118 deep-sea sediment samples were used for 16S rRNA gene sequencing in technical replicates (repeated measurements of the same sample) that demonstrate the variability of amplicon sequencing. The average occurrence-based overlaps were 35.98% and 27.02% between two and among three technical replicates, respectively, whereas their abundance-based overlaps reached 84.88% and 83.16%, respectively. Although variations of alpha and beta diversity indices were found between/among technical replicates, alpha diversity indices were similar across samples, and the average beta diversity indices were much smaller for technical replicates than among samples. Moreover, clustering methods (i.e., operational taxonomic units [OTUs] and amplicon sequence variants [ASVs]) were shown to have little impact on the alpha and beta diversity patterns of microbial communities. Taken together, although there are variations between/among technical replicates, amplicon sequencing is still a powerful tool with which to reveal diversity patterns of microbiota in deep-sea sediments. IMPORTANCE The reproducibility of amplicon sequencing is vital for whether the diversities of microbial communities could be accurately estimated. Thus, reproducibility influences the drawing of sound ecological conclusions. Nevertheless, few studies have focused on the reproducibility of microbial communities that are characterized by amplicon sequencing, and studies focusing on microbiota in deep-sea sediments have been especially lacking. In this study, we evaluated the reproducibility of amplicon sequencing targeting microbiota in deep-sea sediments of cold seep. Our results revealed that there were variations between/among technical replicates and that amplicon sequencing was still a powerful tool with which to characterize the diversities of microbial communities in deep-sea sediments. This study provides valuable guidelines for the reproducibility evaluation of future work in experimental design and interpretation.
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Affiliation(s)
- Jie Kong
- Southern Marine Science and Engineering Guangdong Laboratory (Guangzhou), Guangdong, China
| | - Jingchun Feng
- Guangdong University of Technology, Guangzhou, China
| | - Liwei Sun
- Guangdong University of Technology, Guangzhou, China
| | - Si Zhang
- Southern Marine Science and Engineering Guangdong Laboratory (Guangzhou), Guangdong, China
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Ojeda ML, Nogales F, Carrasco López JA, Gallego-López MDC, Carreras O, Alcudia A, Pajuelo E. Microbiota-Liver-Bile Salts Axis, a Novel Mechanism Involved in the Contrasting Effects of Sodium Selenite and Selenium-Nanoparticle Supplementation on Adipose Tissue Development in Adolescent Rats. Antioxidants (Basel) 2023; 12:antiox12051123. [PMID: 37237989 DOI: 10.3390/antiox12051123] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Grants] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 04/23/2023] [Revised: 05/15/2023] [Accepted: 05/17/2023] [Indexed: 05/28/2023] Open
Abstract
Adolescence is a period during which body composition changes deeply. Selenium (Se) is an excellent antioxidant trace element related to cell growth and endocrine function. In adolescent rats, low Se supplementation affects adipocyte development differently depending on its form of administration (selenite or Se nanoparticles (SeNPs). Despite this effect being related to oxidative, insulin-signaling and autophagy processes, the whole mechanism is not elucidated. The microbiota-liver-bile salts secretion axis is related to lipid homeostasis and adipose tissue development. Therefore, the colonic microbiota and total bile salts homeostasis were explored in four experimental groups of male adolescent rats: control, low-sodium selenite supplementation, low SeNP supplementation and moderate SeNPs supplementation. SeNPs were obtained by reducing Se tetrachloride in the presence of ascorbic acid. Supplementation was received orally through water intake; low-Se rats received twice more Se than control animals and moderate-Se rats tenfold more. Supplementation with low doses of Se clearly affected anaerobic colonic microbiota profile and bile salts homeostasis. However, these effects were different depending on the Se administration form. Selenite supplementation primarily affected liver by decreasing farnesoid X receptor hepatic function, leading to the accumulation of hepatic bile salts together to increase in the ratio Firmicutes/Bacteroidetes and glucagon-like peptide-1 (GLP-1) secretion. In contrast, low SeNP levels mainly affected microbiota, moving them towards a more prominent Gram-negative profile in which the relative abundance of Akkermansia and Muribaculaceae was clearly enhanced and the Firmicutes/Bacteroidetes ratio decreased. This bacterial profile is directly related to lower adipose tissue mass. Moreover, low SeNP administration did not modify bile salts pool in serum circulation. In addition, specific gut microbiota was regulated upon administration of low levels of Se in the forms of selenite or SeNPs, which are properly discussed. On its side, moderate-SeNPs administration led to great dysbiosis and enhanced the abundance of pathogenic bacteria, being considered toxic. These results strongly correlate with the deep change in adipose mass previously found in these animals, indicating that the microbiota-liver-bile salts axis is also mechanistically involved in these changes.
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Affiliation(s)
- María Luisa Ojeda
- Departamento de Fisiología, Facultad de Farmacia, Universidad de Sevilla, 41012 Sevilla, Spain
| | - Fátima Nogales
- Departamento de Fisiología, Facultad de Farmacia, Universidad de Sevilla, 41012 Sevilla, Spain
| | - José A Carrasco López
- Departamento de Microbiología y Parasitología, Facultad de Farmacia, Universidad de Sevilla, 41012 Sevilla, Spain
| | | | - Olimpia Carreras
- Departamento de Fisiología, Facultad de Farmacia, Universidad de Sevilla, 41012 Sevilla, Spain
| | - Ana Alcudia
- Departamento de Química Orgánica y Farmacéutica, Facultad de Farmacia, Universidad de Sevilla, 41012 Sevilla, Spain
| | - Eloísa Pajuelo
- Departamento de Microbiología y Parasitología, Facultad de Farmacia, Universidad de Sevilla, 41012 Sevilla, Spain
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Wang S, Zhang P, Zhang D, Chang J. Evaluation and comparison of the benthic and microbial indices of biotic integrity for urban lakes based on environmental DNA and its management implications. JOURNAL OF ENVIRONMENTAL MANAGEMENT 2023; 341:118026. [PMID: 37192593 DOI: 10.1016/j.jenvman.2023.118026] [Citation(s) in RCA: 3] [Impact Index Per Article: 3.0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Subscribe] [Scholar Register] [Received: 11/05/2022] [Revised: 04/17/2023] [Accepted: 04/24/2023] [Indexed: 05/18/2023]
Abstract
With the intensification of human disturbance in urban lakes, the loss of eukaryotic biodiversity (macroinvertebrates, etc.) reduces the accuracy of the index of biotic integrity (IBI) assessment. Therefore, how to accurately evaluate the ecological status of urban lakes based on IBI has become an important issue. In this study, 17 sampling sites from four lakes in Wuhan City, China were selected to analyze the composition and diversity characteristics of benthic and microbial communities and their relationship with environmental factors based on eDNA high-throughput sequencing, and compare the application effects of the benthic index of biotic integrity (B-IBI) and the microbial index of biotic integrity (M-IBI). Canonical correspondence analysis showed that the key environmental factors affecting benthic family/genus composition were temperature, conductivity, total phosphorus (TP), and total nitrogen (TN). Redundancy analysis showed that pH, TP, conductivity, and ammonia nitrogen had the greatest impact on microbial phyla/genera. After screening, four and six core metrics were determined from candidate parameters to establish B-IBI and M-IBI. The B-IBI evaluation results showed that healthy, sub-heathy, and poor accounted for 58.8%, 35.3%, and 5.9%, respectively, in the sites. The results of the M-IBI evaluation showed that 29.4% of the sites were healthy, 47.1% were sub-healthy, and 23.5% were common. M-IBI was positively correlated with water quality (r = 0.74, P < 0.001), whereas B-IBI was not. Further results showed that M-IBI was negatively correlated with the relative abundance of bloom-forming cyanobacteria Planktothrix (r = -0.54, P < 0.05). Therefore, M-IBI is more sensitive than B-IBI and can better reflect the actual water pollution status. This study can provide a new perspective for ecological assessment and management of urban lakes strongly disturbed by human activities.
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Affiliation(s)
- Siyang Wang
- State Key Laboratory of Water Resources Engineering and Management, Wuhan University, Wuhan, Hubei, 430072, P.R. China
| | - Peng Zhang
- State Key Laboratory of Water Resources Engineering and Management, Wuhan University, Wuhan, Hubei, 430072, P.R. China; Hubei Key Laboratory of Water System Science for Sponge City Construction(Wuhan University), Wuhan, 430072, China.
| | - Ditao Zhang
- State Key Laboratory of Water Resources Engineering and Management, Wuhan University, Wuhan, Hubei, 430072, P.R. China; Institute for Ecological Research and Pollution Control of Plateau Lakes, School of Ecology and Environmental Science, Yunnan University, Kunming, 650500, China
| | - Jianbo Chang
- State Key Laboratory of Water Resources Engineering and Management, Wuhan University, Wuhan, Hubei, 430072, P.R. China; Hubei Key Laboratory of Water System Science for Sponge City Construction(Wuhan University), Wuhan, 430072, China
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Mo F, Li Y, Liu Z, Zheng J, Huang Z. Captivity restructures the gut microbiota of François' langurs ( Trachypithecus francoisi). Front Microbiol 2023; 14:1166688. [PMID: 37250037 PMCID: PMC10218129 DOI: 10.3389/fmicb.2023.1166688] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Grants] [Track Full Text] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 02/15/2023] [Accepted: 04/12/2023] [Indexed: 05/31/2023] Open
Abstract
Gut microbiota is crucial to primate survival. Data on the gut microbiota of captive and wild animals can provide a physiological and ecological basis for the conservation of rare and endangered species. To study the effect of captivity on the gut microbiota, we examine the difference in the gut microbiota composition between captive and wild Francois' langurs (Trachypithecus francoisi), using 16S rRNA sequencing technology. The results showed that the composition of the gut microbiota of captive and wild langurs was characterized by Firmicutes (51.93 ± 10.07% vs. 76.15 ± 8.37%) and Bacteroidetes (32.43 ± 10.00% vs. 4.82 ± 1.41%) at the phylum level and was characterized by Oscillospiraceae (15.80 ± 5.19% vs. 30.21 ± 4.87%) at the family level. The alpha diversity of gut microbiota in captive langurs was higher than those in wild, such as the Shannon index (4.45 ± 0.33 vs. 3.98 ± 0.19, P < 0.001) and invSimpson index (35.11 ± 15.63 vs. 19.02 ± 4.87, P < 0.001). Principal coordinates analysis (PCoA) results showed significant differences in the composition of gut microbiota between captive and wild langurs at both the phylum and family levels (weight UniFrac algorithm, phylum level: R2 = 0.748, P = 0.001; family level: R2 = 0.685, P = 0.001). The relative abundance of Firmicutes (51.93 ± 10.07%) in captive langurs was lower than that of wild langurs (76.15 ± 8.37%), and the relative abundance of Bacteroidetes (32.43 ± 10.00%) in captive langurs was higher than that of wild (4.82 ± 1.41%). Our study concludes that dietary composition could be a crucial determinant in shaping the gut microbiota of langurs because more fiber-rich foods used by the wild langurs could increase the abundance of Firmicutes, and more simple carbohydrate-rich foods consumed by the captive langurs increase the abundance of Bacteroidetes. We highlight the importance of captivity on the gut microbiota and the need to consider the gut microbiota in animal provision.
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Affiliation(s)
- Fengxiang Mo
- Key Laboratory of Ecology and Endangered Species and Environmental Protection (Guangxi Normal University), Ministry of Education, Guilin, China
- Guangxi Key Laboratory of Rare and Endangered Animal Ecology, Guangxi Normal University, Guilin, China
- College of Life Sciences, Guangxi Normal University, Guilin, China
| | - Yuhui Li
- Key Laboratory of Ecology and Endangered Species and Environmental Protection (Guangxi Normal University), Ministry of Education, Guilin, China
- Guangxi Key Laboratory of Rare and Endangered Animal Ecology, Guangxi Normal University, Guilin, China
- College of Life Sciences, Guangxi Normal University, Guilin, China
| | - Zheng Liu
- Key Laboratory of Ecology and Endangered Species and Environmental Protection (Guangxi Normal University), Ministry of Education, Guilin, China
- Guangxi Key Laboratory of Rare and Endangered Animal Ecology, Guangxi Normal University, Guilin, China
- College of Life Sciences, Guangxi Normal University, Guilin, China
| | - Jingjin Zheng
- Key Laboratory of Ecology and Endangered Species and Environmental Protection (Guangxi Normal University), Ministry of Education, Guilin, China
- Guangxi Key Laboratory of Rare and Endangered Animal Ecology, Guangxi Normal University, Guilin, China
- College of Life Sciences, Guangxi Normal University, Guilin, China
| | - Zhonghao Huang
- Key Laboratory of Ecology and Endangered Species and Environmental Protection (Guangxi Normal University), Ministry of Education, Guilin, China
- Guangxi Key Laboratory of Rare and Endangered Animal Ecology, Guangxi Normal University, Guilin, China
- College of Life Sciences, Guangxi Normal University, Guilin, China
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Town JR, Dumonceaux T, Tidemann B, Helgason BL. Crop rotation significantly influences the composition of soil, rhizosphere, and root microbiota in canola (Brassica napus L.). ENVIRONMENTAL MICROBIOME 2023; 18:40. [PMID: 37161618 PMCID: PMC10169384 DOI: 10.1186/s40793-023-00495-9] [Citation(s) in RCA: 2] [Impact Index Per Article: 2.0] [Reference Citation Analysis] [Abstract] [Key Words] [Grants] [Track Full Text] [Subscribe] [Scholar Register] [Received: 12/22/2022] [Accepted: 04/19/2023] [Indexed: 05/11/2023]
Abstract
BACKGROUND Crop rotation is an agronomic practice that is known to enhance productivity and yield, and decrease pest and disease pressure. Economic and other factors have increased the frequency of certain crops, including canola, with unknown effects on the below ground microbial communities that impact plant health and performance. This study investigated the effect of 12 years of crop rotation including canola-wheat; canola-pea-barley; and unrotated canola across three geographic sites in Western Canada with diverse soil types and environmental conditions. To provide data on mature, established crop rotation strategies, root exudate profiles, soil nutrient fluxes, and bacterial and fungal microbial community profiles were determined at the flowering stage in the final two (canola) years of the 12-year rotations. RESULTS After 12 years of rotation, nutrient fluxes were affected in the soil in an inconsistent manner, with K, NO3, Mg, Ca, P, and Fe fluxes variably impacted by rotation depending on the year and site of sampling. As expected, rotation positively influenced yield and oil content, and decreased disease pressure from Leptosphaeria and Alternaria. In two of the three sites, root exudate profiles were significantly influenced by crop rotation. Bacterial soil, root, and rhizosphere communities were less impacted by crop rotation than the fungal communities. Fungal sequences that were associated with specific rotation strategies were identified in the bulk soil, and included known fungal pathogens in the canola-only strategy. Two closely related fungal sequences identified as Olpidium brassicae were extremely abundant at all sites in both years. One of these sequences was observed uniquely at a single site and was significantly associated with monocropped canola; moreover, its abundance correlated negatively with yield in both years. CONCLUSIONS Long-term canola monoculture affected root exudate profiles and soil nutrient fluxes differently in the three geographic locations. Bacterial communities were less impacted by rotation compared to the fungal communities, which consistently exhibited changes in composition in all ecological niches at all sites, in both years. Fungal sequences identified as O. brassicae were highly abundant at all sites, one of which was strongly associated with canola monoculture. Soil management decisions should include consideration of the effects on the microbial ecosystems associated with the plants in order to inform best management practices.
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Affiliation(s)
- Jennifer R Town
- Agriculture and Agri-Food Canada, Saskatoon Research and Development Centre, Saskatoon, SK, Canada.
| | - Tim Dumonceaux
- Agriculture and Agri-Food Canada, Saskatoon Research and Development Centre, Saskatoon, SK, Canada
| | - Breanne Tidemann
- Agriculture and Agri-Food Canada, Lacombe Research and Development Centre, Lacombe, AB, Canada
| | - Bobbi L Helgason
- Agriculture and Agri-Food Canada, Saskatoon Research and Development Centre, Saskatoon, SK, Canada
- Department of Soil Science, University of Saskatchewan, Saskatoon, SK, Canada
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Wang P, Nie J, Yang L, Zhao J, Wang X, Zhang Y, Zang H, Yang Y, Zeng Z. Plant growth stages covered the legacy effect of rotation systems on microbial community structure and function in wheat rhizosphere. ENVIRONMENTAL SCIENCE AND POLLUTION RESEARCH INTERNATIONAL 2023; 30:59632-59644. [PMID: 37012567 DOI: 10.1007/s11356-023-26703-0] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Subscribe] [Scholar Register] [Received: 10/21/2022] [Accepted: 03/24/2023] [Indexed: 05/10/2023]
Abstract
Legume-based crop rotation is conducive to improve soil multifunctionality, but how the legacy effect of previous legumes influenced the rhizosphere microbial community of the following crops along with growth stages remains unclear. Here, the wheat rhizosphere microbial community was assessed at the regreening and filling stages with four previous legumes (mungbean, adzuki bean, soybean, and peanut), as well as cereal maize as a control. The composition and structure of both bacterial and fungal communities varied dramatically between two growth stages. The differences in fungal community structure among rotation systems were observed at both the regreening and filling stages, while the difference in bacterial community structure among rotation systems was observed only at the filling stage. The complexity and centrality of the microbial network decreased along with crop growth stages. The species associations were strengthened in legume-based rotation systems than in cereal-based rotation system at the filling stage. The abundance of KEGG orthologs (KOs) associated with carbon, nitrogen, phosphorus, and sulfur metabolism of bacterial community decreased from the regreening stage to the filling stage. However, there was no difference in the abundance of KOs among rotation systems. Together, our results showed that plant growth stages had a stronger impact than the legacy effect of rotation systems in shaping the wheat rhizosphere microbial community, and the differences among rotation systems were more obvious at the late growth stage. Such compositional, structural, and functional changes may provide predictable consequences of crop growth and soil nutrient cycling.
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Affiliation(s)
- Peixin Wang
- College of Agronomy and Biotechnology/Key Laboratory of Farming System of Ministry of Agriculture and Rural Affairs, China Agricultural University, Beijing, 100193, China
- Institute of Grassland, Flowers and Ecology, Beijing Academy of Agriculture and Forestry Sciences, Beijing, 100097, China
| | - Jiangwen Nie
- College of Agronomy and Biotechnology/Key Laboratory of Farming System of Ministry of Agriculture and Rural Affairs, China Agricultural University, Beijing, 100193, China
| | - Lei Yang
- College of Agronomy and Biotechnology/Key Laboratory of Farming System of Ministry of Agriculture and Rural Affairs, China Agricultural University, Beijing, 100193, China
| | - Jie Zhao
- College of Agronomy and Biotechnology/Key Laboratory of Farming System of Ministry of Agriculture and Rural Affairs, China Agricultural University, Beijing, 100193, China
| | - Xiquan Wang
- College of Agronomy and Biotechnology/Key Laboratory of Farming System of Ministry of Agriculture and Rural Affairs, China Agricultural University, Beijing, 100193, China
- Institute of Agricultural Sources and Regional Planning, Chinese Academy of Agricultural Sciences, Beijing, 100081, China
| | - Yudan Zhang
- College of Agronomy and Biotechnology/Key Laboratory of Farming System of Ministry of Agriculture and Rural Affairs, China Agricultural University, Beijing, 100193, China
- Jining Academy of Agricultural Sciences, Jining, 272000, China
| | - Huadong Zang
- College of Agronomy and Biotechnology/Key Laboratory of Farming System of Ministry of Agriculture and Rural Affairs, China Agricultural University, Beijing, 100193, China
| | - Yadong Yang
- College of Agronomy and Biotechnology/Key Laboratory of Farming System of Ministry of Agriculture and Rural Affairs, China Agricultural University, Beijing, 100193, China.
| | - Zhaohai Zeng
- College of Agronomy and Biotechnology/Key Laboratory of Farming System of Ministry of Agriculture and Rural Affairs, China Agricultural University, Beijing, 100193, China
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Wang H, Ding Y, Zhang Y, Wang J, Freedman ZB, Liu P, Cong W, Wang J, Zang R, Liu S. Evenness of soil organic carbon chemical components changes with tree species richness, composition and functional diversity across forests in China. GLOBAL CHANGE BIOLOGY 2023; 29:2852-2864. [PMID: 36840370 DOI: 10.1111/gcb.16653] [Citation(s) in RCA: 1] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Subscribe] [Scholar Register] [Received: 08/26/2022] [Revised: 02/16/2023] [Accepted: 02/18/2023] [Indexed: 05/31/2023]
Abstract
Higher tree species richness generally increases the storage of soil organic carbon (SOC). However, less attention is paid to the influence of varied tree species composition on SOC storage. Recently, the perspectives for the stronger persistence of SOC caused by the higher molecular diversity of organic compounds were proposed. Therefore, the influences of tree species richness and composition on the molecular diversity of SOC need to be explored. In this study, an index of the evenness of diverse SOC chemical components was proposed to represent the potential resistance of SOC to decomposition under disturbances. Six natural forest types were selected encompassing a diversity gradient, ranging from cold temperate to tropical forests. We examined the correlations of tree species richness, composition, and functional diversity, with the evenness of SOC chemical components at a molecular level by 13 C nuclear magnetic resonance. Across the range, tree species richness correlated to the evenness of SOC chemical components through tree species composition. The negative correlation of evenness of SOC chemical components with tree species composition, and the positive correlation of evenness of SOC chemical components with tree functional diversity were found. These indicate the larger difference in tree species composition and the lower community functional diversity resulted in the higher heterogeneity of SOC chemical components among the communities. The positive correlation of the evenness of SOC chemical components with the important value of indicator tree species, further revealed the specific tree species contributing to the higher evenness of SOC chemical components in each forest type. Soil fungal and bacterial α-diversity had effect on the evenness of SOC chemical components. These findings suggest that the indicator tree species conservation might be preferrable to simply increasing tree species richness, for enhancing the potential resistance of SOC to decomposition.
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Affiliation(s)
- Hui Wang
- Ecology and Nature Conservation Institute, Chinese Academy of Forestry, Key Laboratory of Forest Ecology and Environment of National Forestry and Grassland Administration, Beijing, China
| | - Yi Ding
- Ecology and Nature Conservation Institute, Chinese Academy of Forestry, Key Laboratory of Forest Ecology and Environment of National Forestry and Grassland Administration, Beijing, China
| | - Yuguang Zhang
- Ecology and Nature Conservation Institute, Chinese Academy of Forestry, Key Laboratory of Forest Ecology and Environment of National Forestry and Grassland Administration, Beijing, China
| | - Jingxin Wang
- Division of Forestry and Natural Resources, West Virginia University, Morgantown, West Virginia, USA
| | - Zachary B Freedman
- Department of Soil Science, University of Wisconsin-Madison, Madison, Wisconsin, USA
| | - Pengcheng Liu
- Ecology and Nature Conservation Institute, Chinese Academy of Forestry, Key Laboratory of Forest Ecology and Environment of National Forestry and Grassland Administration, Beijing, China
| | - Wei Cong
- Ecology and Nature Conservation Institute, Chinese Academy of Forestry, Key Laboratory of Forest Ecology and Environment of National Forestry and Grassland Administration, Beijing, China
| | - Jian Wang
- Ecology and Nature Conservation Institute, Chinese Academy of Forestry, Key Laboratory of Forest Ecology and Environment of National Forestry and Grassland Administration, Beijing, China
| | - Runguo Zang
- Ecology and Nature Conservation Institute, Chinese Academy of Forestry, Key Laboratory of Forest Ecology and Environment of National Forestry and Grassland Administration, Beijing, China
| | - Shirong Liu
- Ecology and Nature Conservation Institute, Chinese Academy of Forestry, Key Laboratory of Forest Ecology and Environment of National Forestry and Grassland Administration, Beijing, China
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Huang D, Wang J, Zeng Y, Li Q, Wang Y. Identifying microbial signatures for patients with postmenopausal osteoporosis using gut microbiota analyses and feature selection approaches. Front Microbiol 2023; 14:1113174. [PMID: 37077242 PMCID: PMC10106639 DOI: 10.3389/fmicb.2023.1113174] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Grants] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 12/05/2022] [Accepted: 03/15/2023] [Indexed: 04/05/2023] Open
Abstract
Osteoporosis (OP) is a metabolic bone disorder characterized by low bone mass and deterioration of micro-architectural bone tissue. The most common type of OP is postmenopausal osteoporosis (PMOP), with fragility fractures becoming a global burden for women. Recently, the gut microbiota has been connected to bone metabolism. The aim of this study was to characterize the gut microbiota signatures in PMOP patients and controls. Fecal samples from 21 PMOP patients and 37 controls were collected and analyzed using amplicon sequencing of the V3-V4 regions of the 16S rRNA gene. The bone mineral density (BMD) measurement and laboratory biochemical test were performed on all participants. Two feature selection algorithms, maximal information coefficient (MIC) and XGBoost, were employed to identify the PMOP-related microbial features. Results showed that the composition of gut microbiota changed in PMOP patients, and microbial abundances were more correlated with total hip BMD/T-score than lumbar spine BMD/T-score. Using the MIC and XGBoost methods, we identified a set of PMOP-related microbes; a logistic regression model revealed that two microbial markers (Fusobacteria and Lactobacillaceae) had significant abilities in disease classification between the PMOP and control groups. Taken together, the findings of this study provide new insights into the etiology of OP/PMOP, as well as modulating gut microbiota as a therapeutic target in the diseases. We also highlight the application of feature selection approaches in biological data mining and data analysis, which may improve the research in medical and life sciences.
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Affiliation(s)
- Dageng Huang
- Department of Spine Surgery, Honghui Hospital, Xi’an Jiaotong University, Xi’an, China
| | - Jihan Wang
- Institute of Medical Research, Northwestern Polytechnical University, Xi’an, China
| | - Yuhong Zeng
- Department of Osteoporosis, Honghui Hospital, Xi’an Jiaotong University, Xi’an, China
| | - Qingmei Li
- Department of Osteoporosis, Honghui Hospital, Xi’an Jiaotong University, Xi’an, China
- *Correspondence: Qingmei Li,
| | - Yangyang Wang
- School of Electronics and Information, Northwestern Polytechnical University, Xi’an, China
- Yangyang Wang,
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Fujiyoshi S, Yarimizu K, Perera I, Abanto M, Jorquera M, Maruyama F. Learning from mistakes: challenges in finding holobiont factors from environmental samples and the importance of methodological consistency. Curr Opin Biotechnol 2023; 80:102897. [PMID: 36736005 DOI: 10.1016/j.copbio.2023.102897] [Citation(s) in RCA: 3] [Impact Index Per Article: 3.0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 09/23/2022] [Revised: 12/22/2022] [Accepted: 01/02/2023] [Indexed: 02/05/2023]
Abstract
The cause of harmful algal blooms has been a mystery, but research to elucidate its mechanism has progressed over the years thanks to genetic technologies. We have monitored toxic algae and its associated bacteria as a community, the so-called 'holobiont' in Chilean coastal waters for years from the perspective of bacteria as an algal bloom driver. This review describes the challenges of holobiont monitoring, specifically with respect to standardizing and compliance with the monitoring protocols to collect reliable and sustainable data. Further, we suggest adopting the high-throughput sequencing (HTS) standard operating procedure (SOP) by the International Human Microbiome to improve the quality and consistency of holobiont monitoring in the harmful algal world.
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Affiliation(s)
- So Fujiyoshi
- Microbial Genomics and Ecology, Center for the Planetary Health and Innovation Science (PHIS), The IDEC Institute, Hiroshima University, 1-3-2 Kagamiyama, Higashi-Hiroshima City, Hiroshima 739-8511, Japan
| | - Kyoko Yarimizu
- Microbial Genomics and Ecology, Center for the Planetary Health and Innovation Science (PHIS), The IDEC Institute, Hiroshima University, 1-3-2 Kagamiyama, Higashi-Hiroshima City, Hiroshima 739-8511, Japan.
| | - Ishara Perera
- Microbial Genomics and Ecology, Center for the Planetary Health and Innovation Science (PHIS), The IDEC Institute, Hiroshima University, 1-3-2 Kagamiyama, Higashi-Hiroshima City, Hiroshima 739-8511, Japan
| | - Michel Abanto
- Núcleo Científico y Tecnológico en Biorecursos (BIOREN), Universidad de La Frontera, Ave. Francisco Salazar 01145, 4811230 Temuco, Chile
| | - Milko Jorquera
- Núcleo Científico y Tecnológico en Biorecursos (BIOREN), Universidad de La Frontera, Ave. Francisco Salazar 01145, 4811230 Temuco, Chile
| | - Fumito Maruyama
- Microbial Genomics and Ecology, Center for the Planetary Health and Innovation Science (PHIS), The IDEC Institute, Hiroshima University, 1-3-2 Kagamiyama, Higashi-Hiroshima City, Hiroshima 739-8511, Japan.
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Zhang K, Shen X, Han L, Wang M, Lian S, Wang K, Li C. Effects on the intestinal morphology, inflammatory response and microflora in piglets challenged with enterotoxigenic Escherichia coli K88. Res Vet Sci 2023; 157:50-61. [PMID: 36871456 DOI: 10.1016/j.rvsc.2023.02.011] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 11/05/2021] [Revised: 02/17/2023] [Accepted: 02/25/2023] [Indexed: 03/03/2023]
Abstract
Enterotoxigenic Escherichia coli (ETEC) is an important cause of diarrhea in piglets, which leads to great economic losses. In this study, the ternary crossbred weaned piglets were orally administered with 1.5 × 1011 CFU ETEC K88 for three days. The results showed the ratio of villus length to crypt depth decreased in the duodenum and ileum after ETEC K88 infection. The expression of tight junction proteins ZO-1 in the jejunum and ileum, occludin in the jejunum and colon, and claudin-1 in the colon were down-regulated. The expression of IL-8 in the duodenum and jejunum, IL-13 in the colon, and TNF-α in the jejunum and colon were up-regulated. The expression of pBD1 in the colon, pBD2 in the jejunum, and pBD3 in the duodenum increased after infection. Meanwhile, the expression of TLR4, p38 MAPK and NF-κB p65 increased in all intestinal segments. Moreover, the expression of IL-8 in superficial cervical lymph nodes (SCLN), TNF-α in mesenteric lymph nodes (MLN), and IL-13 in inguinal lymph nodes (ILN) and MLN were up-regulated. The expression of pBD1 and pBD2 in SCLN and MLN, and pBD3 in SCLN were up-regulated. Acidobacteria and Proteobacteria were the most abundant phyla in both groups by analysis of intestinal microflora using 16 s rRNA sequencing, and the relative abundances of bacteria were found to be changed by Metastats software and LEfSe analysis. Our results indicated that cytokines and pBDs had different roles in different intestinal segments or different lymph nodes against ETEC K88, and gut microbiota was influenced after infection.
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Affiliation(s)
- Kun Zhang
- College of Animal Science and Technology, Henan Agricultural University, Zhengzhou 450046, Henan, People's Republic of China
| | - Xiaoyang Shen
- College of Animal Science and Technology, Henan Agricultural University, Zhengzhou 450046, Henan, People's Republic of China
| | - Lu Han
- College of Animal Science and Technology, Henan Agricultural University, Zhengzhou 450046, Henan, People's Republic of China; Henan Animal Husbandry Service, Zhengzhou, Henan, People's Republic of China
| | - Mengyun Wang
- College of Animal Science and Technology, Henan Agricultural University, Zhengzhou 450046, Henan, People's Republic of China
| | - Shaoqiang Lian
- College of Animal Science and Technology, Henan Agricultural University, Zhengzhou 450046, Henan, People's Republic of China
| | - Kejun Wang
- College of Animal Science and Technology, Henan Agricultural University, Zhengzhou 450046, Henan, People's Republic of China.
| | - Chunli Li
- College of Animal Science and Technology, Henan Agricultural University, Zhengzhou 450046, Henan, People's Republic of China.
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50
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Zhang Y, Du H, Chen Y, Wei H, Dai Q, Liu J, Li Z. Influence of biochar-based urea substituting urea on rice yield, bacterial community and nitrogen cycling in paddy fields. JOURNAL OF THE SCIENCE OF FOOD AND AGRICULTURE 2023; 103:2794-2805. [PMID: 36369962 DOI: 10.1002/jsfa.12333] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 05/17/2022] [Revised: 11/09/2022] [Accepted: 11/12/2022] [Indexed: 06/16/2023]
Abstract
BACKGROUND There is an increasing understanding of the importance of biochar-based fertilizers in agroecosystems. However, no research has evaluated the effects of partial substitution of urea with biochar-based urea on rice yields and soil microbial communities. We therefore investigated the rice yields, bacterial communities, and gene abundance involved in nitrogen in silty clay and sandy loam soil paddy fields treated with urea (U), total substitution of urea with biochar-based urea (BSU), partial substitution of urea with biochar-based urea in basal and tillering fertilizers (BSU1), and partial substitution of urea with biochar-based urea in panicle fertilizers (BSU2). RESULTS Compared with U, applying biochar-based urea increased rice yields, with BSU2 having the most notable effect. Principal coordinate analysis revealed that bacterial communities treated with BSU2 in both soils were significantly different from those treated with U and BSU, most probably due to the decrease in pH caused by the decrease in the concentration of ammonium. The relative abundance of Subdivision3_genera_incertae_sedis, Azotobacter, Geobacter, Buchnera, and Terrimonas in silty clay soils and Saccharibacteria_genera_incertae_sedis and Geobacter in sandy loam soils significantly increased when treated with BSU2 and was positively correlated with rice yields, indicating that the improvements in rice yield were associated with changes in bacterial communities. Based upon amoA/narG related to nitrate accumulation and norB/nosZ related to nitrous oxide emissions, BSU2 enabled a lower risk of nitrate leaching and nitrous oxide emissions in both soils, in comparison with the U and BSU treatments. CONCLUSION The BSU2 treatment had a stronger yield-increasing effect than biochar-based urea alone and lowered the risk of nitrogen pollution, which is beneficial to the sustainable development of paddy fields. © 2022 Society of Chemical Industry.
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Affiliation(s)
- Yang Zhang
- College of Environmental Science and Engineering, Yangzhou University, Yangzhou, China
| | - Haimeng Du
- Jiangsu Key Laboratory of Crop Genetic and Physiology/Jiangsu Key Laboratory of Crop Cultivation and Physiology/Jiangsu Co-Innovation Center for Modern Production Technology of Grain Crops/Research Institute of Rice Industrial Engineering Technology, Yangzhou University, Yangzhou, China
| | - Yinglong Chen
- Jiangsu Key Laboratory of Crop Genetic and Physiology/Jiangsu Key Laboratory of Crop Cultivation and Physiology/Jiangsu Co-Innovation Center for Modern Production Technology of Grain Crops/Research Institute of Rice Industrial Engineering Technology, Yangzhou University, Yangzhou, China
| | - Huanhe Wei
- Jiangsu Key Laboratory of Crop Genetic and Physiology/Jiangsu Key Laboratory of Crop Cultivation and Physiology/Jiangsu Co-Innovation Center for Modern Production Technology of Grain Crops/Research Institute of Rice Industrial Engineering Technology, Yangzhou University, Yangzhou, China
| | - Qigen Dai
- Jiangsu Key Laboratory of Crop Genetic and Physiology/Jiangsu Key Laboratory of Crop Cultivation and Physiology/Jiangsu Co-Innovation Center for Modern Production Technology of Grain Crops/Research Institute of Rice Industrial Engineering Technology, Yangzhou University, Yangzhou, China
- Joint International Research Laboratory of Agriculture and Agri-Product Safety of Ministry of Education of China, Yangzhou University, Yangzhou, China
| | - Jiumei Liu
- Technology Development Research Institute of Testing and Certification, Jiangxi General Institute of Testing and Certification, Nanchang, China
| | - Zhijiang Li
- Jiangxi Xinbang Biochemical Co., Ltd., Jiujiang, China
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