1
|
Huang H, Yu J, Chen L, Zhang L, Li T, Ye D, Zhang X, Wang Y, Zheng Z, Liu T, Yu H. The effect of different amendments on Cd availability and bacterial community after three-year consecutive application in Cd-contaminated paddy soils. ENVIRONMENTAL RESEARCH 2024; 259:119459. [PMID: 38942257 DOI: 10.1016/j.envres.2024.119459] [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: 12/02/2023] [Revised: 05/20/2024] [Accepted: 06/18/2024] [Indexed: 06/30/2024]
Abstract
In situ immobilization is a widely used measure for passivating Cd-contaminated soils. Amendments need to be continuously applied to achieve stable remediation effects. However, few studies have evaluated the impact of consecutive application of amendments on soil health and the microecological environment. A field experiment was conducted in a Cd-contaminated paddy (available Cd concentration 0.40 mg kg-1) on the Chengdu Plain to investigate the changes in soil Cd availability and response characteristics of soil bacterial communities after consecutive application of rice straw biochar (SW), fly ash (FM) and marble powder (YH) amendments from 2018 to 2020. Compared with control treatment without amendments (CK), soil pH increased by 0.6, 0.5 and 1.5 under SW, FM and YH amendments, respectively, and the soil available Cd concentration decreased by 10.71%, 21.42% and 25.00%, respectively. The Cd concentration in rice grain was less than 0.2 mg kg-1 under YH amendment, which was within the Chinese Contaminant Limit in Food of National Food Safety Standards (GB2762-2022) in the second and third years. The three amendments had different effects on the transformation of Cd fractions in soil, which may be relevant to the specific bacterial communities shaped under different treatments. The proportion of Fe-Mn oxide-bound fraction Cd (OX-Cd) increased by 11% under YH treatment, which may be due to the promotion of Fe(III) and Cd binding by some enriched iron-oxidizing bacteria, such as Lysobacter, uncultured_Pelobacter sp. and Sulfurifusis. Candidatus_Tenderia and Sideroxydans were enriched under SW and FM amendments, respectively, and were likely beneficial for reducing Cd availability in soil through Cd immobilization. These results revealed the significance of the bacterial community in soil Cd immobilization after consecutive application of amendments and highlighted the potential of applying YH amendment to ensure the safe production of rice in Cd-contaminated soil.
Collapse
Affiliation(s)
- Huagang Huang
- College of Resources, Sichuan Agricultural University, 211 Huimin Road, Chengdu, Sichuan 611130, China.
| | - Jieyi Yu
- College of Resources, Sichuan Agricultural University, 211 Huimin Road, Chengdu, Sichuan 611130, China.
| | - Lan Chen
- College of Resources, Sichuan Agricultural University, 211 Huimin Road, Chengdu, Sichuan 611130, China.
| | - Lu Zhang
- College of Resources, Sichuan Agricultural University, 211 Huimin Road, Chengdu, Sichuan 611130, China.
| | - Tingxuan Li
- College of Resources, Sichuan Agricultural University, 211 Huimin Road, Chengdu, Sichuan 611130, China.
| | - Daihua Ye
- College of Resources, Sichuan Agricultural University, 211 Huimin Road, Chengdu, Sichuan 611130, China.
| | - Xizhou Zhang
- College of Resources, Sichuan Agricultural University, 211 Huimin Road, Chengdu, Sichuan 611130, China.
| | - Yongdong Wang
- College of Resources, Sichuan Agricultural University, 211 Huimin Road, Chengdu, Sichuan 611130, China.
| | - Zicheng Zheng
- College of Resources, Sichuan Agricultural University, 211 Huimin Road, Chengdu, Sichuan 611130, China.
| | - Tao Liu
- College of Resources, Sichuan Agricultural University, 211 Huimin Road, Chengdu, Sichuan 611130, China.
| | - Haiying Yu
- College of Resources, Sichuan Agricultural University, 211 Huimin Road, Chengdu, Sichuan 611130, China.
| |
Collapse
|
2
|
Xu H, Zou Z, Jin Y, Kuzyakov Y, Huang X, Wu X, Zhu F. Assembly processes and co-occurrence of bacterial communities in tree rhizosphere under Pb-Zn contamination. JOURNAL OF HAZARDOUS MATERIALS 2024; 476:135135. [PMID: 38986409 DOI: 10.1016/j.jhazmat.2024.135135] [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: 03/25/2024] [Revised: 07/01/2024] [Accepted: 07/05/2024] [Indexed: 07/12/2024]
Abstract
Rhizosphere bacteria are critical for supporting plant performance in stressful environments. Understanding the assembly and co-occurrence of rhizosphere bacterial communities contributes significantly to both plant growth and heavy metal accumulation. In this study, Ligustrum lucidum and Melia azedarach were planted in soils with simulated varying levels of Pb-Zn contamination. The Rhizosphere bacterial communities were investigated by using 16S rRNA gene sequencing. The impacts of Pb-Zn contamination on the diversity and structure of the rhizosphere bacterial community were found to be greater than those of both tree species. The variation in bacterial community structure in both trees was mainly driven by the combinations of Pb-Zn and soil properties. Deterministic processes (non-planted, 82 %; L. lucidum, 73 %; M. azedarach, 55 %) proved to be the most important assembly processes for soil bacterial communities, but both trees increased the importance of stochastic processes (18 %, 27 %, 45 %). The rhizosphere co-occurrence networks exhibited greater stability compared to the non-planted soil networks. Rare taxa played a dominant role in maintaining the stability of rhizosphere networks, as most of the keystone taxa within rhizosphere networks belonged to rare taxa. Dissimilarities in the structure and network complexity of rhizosphere bacterial communities were significantly associated with differences in tree biomass and metal accumulation. These variations in response varied between both trees, with L. lucidum exhibiting greater potential for phytoremediation in its rhizosphere compared to M. azedarach. Our results offer valuable insights for designing effective microbe-assisted phytoremediation systems.
Collapse
Affiliation(s)
- Hongyang Xu
- College of Horticulture, Hunan Agricultural University, Changsha 410125, China
| | - Ziying Zou
- School of Geographical Sciences, Hunan Normal University, Changsha 410081, China
| | - Yuke Jin
- College of Landscape Architecture and Art Design, Hunan Agricultural University, Changsha 410125, China
| | - Yakov Kuzyakov
- Department of Soil Science of Temperate Ecosystems, Department of Agricultural Soil Science, University of Göttingen, Göttingen 37077, Germany; Peoples Friendship University of Russia (RUDN University), Moscow 117198, Russia
| | - Xinhao Huang
- College of Landscape Architecture and Art Design, Hunan Agricultural University, Changsha 410125, China
| | - Xiaohong Wu
- College of Life Science and Technology, Central South University of Forestry and Technology, Changsha 410004, China
| | - Fan Zhu
- College of Landscape Architecture and Art Design, Hunan Agricultural University, Changsha 410125, China.
| |
Collapse
|
3
|
Grimm H, Drabesch S, Nicol A, Straub D, Joshi P, Zarfl C, Planer-Friedrich B, Muehe EM, Kappler A. Arsenic immobilization and greenhouse gas emission depend on quantity and frequency of nitrogen fertilization in paddy soil. Heliyon 2024; 10:e35706. [PMID: 39247294 PMCID: PMC11379618 DOI: 10.1016/j.heliyon.2024.e35706] [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: 07/24/2024] [Accepted: 08/01/2024] [Indexed: 09/10/2024] Open
Abstract
Nitrogen (N) fertilization in paddy soils decreases arsenic mobility and methane emissions. However, it is unknown how quantity and frequency of N fertilization affects the interlinked redox reactions of iron(II)-driven denitrification, iron mineral (trans-)formation with subsequent arsenic (im-)mobilization, methane and nitrous oxide emissions, and how this links to microbiome composition. Thus, we incubated paddy soil from Vercelli, Italy, over 129 days and applied nitrate fertilizer at different concentrations (control: 0, low: ∼35, medium: ∼100, high: ∼200 mg N kg-1 soil-1) once at the beginning and after 49 days. In the high N treatment, nitrate reduction was coupled to oxidation of dissolved and solid-phase iron(II), while naturally occurring arsenic was retained on iron minerals due to suppression of reductive iron(III) mineral dissolution. In the low N treatment, 40 μg L-1 of arsenic was mobilized into solution after nitrate depletion, with 69 % being immobilized after a second nitrate application. In the non-fertilized control, concentrations of dissolved arsenic were as high as 76 μg L-1, driven by mobilization of 36 % of the initial mineral-bound arsenic. Generally, N fertilization led to 1.5-fold higher total GHG emissions (sum of CO2, CH4 and N2O as CO2 equivalents), 158-fold higher N2O, and 7.5-fold lower CH4 emissions compared to non-fertilization. On day 37, Gallionellaceae, Comamonadaceae and Rhodospirillales were more abundant in the high N treatment compared to the non-fertilized control, indicating their potential role as key players in nitrate reduction coupled to iron(II) oxidation. The findings underscore the dual effect of N fertilization, immobilizing arsenic in the short-term (low/medium N) or long-term (high N), while simultaneously increasing N2O and lowering CH4 emissions. This highlights the significance of both the quantity and frequency of N fertilizer application in paddy soils.
Collapse
Affiliation(s)
- Hanna Grimm
- Geomicrobiology, Department of Geosciences, University of Tübingen, Schnarrenbergstrasse 94-96, 72076 Tübingen, Germany
| | - Soeren Drabesch
- Geomicrobiology, Department of Geosciences, University of Tübingen, Schnarrenbergstrasse 94-96, 72076 Tübingen, Germany
- Plant Biogeochemistry, Department of Applied Microbial Ecology, Helmholtz Centre for Environmental Research - UFZ, Permoserstrasse 15, 04318 Leipzig, Germany
- Plant Biogeochemistry, Department of Geosciences, University of Tübingen, Schnarrenbergstrasse 94-96, 72076 Tübingen, Germany
| | - Alan Nicol
- Environmental Geochemistry, Bayreuth Center for Ecology and Environmental Research (BayCEER), University of Bayreuth, Germany
| | - Daniel Straub
- Quantitative Biology Center (QBiC), University of Tübingen, Germany
| | - Prachi Joshi
- Geomicrobiology, Department of Geosciences, University of Tübingen, Schnarrenbergstrasse 94-96, 72076 Tübingen, Germany
| | - Christiane Zarfl
- Environmental Systems Analysis, Department of Geosciences, University of Tübingen, Schnarrenbergstrasse 94-96, 72076 Tübingen, Germany
| | - Britta Planer-Friedrich
- Environmental Geochemistry, Bayreuth Center for Ecology and Environmental Research (BayCEER), University of Bayreuth, Germany
| | - E Marie Muehe
- Plant Biogeochemistry, Department of Applied Microbial Ecology, Helmholtz Centre for Environmental Research - UFZ, Permoserstrasse 15, 04318 Leipzig, Germany
- Plant Biogeochemistry, Department of Geosciences, University of Tübingen, Schnarrenbergstrasse 94-96, 72076 Tübingen, Germany
| | - Andreas Kappler
- Geomicrobiology, Department of Geosciences, University of Tübingen, Schnarrenbergstrasse 94-96, 72076 Tübingen, Germany
- Cluster of Excellence: EXC 2124: Controlling Microbes to Fight Infection, Tübingen, Germany
| |
Collapse
|
4
|
de Santana CO, Spealman P, Oliveira E, Gresham D, de Jesus T, Chinalia F. Prokaryote communities along a source-to-estuary river continuum in the Brazilian Atlantic Forest. PeerJ 2024; 12:e17900. [PMID: 39157765 PMCID: PMC11328836 DOI: 10.7717/peerj.17900] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 11/10/2023] [Accepted: 07/20/2024] [Indexed: 08/20/2024] Open
Abstract
The activities of microbiomes in river sediments play an important role in sustaining ecosystem functions by driving many biogeochemical cycles. However, river ecosystems are frequently affected by anthropogenic activities, which may lead to microbial biodiversity loss and/or changes in ecosystem functions and related services. While parts of the Atlantic Forest biome stretching along much of the eastern coast of South America are protected by governmental conservation efforts, an estimated 89% of these areas in Brazil are under threat. This adds urgency to the characterization of prokaryotic communities in this vast and highly diverse biome. Here, we present prokaryotic sediment communities in the tropical Juliana River system at three sites, an upstream site near the river source in the mountains (Source) to a site in the middle reaches (Valley) and an estuarine site near the urban center of Ituberá (Mangrove). The diversity and composition of the communities were compared at these sites, along with environmental conditions, the former by using qualitative and quantitative analyses of 16S rRNA gene amplicons. While the communities included distinct populations at each site, a suite of core taxa accounted for the majority of the populations at all sites. Prokaryote diversity was highest in the sediments of the Mangrove site and lowest at the Valley site. The highest number of genera exclusive to a given site was found at the Source site, followed by the Mangrove site, which contained some archaeal genera not present at the freshwater sites. Copper (Cu) concentrations were related to differences in communities among sites, but none of the other environmental factors we determined was found to have a significant influence. This may be partly due to an urban imprint on the Mangrove site by providing organic carbon and nutrients via domestic effluents.
Collapse
Affiliation(s)
- Carolina O. de Santana
- Department of Exact Sciences (DEXA), Universidade Estadual de Feira de Santana, Feira de Santana, Bahia, Brazil
| | - Pieter Spealman
- Department of Biology, New York University, New York City, NY, United States
| | - Eddy Oliveira
- Department of Biology (DCBIO), Universidade Estadual de Feira de Santana, Feira de Santana, BA, Brazil
| | - David Gresham
- Department of Biology, New York University, New York City, NY, United States
| | - Taise de Jesus
- Department of Exact Sciences (DEXA), Universidade Estadual de Feira de Santana, Feira de Santana, Bahia, Brazil
| | - Fabio Chinalia
- Institute of Health Sciences, Laboratory of Biotechnology and Ecology of Micro-Organisms, Institute of Health Sciences, Salvador, BA, Brazil
| |
Collapse
|
5
|
Jiang Q, Zhao T, Kong Z, Kong B, Chen J, Zhao B, Li Y, Cui X, Yin Z, Lu X, Zhang D. Diversity of Fungal Community and Its Constraints in the Yifeng Lithium Mines, Eastern China. Curr Microbiol 2024; 81:288. [PMID: 39078511 DOI: 10.1007/s00284-024-03817-3] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [MESH Headings] [Grants] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 03/15/2024] [Accepted: 07/20/2024] [Indexed: 07/31/2024]
Abstract
It is well accepted that biodiversity and ecosystem functions are strongly shaped by environmental conditions; however, relatively little is known about how they depend on the mineralogical assemblage of local environments, especially in mines. This study aims to reveal the diversity characteristics of the fungal community in the surface of granite lithium ores and their weathering products sampled from the Yifeng lithium mines in Jiangxi Province, eastern China. According to the analysis of internal transcribed spacer1 (ITS1) high-throughput sequencing, significant differences in fungal community diversity on the surface of lithium ores and their weathering products have been revealed. The operational taxonomic unit (OTU) of the ore surface and its weathering products ranged from 280 to 624, which may depend on the mineral composition as well as the degree of weathering. The community composition of each sample was significantly different at the phylum level, especially between the weathering products in Ascomycota and Basidiomycota. Although Ascomycota and Basidiomycota were the dominant fungal communities in all samples, each sample has its own distinctive fungi. The trophic modes of the fungi were more complex than that of the bacteria. 10 different fungal trophic modes and 25 dominant functional fungal groups were disclosed, and the saprophytic community was found to be the dominant group. These fungi could accelerate the decomposition of environmental organic matter in the environment by producing hydrolases and oxidases. Chytridiomycota with the function of producing and regulating secondary metabolites were the representative fungi in all samples. Our findings would provide theoretical basis and research clues for understanding the relationship between weathering of granite lithium and fungal communities.
Collapse
Affiliation(s)
- Qiaoyun Jiang
- School of Life Sciences, Nanjing University, Nanjing, 210023, Jiangsu Province, China
| | - Ting Zhao
- School of Life Sciences, Nanjing University, Nanjing, 210023, Jiangsu Province, China
| | - Zixuan Kong
- Kuang Yaming Honors School, Nanjing University, Nanjing, 210023, Jiangsu Province, China
| | - Bingqing Kong
- Kuang Yaming Honors School, Nanjing University, Nanjing, 210023, Jiangsu Province, China
| | - Junyao Chen
- School of Life Sciences, Nanjing University, Nanjing, 210023, Jiangsu Province, China
| | - Bin Zhao
- School of Life Sciences, Nanjing University, Nanjing, 210023, Jiangsu Province, China
| | - Yumei Li
- School of Chemistry and Chemical Engineering, Nanjing University, Nanjing, 210023, Jiangsu Province, China
| | - Xiangjie Cui
- School of Earth Sciences and Engineering, Nanjing University, Nanjing, 210023, Jiangsu Province, China
| | - Zhe Yin
- School of Earth Sciences and Engineering, Nanjing University, Nanjing, 210023, Jiangsu Province, China
| | - Xiancai Lu
- School of Earth Sciences and Engineering, Nanjing University, Nanjing, 210023, Jiangsu Province, China
| | - Dongmei Zhang
- School of Life Sciences, Nanjing University, Nanjing, 210023, Jiangsu Province, China.
| |
Collapse
|
6
|
Li S, Zhang L, Fang W, Shen Z. Variations in bacterial community succession and assembly mechanisms with mine age across various habitats in coal mining subsidence water areas. THE SCIENCE OF THE TOTAL ENVIRONMENT 2024; 948:174822. [PMID: 39029748 DOI: 10.1016/j.scitotenv.2024.174822] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Subscribe] [Scholar Register] [Received: 05/07/2024] [Revised: 07/12/2024] [Accepted: 07/13/2024] [Indexed: 07/21/2024]
Abstract
Microorganisms play a pivotal role as catalysts in the biogeochemical cycles of aquatic ecosystems within coal mining subsidence areas. Despite their importance, the succession of microbial communities with increasing mine age, particularly across different habitats, and variations in phylogenetically-based community assembly mechanisms are not well understood. To address this knowledge gap, we collected 72 samples from lake sediments, water, and surrounding topsoil (0-20 cm) at various mining stages (early: 16 years, middle: 31 years, late: 40 years). We analyzed these samples using 16S rRNA gene sequencing and multivariate statistical methods to explore the dynamics and assembly mechanisms of bacterial communities. Our findings reveal that increases in phosphorus and organic matter in sediments, correlating with mining age, significantly enhance bacterial alpha diversity while reducing species richness (P < 0.001). Homogenizing selection (49.9 %) promotes species asynchrony-complementarity, augmenting the bacterial community's ability to metabolize sulfur, phosphorus, and organic matter, resulting in more complex-stable co-occurrence networks. In soil, elevated nitrogen and organic carbon levels markedly influence bacterial community composition (Adonis R2 = 0.761), yet do not significantly alter richness or diversity (P > 0.05). The lake's high connectivity with surrounding soil leads to substantial species drift and organic matter accumulation, thereby increasing bacterial richness in later stages (P < 0.05) and enhancing the ability to metabolize dissolved organic matter, including humic-like substances, fulvic acids, and protein-like materials. The assembly of soil bacterial communities is largely governed by stochastic processes (79.0 %) with species drift (35.8 %) significantly shaping these communities over a broad spatial scale, also affecting water bacterial communities. However, water bacterial community assembly is primarily driven by stochastic processes (51.2 %), with a substantial influence from habitat quality (47.6 %). This study offers comprehensive insights into the evolution of microbial community diversity within coal mining subsidence water areas, with significant implications for enhancing environmental management and protection strategies for these ecosystems.
Collapse
Affiliation(s)
- Shuo Li
- School of Earth and Environment, Anhui University of Science and Technology, Huainan, 232001, China
| | - Lei Zhang
- College of Civil and Architecture Engineering, Chuzhou University, Chuzhou, 239000, China.
| | - Wangkai Fang
- School of Earth and Environment, Anhui University of Science and Technology, Huainan, 232001, China
| | - Zhen Shen
- Nanjing Institute of Geography and Limnology, Chinese Academy of Sciences, Nanjing, 210008, China
| |
Collapse
|
7
|
Mao J, Zheng Z, Ma L, Wang H, Wang X, Zhu F, Xue S, Srivastava P, Sapsford DJ. Polymetallic contamination drives indigenous microbial community assembly dominated by stochastic processes at Pb-Zn smelting sites. THE SCIENCE OF THE TOTAL ENVIRONMENT 2024; 947:174575. [PMID: 38977087 DOI: 10.1016/j.scitotenv.2024.174575] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Subscribe] [Scholar Register] [Received: 03/29/2024] [Revised: 06/14/2024] [Accepted: 07/05/2024] [Indexed: 07/10/2024]
Abstract
Indigenous microbial communities in smelting areas are crucial for maintaining fragile ecosystem functions. However, the community assembly process and their responses to polymetallic pollution are poorly understood, especially the taxa in each bin from the amplicons that contributed to the assembly process. Herein, microbial diversity, co-occurrence patterns, assembly process and the intrinsic mechanisms across contamination gradients at a typical PbZn smelting site were systematically unravelled by high-throughput sequencing. The results showed a consistent compositional profile among the indigenous communities across sampling sites, wherein genera KD4-96 from Chloroflexi and Sphingomonas from Proteobacteria emerged as the most abundant taxa. Network modularity of the high- and middle-contaminated communities at Pb and Zn smelting sites was >0.44, indicating that community populations were clustered into modules to resist high heavy metal stress. Stochastic processes dominated the community assembly, with the greatest contribution from drift (DR), which was significantly correlated with Pb, Zn, Cr and Cu contents. What's particular was that the DR-controlled bins were dominated by Proteobacteria (typical r-strategists), while the HoS-controlled bins were by Chloroflexi (typical K-strategists). Furthermore, the proportion of DR in the bins dominated by Sphingomonadaceae (phylum Proteobacteria) increased gradually with the increase of heavy metal contents. These discoveries provide essential insights for community control in restoring and mitigating soil degradation at PbZn smelting sites.
Collapse
Affiliation(s)
- Jialing Mao
- Institute of Geological Survey, China University of Geosciences, Wuhan 430074, Hubei, China
| | - Zikui Zheng
- School of Environmental Studies, China University of Geosciences, Wuhan 430074, Hubei, China
| | - Liyuan Ma
- Institute of Geological Survey, China University of Geosciences, Wuhan 430074, Hubei, China; School of Environmental Studies, China University of Geosciences, Wuhan 430074, Hubei, China; School of Engineering, Cardiff University, Cardiff CF243AA, United Kingdom.
| | - Hongmei Wang
- School of Environmental Studies, China University of Geosciences, Wuhan 430074, Hubei, China
| | - Xingjie Wang
- Institute of Geological Survey, China University of Geosciences, Wuhan 430074, Hubei, China; School of Engineering, Cardiff University, Cardiff CF243AA, United Kingdom
| | - Feng Zhu
- School of Metallurgy and Environment, Central South University, Changsha 410083, China
| | - Shengguo Xue
- School of Metallurgy and Environment, Central South University, Changsha 410083, China
| | | | - Devin J Sapsford
- School of Engineering, Cardiff University, Cardiff CF243AA, United Kingdom
| |
Collapse
|
8
|
Zhang F, Xie Y, Peng R, Ji X, Bai L. Heavy metals and nutrients mediate the distribution of soil microbial community in a typical contaminated farmland of South China. THE SCIENCE OF THE TOTAL ENVIRONMENT 2024; 947:174322. [PMID: 38945241 DOI: 10.1016/j.scitotenv.2024.174322] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Subscribe] [Scholar Register] [Received: 05/01/2024] [Revised: 06/17/2024] [Accepted: 06/25/2024] [Indexed: 07/02/2024]
Abstract
The effects of heavy metals on soil microbial communities have been extensively investigated, whereas the combined effects of heavy metals and nutrients on soil microbial communities and their interactions are rarely understood. In this study, we investigated the distribution patterns of heavy metals, nutrients and microbial communities in a typical contaminated farmland and explored their interaction mechanisms. The results showed that Cd and Pb were the main pollutants in this area, which mainly came from the smelter. Canonical correspondence analysis and variance decomposition analysis showed that the heavy metals played a more important role in restraining the microbial community structure of soils than other soil properties. Soil Cd, Pb, pH and available K content were the most important environmental factors affecting the microbial community structures in soil. Major Cd tolerant bacteria and fungi were detected including Actinobacteriota, Gemmatimonadota, Entorrhizomycota and Mortierellomycota. The analyses of molecular ecological networks showed that there were 84.1 % of negative correlations among microorganisms. Cd could regulate the abundance of key nodes in Cd-tolerant network modules, and these key nodes could improve the adaptability of the whole module to heavy metals through competition with other microorganisms. This study provides insights into the ecological effects of heavy metals and nutrients on soil microbial communities and will help to develop the bio-remediation technologies for contaminated soils.
Collapse
Affiliation(s)
- Feng Zhang
- Hunan Institute of Agro-Environment and Ecology, Hunan Academy of Agricultural Sciences, Changsha 410125, China; Key Laboratory of Agro-Environment in Midstream of Yangtze Plain, Ministry of Agriculture and Rural Affairs, Changsha 410125, China; Key Lab of Prevention, Control and Remediation of Soil Heavy Metal Pollution in Hunan Province, Changsha 410125, China
| | - Yunhe Xie
- Hunan Institute of Agro-Environment and Ecology, Hunan Academy of Agricultural Sciences, Changsha 410125, China; Key Laboratory of Agro-Environment in Midstream of Yangtze Plain, Ministry of Agriculture and Rural Affairs, Changsha 410125, China; Key Lab of Prevention, Control and Remediation of Soil Heavy Metal Pollution in Hunan Province, Changsha 410125, China
| | - Rui Peng
- Hunan Hybrid Rice Research Center, Changsha 410125, China
| | - Xionghui Ji
- Hunan Institute of Agro-Environment and Ecology, Hunan Academy of Agricultural Sciences, Changsha 410125, China; Key Laboratory of Agro-Environment in Midstream of Yangtze Plain, Ministry of Agriculture and Rural Affairs, Changsha 410125, China; Key Lab of Prevention, Control and Remediation of Soil Heavy Metal Pollution in Hunan Province, Changsha 410125, China.
| | - Lianyang Bai
- Hunan Academy of Agricultural Sciences, Changsha 410125, China.
| |
Collapse
|
9
|
Li J, Zheng Q, Liu J, Pei S, Yang Z, Chen R, Ma L, Niu J, Tian T. Bacterial-fungal interactions and response to heavy metal contamination of soil in agricultural areas. Front Microbiol 2024; 15:1395154. [PMID: 38800759 PMCID: PMC11116572 DOI: 10.3389/fmicb.2024.1395154] [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: 03/03/2024] [Accepted: 04/22/2024] [Indexed: 05/29/2024] Open
Abstract
Introduction Long-term heavy metal contamination of soil affects the structure and function of microbial communities. The aim of our study was to investigate the effect of soil heavy metal contamination on microorganisms and the impact of different heavy metal pollution levels on the microbial interactions. Methods We collected soil samples and determined soil properties. Microbial diversity was analyzed in two groups of samples using high-throughput sequencing technology. Additionally, we constructed microbial networks to analyze microbial interactions. Results The pollution load index (PLI) < 1 indicates that the area is not polluted. 1 < PLI < 2 represents moderate pollution. PLI was 1.05 and 0.14 for the heavy metal contaminated area and the uncontaminated area, respectively. Cd, Hg, Pb, Zn, and Cu were identified as the major contaminants in the contaminated area, with the contamination factors were 30.35, 11.26, 5.46, 5.19, and 2.46, respectively. The diversities and compositions of the bacterial community varied significantly between the two groups. Compared to the uncontaminated area, the co-occurrence network between bacterial and fungal species in the contaminated area was more complex. The keystone taxa of the co-occurrence network in the contaminated area were more than those in the uncontaminated area and were completely different from it. Discussion Heavy metal concentrations played a crucial role in shaping the difference in microbial community compositions. Microorganisms adapt to long-term and moderate levels of heavy metal contamination through enhanced interactions. Bacteria resistant to heavy metal concentrations may play an important role in soils contaminated with moderate levels of heavy metals over long periods of time.
Collapse
Affiliation(s)
- Jia Li
- School of Public Health, Lanzhou University, Lanzhou, Gansu, China
| | - Qiwen Zheng
- School of Public Health, Lanzhou University, Lanzhou, Gansu, China
| | - Jiangyun Liu
- School of Public Health, Lanzhou University, Lanzhou, Gansu, China
| | - Shuwei Pei
- School of Public Health, Lanzhou University, Lanzhou, Gansu, China
| | - Zhen Yang
- Lanzhou Maternal and Child Health Care Hospital, Lanzhou, Gansu, China
| | - Rentong Chen
- School of Public Health, Lanzhou University, Lanzhou, Gansu, China
| | - Li Ma
- School of Public Health, Lanzhou University, Lanzhou, Gansu, China
| | - Jingping Niu
- School of Public Health, Lanzhou University, Lanzhou, Gansu, China
| | - Tian Tian
- School of Public Health, Lanzhou University, Lanzhou, Gansu, China
| |
Collapse
|
10
|
Song T, Tu W, Chen S, Fan M, Jia L, Wang B, Yang Y, Li S, Luo X, Su M, Guo J. Relationships between high-concentration toxic metals in sediment and evolution of microbial community structure and carbon-nitrogen metabolism functions under long-term stress perspective. ENVIRONMENTAL SCIENCE AND POLLUTION RESEARCH INTERNATIONAL 2024; 31:29763-29776. [PMID: 38592631 DOI: 10.1007/s11356-024-33150-y] [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: 11/06/2023] [Accepted: 03/27/2024] [Indexed: 04/10/2024]
Abstract
Microorganisms are highly sensitive to toxic metal pollution and play an important role in the material cycling and energy flow of the water ecosystem. Herein, 13 sediment samples from Junchong Reservoir (Guangxi Province, China) were collected in December 2021. The spatial distribution of pollution levels for toxic metals and the effects of toxic metals on the composition, functional characteristics, and metabolism of microorganisms were investigated. The results demonstrated that the area is a proximate area to industrial zones with severity of toxic metal pollution. Their mean concentrations of As, Cu, Zn, and Pb were up to 128.79 mg/kg, 57.62 mg/kg, 594.77 mg/kg, and 97.12 mg/kg respectively. There was a strong correlation between As, Cu, Zn, and Pb, with the highest correlation coefficient reaching 0.94. As the level of toxic metal pollution increases, the diversity and abundance of microorganisms gradually decrease. Compared to those with lower pollution levels, the Shannon index in regions with higher pollution levels decreases by up to 0.373, and the Chao index decreases by up to 143.507. However, the relative abundance of Bacteroidota, Patescibacteria, and Chloroflexi increased by 23%, 20%, and 5%, respectively, indicating their higher adaptability to toxic metals. Furthermore, microbial carbon and nitrogen metabolism were also affected by the presence of toxic metals. FAPROTAX analysis demonstrated an abundant reduction of ecologically functional groups associated with carbon and nitrogen transformations under high toxic metal pollution levels. KEGG pathway analysis indicated that carbon fixation and nitrogen metabolism pathways were inhibited with increasing toxic metal concentrations. These findings would contribute to a better understanding of the effects of toxic metal pollution on sediment microbial communities and function, shedding light on the ecological consequences of toxic metal contamination.
Collapse
Affiliation(s)
- Tao Song
- School of Environment and Resource, Southwest University of Science and Technology, Mianyang, 621000, People's Republic of China
| | - Weiguo Tu
- Sichuan Provincial Academy of Natural Resource Sciences, Sichuan, 610015, People's Republic of China
| | - Shu Chen
- School of Environment and Resource, Southwest University of Science and Technology, Mianyang, 621000, People's Republic of China.
| | - Min Fan
- School of Environment and Resource, Southwest University of Science and Technology, Mianyang, 621000, People's Republic of China
| | - Liang Jia
- School of Environment and Resource, Southwest University of Science and Technology, Mianyang, 621000, People's Republic of China
| | - Bin Wang
- School of Environment and Resource, Southwest University of Science and Technology, Mianyang, 621000, People's Republic of China
| | - Yuankun Yang
- School of Environment and Resource, Southwest University of Science and Technology, Mianyang, 621000, People's Republic of China
| | - Sen Li
- Sichuan Provincial Academy of Natural Resource Sciences, Sichuan, 610015, People's Republic of China
| | - Xuemei Luo
- Sichuan Provincial Academy of Natural Resource Sciences, Sichuan, 610015, People's Republic of China
| | - Mingyue Su
- School of Environment and Resource, Southwest University of Science and Technology, Mianyang, 621000, People's Republic of China
| | - Jingjing Guo
- Sichuan Provincial Academy of Natural Resource Sciences, Sichuan, 610015, People's Republic of China
| |
Collapse
|
11
|
Huang T, Liang X, Bao H, Ma G, Tang X, Luo H, Xiao X. Multi-omics analysis reveals the associations between altered gut microbiota, metabolites, and cytokines during pregnancy. mSystems 2024; 9:e0125223. [PMID: 38323818 PMCID: PMC10949498 DOI: 10.1128/msystems.01252-23] [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: 11/21/2023] [Accepted: 12/28/2023] [Indexed: 02/08/2024] Open
Abstract
For embryo implantation and fetal development, the maternal immune system undergoes dramatic changes. The mechanisms involved in inducing alterations of maternal immunity have not been fully clarified. Gut microbiome and metabolites were thought to influence the host immune response. During normal pregnancy, notable changes occur in the gut microbiota and metabolites. However, the relationship of these alterations to immune function during pregnancy remains unclear. In this study, we examined gut microbiota, fecal metabolites, plasma metabolites, and cytokines in pregnant women and non-pregnant women. Our findings revealed that, in comparison to non-pregnant women, pregnant women exhibit a significant increase in the relative abundance of Actinobacteriota and notable differences in metabolic pathways related to bile acid secretion. Furthermore, there was a marked reduction in pro-inflammatory cytokines levels in pregnant women. Correlation analyses indicated that these alterations in cytokines may be linked to specific gut bacteria and metabolites. Bacteria within the same microbial modules exhibited consistent effects on cytokines, suggesting that gut bacteria may function as functional groups. Mediation analysis further identified that certain bacteria might influence cytokines through metabolites, such as bile acids and arachidonic acid. Our findings propose potential biological connections between bacteria, metabolites, and immunity, which require further validation in future studies.IMPORTANCEA great number of studies have focused on diseases induced by intestinal microecological disorders and immune imbalances. However, the understanding of how intestinal microbiota interacts with immunity during normal pregnancy, which is fundamental to studying pathological pregnancies related to intestinal microbiota disturbances, has not been well elucidated. Our study employed multi-omics analysis to discover that changes in gut microbiota and metabolites during pregnancy can impact immune function. In addition, we identified several metabolites that may mediate the effect of gut microbes on plasma cytokines. Our study offered new insights into our understanding of the connections between the gut microbiome, metabolome, and the immune system during pregnancy.
Collapse
Affiliation(s)
- Ting Huang
- Department of Obstetrics and Gynecology, The First Affiliated Hospital of Jinan University, Guangzhou, China
| | - Xinyuan Liang
- Department of Obstetrics and Gynecology, The First Affiliated Hospital of Jinan University, Guangzhou, China
- Department of Obstetrics, The Second Clinical Medical College, Jinan University (Shenzhen People’s Hospital), Shenzhen, China
| | - Han Bao
- Department of Obstetrics and Gynecology, The First Affiliated Hospital of Jinan University, Guangzhou, China
| | - Guangyu Ma
- Department of Obstetrics and Gynecology, The First Affiliated Hospital of Jinan University, Guangzhou, China
| | - Xiaomei Tang
- Department of Obstetrics and Gynecology, The First Affiliated Hospital of Jinan University, Guangzhou, China
| | - Huijuan Luo
- Department of Obstetrics and Gynecology, The First Affiliated Hospital of Jinan University, Guangzhou, China
| | - Xiaomin Xiao
- Department of Obstetrics and Gynecology, The First Affiliated Hospital of Jinan University, Guangzhou, China
| |
Collapse
|
12
|
Song B, Xue Y, Yu Z, He Y, Liu Z, Fang J, Wang Y, Adams JM, Hu Y, Razavi BS. Toxic metal contamination effects mediated by hotspot intensity of soil enzymes and microbial community structure. JOURNAL OF HAZARDOUS MATERIALS 2024; 466:133556. [PMID: 38262314 DOI: 10.1016/j.jhazmat.2024.133556] [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: 08/05/2023] [Revised: 01/09/2024] [Accepted: 01/16/2024] [Indexed: 01/25/2024]
Abstract
Metal contamination from mine waste is a widespread threat to soil health. Understanding of the effects of toxic metals from mine waste on the spatial patterning of rhizosphere enzymes and the rhizosphere microbiome remains elusive. Using zymography and high-throughput sequencing, we conducted a mesocosm experiment with mine-contaminated soil, to compare the effects of different concentrations of toxic metals on exoenzyme kinetics, microbial communities, and maize growth. The negative effects of toxic metals exerted their effects largely on enzymatic hotspots in the rhizosphere zone, affecting both resistance and the area of hotspots. This study thus revealed the key importance of such hotspots in overall changes in soil enzymatic activity under metal toxicity. Statistical and functional guild analysis suggested that these enzymatic changes and associated microbial community changes were involved in the inhibition of maize growth. Keystone species of bacteria displayed negative correlations with toxic metals and positive correlations with the activity of enzymatic hotspots, suggesting a potential role. This study contributes to an emerging paradigm, that changes both in the activity of soil enzymes and soil biota - whether due to substrate addition or in this case toxicity - are largely confined to enzymatic hotspot areas.
Collapse
Affiliation(s)
- Bin Song
- School of Geography and Ocean Science, Nanjing University, Nanjing 210023, China; University of Helsinki, Department of Forest Sciences, Helsinki, Finland
| | - Yue Xue
- School of Geography and Ocean Science, Nanjing University, Nanjing 210023, China
| | - Zhenhua Yu
- State Key Laboratory of Black Soils Conservation and Utilization, Northeast Institute of Geography and Agroecology, Chinese Academy of Sciences, 138 Haping Road, Harbin 150081, China
| | - Yucheng He
- School of Geography and Ocean Science, Nanjing University, Nanjing 210023, China
| | - Zihao Liu
- School of Geography and Ocean Science, Nanjing University, Nanjing 210023, China
| | - Jie Fang
- School of Geography and Ocean Science, Nanjing University, Nanjing 210023, China
| | - Yuchao Wang
- Shaanxi Engineering Research Centre for Conservation and Utilization of Botanical Resources, Xi'an Botanical Garden of Shaanxi Province (Institute of Botany of Shaanxi Province), Xi'an 710061, China
| | - Jonathan M Adams
- School of Geography and Ocean Science, Nanjing University, Nanjing 210023, China.
| | - Youning Hu
- School of Biological and Environmental Engineering, Xi'an University, Xi'an 710065, China.
| | - Bahar S Razavi
- Department of Soil and Plant Microbiome, Institute of Phytopathology, Christian-Albrechts-University of Kiel, Kiel 24118, Germany
| |
Collapse
|
13
|
Li M, Yao J, Wang Y, Sunahara G, Duran R, Liu J, Liu B, Liu H, Ma B, Li H, Pang W, Cao Y. Contrasting response strategies of sulfate-reducing bacteria in a microbial consortium to As 3+ stress under anaerobic and aerobic environments. JOURNAL OF HAZARDOUS MATERIALS 2024; 465:133052. [PMID: 38056257 DOI: 10.1016/j.jhazmat.2023.133052] [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: 09/22/2023] [Revised: 11/05/2023] [Accepted: 11/19/2023] [Indexed: 12/08/2023]
Abstract
The sulfate-reducing efficiency of sulfate-reducing bacteria (SRB) is strongly influenced by the presence of oxygen, but little is known about the oxygen tolerance mechanism of SRB and the effect of oxygen on the metalliferous immobilization by SRB. The performance evaluation, identification of bioprecipitates, and microbial and metabolic process analyses were used here to investigate the As3+ immobilization mechanisms and survival strategies of the SRB1 consortium under different oxygen-containing environments. Results indicated that the sulfate reduction efficiency was significantly decreased under aerobic (47.37%) compared with anaerobic conditions (66.72%). SEM analysis showed that under anaerobic and aerobic conditions, the morphologies of mineral particles were different, whereas XRD and XPS analyses showed that the most of As3+ bioprecipitates under both conditions were arsenic minerals such as AsS and As4S4. The abundances of Clostridium_sensu_stricto_1, Desulfovibrio, and Thiomonas anaerobic bacteria were significantly higher under anaerobic than aerobic conditions, whereas the aerobic Pseudomonas showed an opposite trend. Network analysis revealed that Desulfovibrio was positively correlated with Pseudomonas. Metabolic process analysis confirmed that under aerobic conditions the SRB1 consortium generated additional extracellular polymeric substances (rich in functionalities such as Fe-O, SO, CO, and -OH) and the anti-oxidative enzyme superoxide dismutase to resist As3+ stress and oxygen toxicity. New insights are provided here into the oxygen tolerance and detoxification mechanism of SRB and provide a basis for the future remediation of heavy metal(loid)-contaminated environments.
Collapse
Affiliation(s)
- Miaomiao Li
- Research Center of Environmental Science and Engineering, China University of Geosciences (Beijing), 29 Xueyuan Road, Haidian District, Beijing 100083, China
| | - Jun Yao
- Research Center of Environmental Science and Engineering, China University of Geosciences (Beijing), 29 Xueyuan Road, Haidian District, Beijing 100083, China.
| | - Yating Wang
- Research Center of Environmental Science and Engineering, China University of Geosciences (Beijing), 29 Xueyuan Road, Haidian District, Beijing 100083, China
| | - Geoffrey Sunahara
- Research Center of Environmental Science and Engineering, China University of Geosciences (Beijing), 29 Xueyuan Road, Haidian District, Beijing 100083, China; Department of Natural Resource Sciences, McGill University, 21111 Lakeshore Drive, Ste-Anne-de-Bellevue, Quebec H9X 3V9, Canada
| | - Robert Duran
- Université de Pau et des Pays de l'Adour, UPPA/E2S, IPREM CNRS, 5254 Pau, France
| | - Jianli Liu
- Research Center of Environmental Science and Engineering, China University of Geosciences (Beijing), 29 Xueyuan Road, Haidian District, Beijing 100083, China
| | - Bang Liu
- Research Center of Environmental Science and Engineering, China University of Geosciences (Beijing), 29 Xueyuan Road, Haidian District, Beijing 100083, China; Université de Pau et des Pays de l'Adour, UPPA/E2S, IPREM CNRS, 5254 Pau, France
| | - Houquan Liu
- Research Center of Environmental Science and Engineering, China University of Geosciences (Beijing), 29 Xueyuan Road, Haidian District, Beijing 100083, China
| | - Bo Ma
- Research Center of Environmental Science and Engineering, China University of Geosciences (Beijing), 29 Xueyuan Road, Haidian District, Beijing 100083, China
| | - Hao Li
- Research Center of Environmental Science and Engineering, China University of Geosciences (Beijing), 29 Xueyuan Road, Haidian District, Beijing 100083, China
| | - Wancheng Pang
- Research Center of Environmental Science and Engineering, China University of Geosciences (Beijing), 29 Xueyuan Road, Haidian District, Beijing 100083, China
| | - Ying Cao
- Research Center of Environmental Science and Engineering, China University of Geosciences (Beijing), 29 Xueyuan Road, Haidian District, Beijing 100083, China
| |
Collapse
|
14
|
Xu L, Wang G, Zhang S, Li T, Xu X, Gong G, Zhou W, Pu Y, Jia Y, Li Y, Long L. Inhibition of high sulfur on functional microorganisms and genes in slightly contaminated soil by cadmium and chromium. ENVIRONMENTAL POLLUTION (BARKING, ESSEX : 1987) 2024; 344:123421. [PMID: 38253166 DOI: 10.1016/j.envpol.2024.123421] [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: 09/12/2023] [Revised: 11/21/2023] [Accepted: 01/19/2024] [Indexed: 01/24/2024]
Abstract
It is generally accepted that sulfur can passivate the bioavailability of heavy metals in soil, but it is not clear whether high sulfur in cadmium (Cd) and chromium (Cr) contaminated soil has negative effect on soil microbial community and ecological function. In this study, total sulfur (TS) inhibited the Chao 1, Shannon, Phylogenetic diversity (Pd) of bacterial and Pd of fungi in slightly contaminated soil by Cd and Cr around pyrite. TS, total potassium, pH, total chromium, total cadmium, total nitrogen, soil organic matter were the predominant factors for soil microbial community; the contribution of TS in shaping bacterial and fungal communities ranked at first and fifth, respectively. Compared with the low sulfur group, the abundance of sulfur sensitive microorganisms Gemmatimonas, Pseudolabrys, MND1, and Schizothecium were decreased by 68.79-97.22% (p < 0.01) at high sulfur one; the carbon fixation, nitrogen cycling, phosphorus cycling and resistance genes abundance were significantly lower (p < 0.01) at the latter. Such variations were strongly and closely correlated to the suppression of energy metabolism (M00009, M00011, M00086) and carbon fixation (M00173, M00376) functional module genes abundance in the high sulfur group. Collectively, high sulfur significantly suppressed the abundances of functional microorganisms and functional genes in slightly contaminated soil with Cd and Cr, possibly through inhibition of energy metabolism and carbon fixation of functional microorganisms. This study provided new insights into the environmental behavior of sulfur in slightly contaminated soil with Cd and Cr.
Collapse
Affiliation(s)
- Longfei Xu
- College of Environmental Sciences, Sichuan Agricultural University, Wenjiang, 611130, China.
| | - Guiyin Wang
- College of Environmental Sciences, Sichuan Agricultural University, Wenjiang, 611130, China; Sichuan Provincial Key Laboratory of Soil Environmental Protection, Wenjiang, 611130, China
| | - Shirong Zhang
- College of Environmental Sciences, Sichuan Agricultural University, Wenjiang, 611130, China; Sichuan Provincial Key Laboratory of Soil Environmental Protection, Wenjiang, 611130, China.
| | - Ting Li
- College of Resources, Sichuan Agricultural University, Wenjiang, 611130, China
| | - Xiaoxun Xu
- College of Environmental Sciences, Sichuan Agricultural University, Wenjiang, 611130, China; Sichuan Provincial Key Laboratory of Soil Environmental Protection, Wenjiang, 611130, China
| | - Guoshu Gong
- College of Agronomy, Sichuan Agricultural University, Wenjiang, 611130, China
| | - Wei Zhou
- College of Resources, Sichuan Agricultural University, Wenjiang, 611130, China
| | - Yulin Pu
- College of Resources, Sichuan Agricultural University, Wenjiang, 611130, China
| | - Yongxia Jia
- College of Resources, Sichuan Agricultural University, Wenjiang, 611130, China
| | - Yun Li
- College of Resources, Sichuan Agricultural University, Wenjiang, 611130, China
| | - Lulu Long
- College of Environmental Sciences, Sichuan Agricultural University, Wenjiang, 611130, China
| |
Collapse
|
15
|
Wang N, Wang X, Chen L, Liu H, Wu Y, Huang M, Fang L. Biological roles of soil microbial consortium on promoting safe crop production in heavy metal(loid) contaminated soil: A systematic review. THE SCIENCE OF THE TOTAL ENVIRONMENT 2024; 912:168994. [PMID: 38043809 DOI: 10.1016/j.scitotenv.2023.168994] [Citation(s) in RCA: 1] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 09/14/2023] [Revised: 11/08/2023] [Accepted: 11/27/2023] [Indexed: 12/05/2023]
Abstract
Heavy metal(loid) (HM) pollution of agricultural soils is a growing global environmental concern that affects planetary health. Numerous studies have shown that soil microbial consortia can inhibit the accumulation of HMs in crops. However, our current understanding of the effects and mechanisms of inhibition is fragmented. In this review, we summarise extant studies and knowledge to provide a comprehensive view of HM toxicity on crop growth and development at the biological, cellular and the molecular levels. In a meta-analysis, we find that microbial consortia can improve crop resistance and reduce HM uptake, which in turn promotes healthy crop growth, demonstrating that microbial consortia are more effective than single microorganisms. We then review three main mechanisms by which microbial consortia reduce the toxicity of HMs to crops and inhibit HMs accumulation in crops: 1) reducing the bioavailability of HMs in soil (e.g. biosorption, bioaccumulation and biotransformation); 2) improving crop resistance to HMs (e.g. facilitating the absorption of nutrients); and 3) synergistic effects between microorganisms. Finally, we discuss the prospects of microbial consortium applications in simultaneous crop safety production and soil remediation, indicating that they play a key role in sustainable agricultural development, and conclude by identifying research challenges and future directions for the microbial consortium to promote safe crop production.
Collapse
Affiliation(s)
- Na Wang
- State Key Laboratory of Soil Erosion and Dryland Farming on the Loess Plateau, The Research Center of Soil and Water Conservation and Ecological Environment, CAS and MOE, Yangling 712100, China; State Key Laboratory of Soil Erosion and Dryland Farming on the Loess Plateau, Institute of Soil and Water Conservation, CAS and MWR, Yangling 712100, China; University of Chinese Academy of Sciences, Beijing 100049, China
| | - Xiangxiang Wang
- College of Natural Resources and Environment, Northwest A&F University, Yangling 712100, China
| | - Li Chen
- College of Natural Resources and Environment, Northwest A&F University, Yangling 712100, China
| | - Hongjie Liu
- College of Natural Resources and Environment, Northwest A&F University, Yangling 712100, China
| | - Yanfang Wu
- Palm Eco-Town Development Co., Ltd., Zhengzhou 450000, China
| | - Min Huang
- Key Laboratory of Green Utilization of Critical Nonmetallic Mineral Resources, Ministry of Education, Wuhan University of Technology, Wuhan 430070, China
| | - Linchuan Fang
- State Key Laboratory of Soil Erosion and Dryland Farming on the Loess Plateau, The Research Center of Soil and Water Conservation and Ecological Environment, CAS and MOE, Yangling 712100, China; State Key Laboratory of Soil Erosion and Dryland Farming on the Loess Plateau, Institute of Soil and Water Conservation, CAS and MWR, Yangling 712100, China; Key Laboratory of Green Utilization of Critical Nonmetallic Mineral Resources, Ministry of Education, Wuhan University of Technology, Wuhan 430070, China.
| |
Collapse
|
16
|
Luo XF, Liu MY, Tian ZX, Xiao Y, Zeng P, Han ZY, Zhou H, Gu JF, Liao BH. Physiological tolerance of black locust (Robinia pseudoacacia L.) and changes of rhizospheric bacterial communities in response to Cd and Pb in the contaminated soil. ENVIRONMENTAL SCIENCE AND POLLUTION RESEARCH INTERNATIONAL 2024; 31:2987-3003. [PMID: 38079046 DOI: 10.1007/s11356-023-31260-7] [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: 08/07/2023] [Accepted: 11/22/2023] [Indexed: 01/18/2024]
Abstract
Woody plants possess great potential for phytoremediation of heavy metal-contaminated soil. A pot trial was conducted to study growth, physiological response, and Cd and Pb uptake and distribution in black locust (Robinia pseudoacacia L.), as well as the rhizosphere bacterial communities in Cd and Pb co-contaminated soil. The results showed that R. pseudoacacia L. had strong physiological regulation ability in response to Cd and Pb stress in contaminated soil. The total chlorophyll, malondialdehyde (MDA), soluble protein, and sulfhydryl contents, as well as antioxidant enzymes (superoxide dismutase, peroxidase, catalase) activities in R. pseudoacacia L. leaves under the 40 mg·kg-1 Cd and 1000 mg·kg-1 Pb co-contaminated soil were slightly altered. Cd uptake in R. pseudoacacia L. roots and stems increased, while the Pb content in the shoots of R. pseudoacacia L. under the combined Cd and Pb treatments decreased in relative to that in the single Pb treatments. The bacterial α-diversity indices (e.g., Sobs, Shannon, Simpson, Ace, and Chao) of R. pseudoacacia L. rhizosphere soil under Cd and Pb stress were changed slightly relative to the CK treatment. However, Cd and Pb stress could significantly (p < 0.05) alter the rhizosphere soil microbial communities. According to heat map and LEfSe (Linear discriminant analysis Effect Size) analysis, Bacillus, Sphingomonas, Terrabacter, Roseiflexaceae, Paenibacillus, and Myxococcaceae at the genus level were notably (p < 0.05) accumulated in the Cd- and/or Pb-contaminated soil. Furthermore, the MDA content was notably (p < 0.05) negatively correlated with the relative abundances of Isosphaeraceae, Gaiellales, and Gemmatimonas. The total biomass of R. pseudoacacia L. was positively (p < 0.05) correlated with the relative abundances of Xanthobacteraceae and Vicinamibacreraceae. Network analysis showed that Cd and Pb combined stress might enhance the modularization of bacterial networks in the R. pseudoacacia L. rhizosphere soil. Thus, the assembly of the soil bacterial communities in R. pseudoacacia L. rhizosphere may improve the tolerance of plants in response to Cd and/or Pb stress.
Collapse
Affiliation(s)
- Xu-Feng Luo
- College of Environmental Science and Engineering, Central South University of Forestry and Technology, Changsha, 410004, China
| | - Meng-Yu Liu
- College of Environmental Science and Engineering, Central South University of Forestry and Technology, Changsha, 410004, China
| | - Zi-Xi Tian
- College of Environmental Science and Engineering, Central South University of Forestry and Technology, Changsha, 410004, China
| | - Yue Xiao
- College of Environmental Science and Engineering, Central South University of Forestry and Technology, Changsha, 410004, China
| | - Peng Zeng
- College of Environmental Science and Engineering, Central South University of Forestry and Technology, Changsha, 410004, China.
- Hunan Engineering Laboratory for Control of Rice Quality and Safety, Central South University of Forestry and Technology, Changsha, 410004, China.
| | - Zi-Yu Han
- Technical Centre for Soil, Agriculture and Rural Ecology and Environment, Ministry of Ecology and Environment, Beijing, 100012, China
| | - Hang Zhou
- College of Environmental Science and Engineering, Central South University of Forestry and Technology, Changsha, 410004, China
- Hunan Engineering Laboratory for Control of Rice Quality and Safety, Central South University of Forestry and Technology, Changsha, 410004, China
| | - Jiao-Feng Gu
- College of Environmental Science and Engineering, Central South University of Forestry and Technology, Changsha, 410004, China
- Hunan Engineering Laboratory for Control of Rice Quality and Safety, Central South University of Forestry and Technology, Changsha, 410004, China
| | - Bo-Han Liao
- College of Environmental Science and Engineering, Central South University of Forestry and Technology, Changsha, 410004, China
- Hunan Engineering Laboratory for Control of Rice Quality and Safety, Central South University of Forestry and Technology, Changsha, 410004, China
| |
Collapse
|
17
|
Wang A, He M, Liu H, Ouyang W, Liu X, Li Q, Lin C, Liu X. Distribution heterogeneity of sediment bacterial community in the river-lake system impacted by nonferrous metal mines: Diversity, composition and co-occurrence patterns. ENVIRONMENTAL POLLUTION (BARKING, ESSEX : 1987) 2023; 338:122715. [PMID: 37821043 DOI: 10.1016/j.envpol.2023.122715] [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: 07/26/2023] [Revised: 10/03/2023] [Accepted: 10/07/2023] [Indexed: 10/13/2023]
Abstract
Metal(loid) pollution caused by mining activities can affect microbial communities. However, knowledge of the diversity, composition, and co-occurrence patterns of bacterial communities in aquatic systems impacted by nonferrous metal mines. Here, the metal(loid) contents and bacterial communities in sediments from the Zijiang River (tributary to mainstream) to Dongting Lake were investigated by geochemical and molecular biology methods. The results indicated that the river sediments had lower pH and higher ecological risk of metal(loid)s than the lake sediment. The diversity and composition of bacterial communities in river sediments significantly (p < 0.05) differed from those in lake sediments, showing distributional heterogeneity. The biomarkers of tributary, mainstream, and lake sediments were mainly members of Deltaproteobacteria, Firmicutes, and Nitrospirae, respectively, reflecting species sorting in different habitats. Multivariate statistical analysis demonstrated that total and bioavailable Sb, As, and Zn were positively correlated with bacterial community richness. pH, TOC, TN, and Zn were crucial factors in shaping the distribution difference of bacterial communities. Environment-bacteria network analysis indicated that pH, SO42-, and total and bioavailable As and Sb greatly influenced the bacterial composition at the genus level. Bacteria-bacteria network analysis manifested that the co-occurrence network in mainstream sediments with a higher risk of metal(loid) pollution exhibited higher modularity and connectivity, which might be the survival mechanism for bacterial communities adapted to metal(loid) pollution. This study can provide a theoretical basis for understanding the ecological status of aquatic systems.
Collapse
Affiliation(s)
- Aihua Wang
- State Key Laboratory of Water Environment Simulation, School of Environment, Beijing Normal University, Beijing, 100875, China
| | - Mengchang He
- State Key Laboratory of Water Environment Simulation, School of Environment, Beijing Normal University, Beijing, 100875, China
| | - Huiji Liu
- State Key Laboratory of Water Environment Simulation, School of Environment, Beijing Normal University, Beijing, 100875, China
| | - Wei Ouyang
- State Key Laboratory of Water Environment Simulation, School of Environment, Beijing Normal University, Beijing, 100875, China; Advanced Interdisciplinary Institute of Environment and Ecology, Beijing Normal University, Zhuhai, 519087, China.
| | - Xinyi Liu
- State Key Laboratory of Water Environment Simulation, School of Environment, Beijing Normal University, Beijing, 100875, China
| | - Qin Li
- State Key Laboratory of Water Environment Simulation, School of Environment, Beijing Normal University, Beijing, 100875, China
| | - Chunye Lin
- State Key Laboratory of Water Environment Simulation, School of Environment, Beijing Normal University, Beijing, 100875, China
| | - Xitao Liu
- State Key Laboratory of Water Environment Simulation, School of Environment, Beijing Normal University, Beijing, 100875, China
| |
Collapse
|
18
|
Chen Y, Zhou X, Wang Z, Su X, Liu F, Tian X, Ye Y, Shao Y, Yuan Z. Cd contamination determined assembly processes and network stability of AM fungal communities in an urban green space ecosystem. THE SCIENCE OF THE TOTAL ENVIRONMENT 2023; 899:166372. [PMID: 37598964 DOI: 10.1016/j.scitotenv.2023.166372] [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: 05/28/2023] [Revised: 07/24/2023] [Accepted: 08/15/2023] [Indexed: 08/22/2023]
Abstract
The effects of cadmium (Cd) contamination on the assembly mechanism and co-occurrence patterns of arbuscular mycorrhizal (AM) fungal communities remain unclear, especially in urban green spaces. This study sequenced AM fungal communities in greenbelt soils in Zhengzhou (China). The effects of Cd contamination on the AM fungal diversity, community assembly processes, and co-occurrence patterns were explored. We found that (1) an increase in Cd contamination changed the community composition, which resulted in a significant improvement in the diversity of specialists of AM fungi and a significant decrease in the diversity of generalists. (2) Deterministic processes dominated the community assembly of specialists and stochastic processes dominated the community assembly of generalists. (3) Specialists played a more important role than generalists in maintaining the stability of AM fungal networks under Cd contamination. Overall, Cd contamination affected the ecological processes of AM fungi in urban green space ecosystems. However, the effects on the assembly processes and network stability of different AM fungi taxa (specialists and generalists) differed significantly. The present study provides deeper insight into the effect of Cd contamination on the ecological processes of AMF and is helpful in further exploring the ecological risk of Cd contamination in urban green spaces.
Collapse
Affiliation(s)
- Yun Chen
- College of Life Sciences, Henan Agricultural University, No.63 Agricultural Road, Zhengzhou 450002, China
| | - Xiayan Zhou
- College of Life Sciences, Henan Agricultural University, No.63 Agricultural Road, Zhengzhou 450002, China
| | - Zhao Wang
- College of Life Sciences, Henan Agricultural University, No.63 Agricultural Road, Zhengzhou 450002, China
| | - Xiao Su
- College of Life Sciences, Henan Agricultural University, No.63 Agricultural Road, Zhengzhou 450002, China
| | - Fengqin Liu
- College of Life Sciences, Henan Agricultural University, No.63 Agricultural Road, Zhengzhou 450002, China
| | - Xiangyu Tian
- College of Life Sciences, Henan Agricultural University, No.63 Agricultural Road, Zhengzhou 450002, China
| | - Yongzhong Ye
- College of Life Sciences, Henan Agricultural University, No.63 Agricultural Road, Zhengzhou 450002, China
| | - Yizhen Shao
- College of Life Sciences, Henan Agricultural University, No.63 Agricultural Road, Zhengzhou 450002, China.
| | - Zhiliang Yuan
- College of Life Sciences, Henan Agricultural University, No.63 Agricultural Road, Zhengzhou 450002, China.
| |
Collapse
|
19
|
Jiang R, Wang M, Chen W. Heavy metal pollution triggers a shift from bacteria-based to fungi-based soil micro-food web: Evidence from an abandoned mining-smelting area. JOURNAL OF HAZARDOUS MATERIALS 2023; 459:132164. [PMID: 37598513 DOI: 10.1016/j.jhazmat.2023.132164] [Citation(s) in RCA: 1] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 05/23/2023] [Revised: 07/13/2023] [Accepted: 07/25/2023] [Indexed: 08/22/2023]
Abstract
Heavy metals pose significant threats to soil biota, ultimately disrupting soil micro-food web. However, no studies have yet elucidated the impact of heavy metals on soil micro-food web. In this study, we explored the response of bacteria, fungi, nematodes, and soil micro-food web along a gradient of heavy metals in an abandoned smelting-mining area. We found that bacteria responded strongly to heavy metals, whereas fungi showed greater resistance and tolerance. Nematodes responses were less apparent. With the increasing levels of heavy metal pollution, the importance of heavy metal-tolerant organisms in micro-food webs increased significantly. For instance, the keystone bacteria in soil micro-food web shifted from copiotrophic to oligotrophic types, while the keystone nematodes shifted from to bacterial-feeding (e.g., Eucephalobus) to fungal-feeding species (e.g., Ditylenchus). Additionally, elevated heavy metal concentrations increased the proportion of fungi (e.g., Mortierellomycota), intensifying their interactions with bacteria and nematodes and causing a shift from bacteria-based to fungi-based soil micro-food web. Furthermore, heavy metal contamination induced a more complex and stable soil micro-food web. Overall, we highlight the changes in soil micro-food web as a mechanism for coping with heavy metal stress. Our study provides valuable insights into how heavy metal pollution can cause shifts in soil micro-food webs and has critical implications for enhancing our understanding of the ecological consequences of environmental pollution at the ecosystem level.
Collapse
Affiliation(s)
- Rong Jiang
- State Key Laboratory of Urban and Regional Ecology, Research Centre for Eco-environmental Sciences, Chinese Academy of Sciences, Beijing 100085, China
| | - Meie Wang
- State Key Laboratory of Urban and Regional Ecology, Research Centre for Eco-environmental Sciences, Chinese Academy of Sciences, Beijing 100085, China; University of Chinese Academy of Sciences, Beijing 100049,China.
| | - Weiping Chen
- State Key Laboratory of Urban and Regional Ecology, Research Centre for Eco-environmental Sciences, Chinese Academy of Sciences, Beijing 100085, China; University of Chinese Academy of Sciences, Beijing 100049,China
| |
Collapse
|
20
|
Han F, An SY, Liu L, Wang Y, Ma LQ, Yang L. Sulfoaluminate cement-modified straw biochar as a soil amendment to inhibit Pb-Cd mobility in the soil-romaine lettuce system. CHEMOSPHERE 2023; 332:138891. [PMID: 37164200 DOI: 10.1016/j.chemosphere.2023.138891] [Citation(s) in RCA: 5] [Impact Index Per Article: 5.0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 01/17/2023] [Revised: 05/05/2023] [Accepted: 05/06/2023] [Indexed: 05/12/2023]
Abstract
Biochar is widely used to remediate soil polluted by potentially toxic elements (PTEs), while the effect of a new type of biochar, obtained from modified cement material, on the mobility of Pb and Cd in the soil-plant system is still unknown. In this study, soils doped with sulfoaluminate cement modified biochar (SBC) were characterized using a series of approaches including FTIR, XRD, and XPS, and combined with pot experiments to explore its synergistic effects on the speciation transformation, accumulation, and mobility of both Pb and Cd in a soil-romaine lettuce system in heavily contaminated soils containing 500 mg·kg-1-Pb and 3 mg·kg-1-Cd. The results showed that SBC effectively immobilized Pb and Cd in the soil and that this was achieved through cation exchange, complexation, and gel encapsulation. Moreover, SBC also changed the soil physicochemical properties and indirectly affected the speciation transformation of Pb and Cd. FTIR and XRD analyses revealed that the groups such as -OH, -COOH, SO42-, and SiO32-introduced by SBC stimulated the conversion from the soluble to the residual state of Pb. XPS analysis indicated that, the deviation of the C-O-C, C-OOH, and O-CO peak and the increased in area suggested that organic groups in the SBC were engaged in the immobilization mechanism of Pb and Cd. The transformation of residual Cd in other extractable fractions might be due to either enhanced soil reducibility or competitive adsorption with Pb. In 5% SBC soil, Pb was reduced by 27.69% and 64.84%, and Cd was reduced by 20.45% and 35.87% for shoots and roots of romaine lettuce, respectively. SBC showed a significantly positive correlation with SOM, while SOM showed a highly significantly negative correlation with both Pb and Cd in the roots. In summary, SBC can be strongly recommended as a green amendment to remediate Pb-Cd contaminated soil and to inhibit the mobility to plant.
Collapse
Affiliation(s)
- Feng Han
- School of Water and Environment, Chang' an University, No.126 Yanta Road, Xi'an, 710054, Shaanxi, China; Key Laboratory of Subsurface Hydrology and Ecological Effects of Arid Region of the Ministry of Education, Chang' an University, No.126 Yanta Road, Xi'an, 710054, Shaanxi, China.
| | - Shu-Yu An
- School of Water and Environment, Chang' an University, No.126 Yanta Road, Xi'an, 710054, Shaanxi, China; Key Laboratory of Subsurface Hydrology and Ecological Effects of Arid Region of the Ministry of Education, Chang' an University, No.126 Yanta Road, Xi'an, 710054, Shaanxi, China
| | - Lei Liu
- School of Water and Environment, Chang' an University, No.126 Yanta Road, Xi'an, 710054, Shaanxi, China; Key Laboratory of Subsurface Hydrology and Ecological Effects of Arid Region of the Ministry of Education, Chang' an University, No.126 Yanta Road, Xi'an, 710054, Shaanxi, China
| | - Ye Wang
- School of Water and Environment, Chang' an University, No.126 Yanta Road, Xi'an, 710054, Shaanxi, China; Key Laboratory of Subsurface Hydrology and Ecological Effects of Arid Region of the Ministry of Education, Chang' an University, No.126 Yanta Road, Xi'an, 710054, Shaanxi, China
| | - Li-Qi Ma
- School of Water and Environment, Chang' an University, No.126 Yanta Road, Xi'an, 710054, Shaanxi, China; Key Laboratory of Subsurface Hydrology and Ecological Effects of Arid Region of the Ministry of Education, Chang' an University, No.126 Yanta Road, Xi'an, 710054, Shaanxi, China
| | - Liu Yang
- School of Water and Environment, Chang' an University, No.126 Yanta Road, Xi'an, 710054, Shaanxi, China; Key Laboratory of Subsurface Hydrology and Ecological Effects of Arid Region of the Ministry of Education, Chang' an University, No.126 Yanta Road, Xi'an, 710054, Shaanxi, China
| |
Collapse
|
21
|
Li H, Yao J, Min N, Sunahara G, Duran R. New insights on the effect of non-ferrous metal mining and smelting activities on microbial activity characteristics and bacterial community structure. JOURNAL OF HAZARDOUS MATERIALS 2023; 453:131301. [PMID: 37043852 DOI: 10.1016/j.jhazmat.2023.131301] [Citation(s) in RCA: 9] [Impact Index Per Article: 9.0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 01/31/2023] [Revised: 03/23/2023] [Accepted: 03/24/2023] [Indexed: 05/03/2023]
Abstract
Mining and smelting activities have brought potentially serious heavy metal(loid)s pollution to their surrounding locale. However, studies on microbial metabolic activities, community structure, and adaptation in soils proximal to non-ferrous metal mining and smelting areas are still lacking. Here the effects of biotic and abiotic characteristics of soil taken from sites surrounding inactive and active non-ferrous metal mine smelting facilities on microbial enzyme activity, microcalorimetry, and high-throughput sequencing of 16S rRNA gene barcoding were studied. Data indicated that the soils were heavily polluted by toxic metal(loid)s, of which As and Cd were the main contaminants. Microbial acid phosphatase activity and microcalorimetric total heat value were sensitive metabolic indicators in the studied areas. Actinobacteriota had the highest relative abundance, followed by Proteobacteria, Chloroflexi, and Acidobacteria. Microbial metabolic activity, bacterial community structure and phenotype varied between inactive and active sites (p < 0.05). Such analyses indicated that electrical conductivity, total As, Cu, and Mn contents, and bioavailable As, Cu, Cd, and Mn concentrations were key factors determining microbial activities, bacterial community structure, and phenotypes. Knowledge of microbial adaptation to heavy metal stressors is important for better understanding the aerial transfer of fugitive heavy metal(loid)s (and possibly microbes) and for designing future strategies for improved soil bioremediation.
Collapse
Affiliation(s)
- Hao Li
- School of Water Resources and Environment, Research Center of Environmental Science and Engineering, China University of Geosciences (Beijing), 29 Xueyuan Road, Haidian District, 100083, Beijing, China
| | - Jun Yao
- School of Water Resources and Environment, Research Center of Environmental Science and Engineering, China University of Geosciences (Beijing), 29 Xueyuan Road, Haidian District, 100083, Beijing, China.
| | - Ning Min
- School of Water Resources and Environment, Research Center of Environmental Science and Engineering, China University of Geosciences (Beijing), 29 Xueyuan Road, Haidian District, 100083, Beijing, China
| | - Geoffrey Sunahara
- School of Water Resources and Environment, Research Center of Environmental Science and Engineering, China University of Geosciences (Beijing), 29 Xueyuan Road, Haidian District, 100083, Beijing, China; Department of Natural Resource Sciences, McGill University, 21111 Lakeshore Drive, Ste-Anne-de-Bellevue, Quebec H9X 3V9, Canada
| | - Robert Duran
- School of Water Resources and Environment, Research Center of Environmental Science and Engineering, China University of Geosciences (Beijing), 29 Xueyuan Road, Haidian District, 100083, Beijing, China; Universite de Pau et des Pays de l'Adour, E2S-UPPA, IPREM 5254, BP 1155, 64013 Pau Cedex, France
| |
Collapse
|
22
|
Wang J, Chen Y, Du W, Yang S, He Y, Zhao X, Sun W, Chen Q. Insights into the responses of fungal taxonomy and function to different metal(loid) contamination levels. THE SCIENCE OF THE TOTAL ENVIRONMENT 2023; 877:162931. [PMID: 36934934 DOI: 10.1016/j.scitotenv.2023.162931] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Subscribe] [Scholar Register] [Received: 01/24/2023] [Revised: 03/07/2023] [Accepted: 03/14/2023] [Indexed: 05/06/2023]
Abstract
Fungi possess prominent tolerance and detoxification capacities in highly metal(loid)-polluted systems, yet little is known about their responding behaviors under different contamination conditions. Here, we systematically investigated the structure and function profiles of fungal communities in an abandoned reservoir mainly contaminated by multiple metal(loid)s such as Al, Be, Cd, Co, Cr, and Cu. This abandoned reservoir consisted of three distinct zones, i.e., Zone I with the shortest deprecation time and the highest metal(loid) contamination; Zone II with the medium deprecation time and medium metal(loid) contamination; and Zone III with the longest abandonment time and the lowest metal(loid)contamination. The lowest pH and the highest contents of OM, TN, and TP were also observed for the high-contamination Zone I, followed by the moderate-contamination Zone II and the low-contamination Zone III. Fungal biodiversity was found to be robust and dominated by many endurable genera in Zone I, and notable cooperative relationships among fungal species facilitated their viability and prosperity under severe metal(loid) contaminations. Differently, the lowest biodiversity and fragile co-occurrence network were identified in Zone II. As metal(loid) contaminations reduced from Zone I to Zone III, dominant fungal functions gradually changed from undefined saprotroph guild to parasites or pathogens of plant-animal (i.e. animal pathogen, endophyte, and plant pathogen). Moreover, metal(loid)s combined with physicochemical properties jointly mediated the fungal taxonomic and functional responses to different metal(loid) contamination levels. Overall, this study not only broadens the understanding of taxonomic and functional repertoires of fungal communities under different metal(loid) contaminated conditions, but also highlights the crucial contributions of specific fungi to bioremediation and management in varying metal(loid)-polluted environments.
Collapse
Affiliation(s)
- Jiawen Wang
- School of Environment and Energy, Peking University Shenzhen Graduate School, Shenzhen 518055, China; College of Environmental Sciences and Engineering, Peking University, Key Laboratory of Water and Sediment Sciences, Ministry of Education, Beijing 100871, China.
| | - Ying Chen
- School of Environment and Energy, Peking University Shenzhen Graduate School, Shenzhen 518055, China; College of Environmental Sciences and Engineering, Peking University, Key Laboratory of Water and Sediment Sciences, Ministry of Education, Beijing 100871, China
| | - Wenran Du
- School of Environment and Energy, Peking University Shenzhen Graduate School, Shenzhen 518055, China; College of Environmental Sciences and Engineering, Peking University, Key Laboratory of Water and Sediment Sciences, Ministry of Education, Beijing 100871, China
| | - Shanqing Yang
- College of Environmental Sciences and Engineering, Peking University, Key Laboratory of Water and Sediment Sciences, Ministry of Education, Beijing 100871, China
| | - Yifan He
- College of Environmental Sciences and Engineering, Peking University, Key Laboratory of Water and Sediment Sciences, Ministry of Education, Beijing 100871, China; School of Water Resources and Hydropower Engineering, Xi'an University of Technology, Xi'an 710048, China
| | - Xiaohui Zhao
- College of Environmental Sciences and Engineering, Peking University, Key Laboratory of Water and Sediment Sciences, Ministry of Education, Beijing 100871, China; School of Water Resources and Hydropower Engineering, Xi'an University of Technology, Xi'an 710048, China
| | - Weiling Sun
- College of Environmental Sciences and Engineering, Peking University, Key Laboratory of Water and Sediment Sciences, Ministry of Education, Beijing 100871, China
| | - Qian Chen
- College of Environmental Sciences and Engineering, Peking University, Key Laboratory of Water and Sediment Sciences, Ministry of Education, Beijing 100871, China.
| |
Collapse
|
23
|
Wang X, Wang X, Wu F, Zhang J, Ai S, Liu Z. Microbial community composition and degradation potential of petroleum-contaminated sites under heavy metal stress. JOURNAL OF HAZARDOUS MATERIALS 2023; 457:131814. [PMID: 37307728 DOI: 10.1016/j.jhazmat.2023.131814] [Citation(s) in RCA: 5] [Impact Index Per Article: 5.0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Subscribe] [Scholar Register] [Received: 02/17/2023] [Revised: 05/21/2023] [Accepted: 06/07/2023] [Indexed: 06/14/2023]
Abstract
Total petroleum hydrocarbons (n-alkanes), semi-volatile organic compounds, and heavy metals pose major ecological risks at petrochemical-contaminated sites. The efficiency of natural remediation in situ is often unsatisfactory, particularly under heavy metal pollution stress. This study aimed to verify the hypothesis that after long-term contamination and restoration, microbial communities in situ exhibit significantly different biodegradation efficiencies under different concentrations of heavy metals. Moreover, they determine the appropriate microbial community to restore the contaminated soil. Therefore, we investigated the heavy metals in petroleum-contaminated soils and observed that heavy metals effects on distinct ecological clusters varied significantly. Finally, alterations in the native microbial community degradation ability were demonstrated through the occurrence of petroleum pollutant degradation function genes in different communities at the tested sites. Furthermore, structural equation modeling (SEM) was used to explain the influence of all factors on the degradation function of petroleum pollution. These results suggest that heavy metal contamination from petroleum-contaminated sites reduces the efficiency of natural remediation. In addition, it infers that MOD1 microorganisms have greater degradation potential under heavy metal stress. Utilizing appropriate microorganisms in situ may effectively help resist the stress of heavy metals and continuously degrade petroleum pollutants.
Collapse
Affiliation(s)
- Xusheng Wang
- State Key Laboratory of Environmental Criteria and Risk Assessment, Chinese Research Academy of Environmental Sciences, Beijing 100012, PR China; State Key Laboratory of Pollution Control and Resource Reuse, College of Environmental Science and Engineering, Tongji University, Shanghai 200092, PR China
| | - Xiaonan Wang
- State Key Laboratory of Environmental Criteria and Risk Assessment, Chinese Research Academy of Environmental Sciences, Beijing 100012, PR China.
| | - Fan Wu
- State Key Laboratory of Environmental Criteria and Risk Assessment, Chinese Research Academy of Environmental Sciences, Beijing 100012, PR China
| | - Jiawen Zhang
- State Key Laboratory of Environmental Criteria and Risk Assessment, Chinese Research Academy of Environmental Sciences, Beijing 100012, PR China
| | - Shunhao Ai
- The College of Life Science, Nanchang University, Nanchang 330047, PR China
| | - Zhengtao Liu
- State Key Laboratory of Environmental Criteria and Risk Assessment, Chinese Research Academy of Environmental Sciences, Beijing 100012, PR China; State Key Laboratory of Pollution Control and Resource Reuse, College of Environmental Science and Engineering, Tongji University, Shanghai 200092, PR China.
| |
Collapse
|
24
|
Li M, Yao J, Sunahara G, Duran R, Liu B, Cao Y, Li H, Pang W, Liu H, Jiang S, Zhu J, Zhang Q. Assembly processes of bacterial and fungal communities in metal(loid)s smelter soil. JOURNAL OF HAZARDOUS MATERIALS 2023; 451:131153. [PMID: 36893604 DOI: 10.1016/j.jhazmat.2023.131153] [Citation(s) in RCA: 7] [Impact Index Per Article: 7.0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 01/14/2023] [Revised: 02/20/2023] [Accepted: 03/03/2023] [Indexed: 06/18/2023]
Abstract
There are few studies on concurrent bacterial and fungal community assembly processes that govern the metal(loid)s biogeochemical cycles at smelters. Here, a systematic investigation combined geochemical characterization, co-occurrence patterns, and assembly mechanisms of bacterial and fungal communities inhabiting soils around an abandoned arsenic smelter. Acidobacteriota, Actinobacteriota, Chloroflexi, and Pseudomonadota were dominant in bacterial communities, whereas Ascomycota and Basidiomycota dominated fungal communities. The random forest model indicated the bioavailable fractions of Fe (9.58%) were the main positive factor driving the beta diversity of bacterial communities, and the total N (8.09%) was the main negative factor for fungal communities. Microbe-contaminant interactions demonstrate the positive impact of the bioavailable fractions of certain metal(loid)s on bacteria (Comamonadaceae and Rhodocyclaceae) and fungi (Meruliaceae and Pleosporaceae). The fungal co-occurrence networks exhibited more connectivity and complexity than the bacterial networks. The keystone taxa were identified in bacterial (including Diplorickettsiaceae, norank_o_Candidatus_Woesebacteria, norank_o_norank_c_AT-s3-28, norank_o_norank_c_bacteriap25, and Phycisphaeraceae) and fungal (including Biatriosporaceae, Ganodermataceae, Peniophoraceae, Phaeosphaeriaceae, Polyporaceae, Teichosporaceae, Trichomeriaceae, Wrightoporiaceae, and Xylariaceae) communities. Meanwhile, community assembly analysis revealed that deterministic processes dominated the microbial community assemblies, which were highly impacted by pH, total N, and total and bioavailable metal(loid) content. This study provides helpful information to develop bioremediation strategies for the mitigation of metal(loid)s-polluted soils.
Collapse
Affiliation(s)
- Miaomiao Li
- Science and Engineering, China University of Geosciences (Beijing), 29 Xueyuan Road, Haidian District, Beijing 100083, China
| | - Jun Yao
- Science and Engineering, China University of Geosciences (Beijing), 29 Xueyuan Road, Haidian District, Beijing 100083, China.
| | - Geoffrey Sunahara
- Science and Engineering, China University of Geosciences (Beijing), 29 Xueyuan Road, Haidian District, Beijing 100083, China; Department of Natural Resource Sciences, McGill University, 21111 Lakeshore Drive, Ste-Anne-de-Bellevue, Quebec H9X 3V9, Canada
| | - Robert Duran
- Universite de Pau et des Pays de l'Adour, UPPA/E2S, IPREM CNRS 5254, Pau, France
| | - Bang Liu
- Universite de Pau et des Pays de l'Adour, UPPA/E2S, IPREM CNRS 5254, Pau, France
| | - Ying Cao
- Science and Engineering, China University of Geosciences (Beijing), 29 Xueyuan Road, Haidian District, Beijing 100083, China
| | - Hao Li
- Science and Engineering, China University of Geosciences (Beijing), 29 Xueyuan Road, Haidian District, Beijing 100083, China
| | - Wancheng Pang
- Science and Engineering, China University of Geosciences (Beijing), 29 Xueyuan Road, Haidian District, Beijing 100083, China
| | - Houquan Liu
- Science and Engineering, China University of Geosciences (Beijing), 29 Xueyuan Road, Haidian District, Beijing 100083, China
| | - Shun Jiang
- Science and Engineering, China University of Geosciences (Beijing), 29 Xueyuan Road, Haidian District, Beijing 100083, China
| | - Junjie Zhu
- Science and Engineering, China University of Geosciences (Beijing), 29 Xueyuan Road, Haidian District, Beijing 100083, China
| | - Qinghua Zhang
- College of Bioscience and Engineering, Jiangxi Agricultural University, Nanchang 330045, China
| |
Collapse
|
25
|
Wong SK, Cui Y, Chun SJ, Kaneko R, Masumoto S, Kitagawa R, Mori AS, Lim AS, Uchida M. Vegetation as a key driver of the distribution of microbial generalists that in turn shapes the overall microbial community structure in the low Arctic tundra. ENVIRONMENTAL MICROBIOME 2023; 18:41. [PMID: 37165459 PMCID: PMC10173506 DOI: 10.1186/s40793-023-00498-6] [Citation(s) in RCA: 3] [Impact Index Per Article: 3.0] [Reference Citation Analysis] [Abstract] [Key Words] [Grants] [Track Full Text] [Subscribe] [Scholar Register] [Received: 02/07/2023] [Accepted: 04/27/2023] [Indexed: 05/12/2023]
Abstract
Understanding the variability of microbial niches and their interaction with abiotic and biotic factors in the Arctic can provide valuable insights into microbial adaptations to extreme environments. This study investigates the structure and diversity of soil bacterial communities obtained from sites with varying vegetation coverage and soil biogeochemical properties in the low Arctic tundra and explores how bacteria interact under different environmental parameters. Our findings reveal differences in bacterial composition and abundance among three bacterial niche breadths (specialists, common taxa, and generalists). Co-occurrence network analysis revealed Rhizobiales and Ktedonobacterales as keystone taxa that connect and support other microbes in the habitat. Low-elevation indicators, such as vascular plants and moisture content, were correlated with two out of three generalist modular hubs and were linked to a large proportion of generalists' distribution (18%). Structural equation modeling revealed that generalists' distribution, which influenced the remaining microbial communities, was mainly regulated by vegetation coverage as well as other abiotic and biotic factors. These results suggest that elevation-dependent environmental factors directly influence microbial community structure and module formation through the regulation of generalists' distribution. Furthermore, the distribution of generalists was mainly affected by macroenvironment filtering, whereas the distribution of specialists was mainly affected by microenvironment filtering (species-engineered microbial niche construction). In summary, our findings highlight the strong top-down control exerted by vegetation on generalists' distribution, which in turn shapes the overall microbial community structure in the low Arctic tundra.
Collapse
Affiliation(s)
- Shu-Kuan Wong
- Research Organization of Information and Systems, National Institute of Polar Research, 10-3, Midori-cho, Tachikawa, Tokyo, Japan
| | - Yingshun Cui
- Division of Life Science and Plant Molecular Biology and Biotechnology Research Center, Gyeongsang National University, Jinju, 52828, Korea
| | - Seong-Jun Chun
- LMO Team, National Institute of Ecology, 1210 Geumgang-ro, Maseo-myeon, Seocheon, Republic of Korea.
| | - Ryo Kaneko
- Research Organization of Information and Systems, National Institute of Polar Research, 10-3, Midori-cho, Tachikawa, Tokyo, Japan
| | - Shota Masumoto
- Graduate School of Environment and Information Sciences, Yokohama National University, 79-7, Tokiwadai, Hodogaya, Yokohama, Japan
| | - Ryo Kitagawa
- Kansai Research Center, Forestry and Forest Products Research Institute, 68, Nagaikyutaroh, Momoyama, Fushimi, Kyoto, Japan
| | - Akira S Mori
- Graduate School of Environment and Information Sciences, Yokohama National University, 79-7, Tokiwadai, Hodogaya, Yokohama, Japan
| | - An Suk Lim
- Division of Life Science and Plant Molecular Biology and Biotechnology Research Center, Gyeongsang National University, Jinju, 52828, Korea
| | - Masaki Uchida
- Research Organization of Information and Systems, National Institute of Polar Research, 10-3, Midori-cho, Tachikawa, Tokyo, Japan.
- Department of Polar Science, School of Multidisciplinary Sciences, The Graduate University for Advanced Studies, SOKENDAI, 10-3, Midori-cho, Tachikawa, Tokyo, Japan.
| |
Collapse
|
26
|
Wang R, Liu T, Lu C, Zhang Z, Guo P, Jia B, Hao B, Wang Y, Guo W. Bioorganic fertilizers improve the adaptability and remediation efficiency of Puccinellia distans in multiple heavy metals-contaminated saline soil by regulating the soil microbial community. JOURNAL OF HAZARDOUS MATERIALS 2023; 448:130982. [PMID: 36860055 DOI: 10.1016/j.jhazmat.2023.130982] [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: 11/03/2022] [Revised: 02/04/2023] [Accepted: 02/07/2023] [Indexed: 06/18/2023]
Abstract
Soil salinization and heavy metal (HM) pollution are global environmental problems. Bioorganic fertilizers facilitate phytoremediation, but their roles and microbial mechanisms in natural HM-contaminated saline soils have not been explored. Therefore, greenhouse pot trials were conducted with three treatments: control (CK), manure bioorganic fertilizer (MOF), and lignite bioorganic fertilizer (LOF). The results showed that MOF and LOF significantly increased nutrient uptake, biomass, toxic ion accumulation in Puccinellia distans, soil available nutrients, SOC, and macroaggregates. More biomarkers were enriched in MOF and LOF. Network analysis confirmed that MOF and LOF increased the number of bacterial functional groups and fungal community stability and strengthened their positive association with plants; Bacteria have a more significant effect on phytoremediation. Most biomarkers and keystones play important roles in promoting plant growth and stress resistance in the MOF and LOF treatments. In summary, besides enrichment of soil nutrients, MOF and LOF can also improve the adaptability and phytoremediation efficiency of P. distans by regulating the soil microbial community, with LOF having a greater effect.
Collapse
Affiliation(s)
- Run Wang
- Inner Mongolia Key Laboratory of Environmental Pollution Control and Waste Resource Recycle, Ministry of Education Collaborative Innovation Center for Grassland Ecological Security, Ministry of Education Key Laboratory of Ecology and Resource Use of the Mongolian Plateau, School of Ecology and Environment, Inner Mongolia University, Hohhot 010021, China
| | - Tai Liu
- Inner Mongolia Key Laboratory of Environmental Pollution Control and Waste Resource Recycle, Ministry of Education Collaborative Innovation Center for Grassland Ecological Security, Ministry of Education Key Laboratory of Ecology and Resource Use of the Mongolian Plateau, School of Ecology and Environment, Inner Mongolia University, Hohhot 010021, China
| | - Chengyan Lu
- Inner Mongolia Key Laboratory of Environmental Pollution Control and Waste Resource Recycle, Ministry of Education Collaborative Innovation Center for Grassland Ecological Security, Ministry of Education Key Laboratory of Ecology and Resource Use of the Mongolian Plateau, School of Ecology and Environment, Inner Mongolia University, Hohhot 010021, China
| | - Zhechao Zhang
- Inner Mongolia Key Laboratory of Environmental Pollution Control and Waste Resource Recycle, Ministry of Education Collaborative Innovation Center for Grassland Ecological Security, Ministry of Education Key Laboratory of Ecology and Resource Use of the Mongolian Plateau, School of Ecology and Environment, Inner Mongolia University, Hohhot 010021, China
| | - Peiran Guo
- Inner Mongolia Key Laboratory of Environmental Pollution Control and Waste Resource Recycle, Ministry of Education Collaborative Innovation Center for Grassland Ecological Security, Ministry of Education Key Laboratory of Ecology and Resource Use of the Mongolian Plateau, School of Ecology and Environment, Inner Mongolia University, Hohhot 010021, China
| | - Bingbing Jia
- Inner Mongolia Key Laboratory of Environmental Pollution Control and Waste Resource Recycle, Ministry of Education Collaborative Innovation Center for Grassland Ecological Security, Ministry of Education Key Laboratory of Ecology and Resource Use of the Mongolian Plateau, School of Ecology and Environment, Inner Mongolia University, Hohhot 010021, China
| | - Baihui Hao
- Inner Mongolia Key Laboratory of Environmental Pollution Control and Waste Resource Recycle, Ministry of Education Collaborative Innovation Center for Grassland Ecological Security, Ministry of Education Key Laboratory of Ecology and Resource Use of the Mongolian Plateau, School of Ecology and Environment, Inner Mongolia University, Hohhot 010021, China
| | - Yuchen Wang
- Inner Mongolia Key Laboratory of Environmental Pollution Control and Waste Resource Recycle, Ministry of Education Collaborative Innovation Center for Grassland Ecological Security, Ministry of Education Key Laboratory of Ecology and Resource Use of the Mongolian Plateau, School of Ecology and Environment, Inner Mongolia University, Hohhot 010021, China
| | - Wei Guo
- Inner Mongolia Key Laboratory of Environmental Pollution Control and Waste Resource Recycle, Ministry of Education Collaborative Innovation Center for Grassland Ecological Security, Ministry of Education Key Laboratory of Ecology and Resource Use of the Mongolian Plateau, School of Ecology and Environment, Inner Mongolia University, Hohhot 010021, China.
| |
Collapse
|
27
|
Saldarriaga JF, López JE, Díaz-García L, Montoya-Ruiz C. Changes in Lolium perenne L. rhizosphere microbiome during phytoremediation of Cd- and Hg-contaminated soils. ENVIRONMENTAL SCIENCE AND POLLUTION RESEARCH INTERNATIONAL 2023; 30:49498-49511. [PMID: 36781665 PMCID: PMC10104932 DOI: 10.1007/s11356-023-25501-y] [Citation(s) in RCA: 4] [Impact Index Per Article: 4.0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Subscribe] [Scholar Register] [Received: 09/16/2022] [Accepted: 01/18/2023] [Indexed: 04/16/2023]
Abstract
The contamination of soil and water by metals such as mercury (Hg) and cadmium (Cd) has been increasing in recent years, because of anthropogenic activities such as mining and agriculture, respectively. In this work, the changes in the rhizosphere microbiome of Lolium perenne L. during the phytoremediation of soils contaminated with Hg and Cd were evaluated. For this, two soil types were sampled, one inoculated with mycorrhizae and one without. The soils were contaminated with Hg and Cd, and L. perenne seeds were sown and harvested after 30 days. To assess changes in the microbiome, DNA isolation tests were performed, for which samples were subjected to two-step PCR amplification with specific 16S rDNA V3-V4 primers (337F and 805R). With mycorrhizae, changes had been found in the absorption processes of metals and a new distribution. While with respect to microorganisms, families such as the Enterobacteriaceae have been shown to have biosorption and efflux effects on metals such as Hg and Cd. Mycorrhizae then improve the efficiency of removal and allow the plant to better distribute the absorbed concentrations. Overall, L. perenne is a species with a high potential for phytoremediation of Cd- and Hg-contaminated soils in the tropics. Inoculation with mycorrhizae modifies the phytoremediation mechanisms of the plant and the composition of microorganisms in the rhizosphere. Mycorrhizal inoculation and changes in the microbiome were associated with increased plant tolerance to Cd and Hg. Microorganism-assisted phytoremediation is an appropriate alternative for L. perenne.
Collapse
Affiliation(s)
- Juan F Saldarriaga
- Dept. of Civil and Environmental Engineering, Universidad de los Andes, Carrera 1Este, #19A-40, 111711, Bogotá, Colombia.
| | - Julián E López
- Facultad de Arquitectura E Ingeniería, Institución Universitaria Colegio Mayor de Antioquia, Carrera 78 # 65 - 46, 050034, Medellín, Colombia
| | - Laura Díaz-García
- Department of Chemical & Biological Engineering and Advanced Biomanufacturing Centre, University of Sheffield, Sir Robert Hadfield Building, Mappin Street, Sheffield, S1 3JD, UK
| | - Carolina Montoya-Ruiz
- Facultad de Ciencias, Universidad Nacional de Colombia, Sede Medellín Calle, 59A #63-20, 050034, Medellín, Colombia
| |
Collapse
|
28
|
Kou B, He Y, Wang Y, Qu C, Tang J, Wu Y, Tan W, Yuan Y, Yu T. The relationships between heavy metals and bacterial communities in a coal gangue site. ENVIRONMENTAL POLLUTION (BARKING, ESSEX : 1987) 2023; 322:121136. [PMID: 36736561 DOI: 10.1016/j.envpol.2023.121136] [Citation(s) in RCA: 23] [Impact Index Per Article: 23.0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 09/14/2022] [Revised: 01/18/2023] [Accepted: 01/21/2023] [Indexed: 06/18/2023]
Abstract
Coal is the main source of energy for China's economic development, but coal gangue dumps are a major source of heavy metal pollution. Bacterial communities have a major effect on the bioremediation of heavy metals in coal gangue dumps. The effects of different concentrations of heavy metals on the composition of bacterial communities in coal gangue sites remain unclear. Soil bacterial communities from four gangue sites that vary in natural heavy metal concentrations were investigated using high-throughput sequencing in this study. Correlations among bacterial communities, heavy metal concentrations, physicochemical properties of the soil, and the composition of dissolved organic matter of soil in coal gangue dumps were also analyzed. Our results indicated that Actinobacteriota, Proteobacteria, Chloroflexi, Acidobacteriota, and Gemmatimonadota were the bacterial taxa most resistant to heavy metal stress at gangue sites. Heavy metal contamination may be the main cause of changes in bacterial communities. Heavy metal pollution can foster mutually beneficial symbioses between microbial species. Microbial-derived organic matter was the main source of soil organic matter in unvegetated mining areas, and this could affect the toxicity and transport of heavy metals in soil. Polar functional groups such as hydroxyl and ester groups (A226-400) play an important role in the reaction of cadmium (Cd) and lead (Pb), and organic matter with low molecular weight (SR) tends to bind more to mercury (Hg). In addition to heavy metals, the content of nitrogen (N), phosphorus (P), and total organic carbon (TOC) also affected the composition of the bacterial communities; TOC had the strongest effect, followed by N, SOM, and P. Our findings have implications for the microbial remediation of heavy metal-contaminated soils in coal gangue sites and sustainable development.
Collapse
Affiliation(s)
- Bing Kou
- State Environmental Protection Key Laboratory of Simulation and Control of Groundwater Pollution, Chinese Research Academy of Environmental Sciences, Beijing, 100012, China; College of Chemistry and Chemical Engineering, Xi'an Shiyou University, Xi'an, 710065, China
| | - Yue He
- Beijing Guozhong Biotechnology Co., LTD, Beijing, 102211, China
| | - Yang Wang
- State Environmental Protection Key Laboratory of Simulation and Control of Groundwater Pollution, Chinese Research Academy of Environmental Sciences, Beijing, 100012, China
| | - Chengtun Qu
- College of Chemistry and Chemical Engineering, Xi'an Shiyou University, Xi'an, 710065, China
| | - Jun Tang
- State Environmental Protection Key Laboratory of Simulation and Control of Groundwater Pollution, Chinese Research Academy of Environmental Sciences, Beijing, 100012, China
| | - Yuman Wu
- State Environmental Protection Key Laboratory of Simulation and Control of Groundwater Pollution, Chinese Research Academy of Environmental Sciences, Beijing, 100012, China; College of Chemistry and Chemical Engineering, Xi'an Shiyou University, Xi'an, 710065, China
| | - Wenbing Tan
- State Environmental Protection Key Laboratory of Simulation and Control of Groundwater Pollution, Chinese Research Academy of Environmental Sciences, Beijing, 100012, China
| | - Ying Yuan
- State Environmental Protection Key Laboratory of Simulation and Control of Groundwater Pollution, Chinese Research Academy of Environmental Sciences, Beijing, 100012, China.
| | - Tingqiao Yu
- International Education College, Beijing Vocational College of Agriculture, Beijing, 102442, China
| |
Collapse
|
29
|
Fu W, Zheng X, Chen X, Wang W, Liu A, Ji J, Wang G, Guan C. The potential roles of carotenoids in enhancing phytoremediation of bisphenol A contaminated soil by promoting plant physiology and modulating rhizobacterial community of tobacco. CHEMOSPHERE 2023; 316:137807. [PMID: 36634717 DOI: 10.1016/j.chemosphere.2023.137807] [Citation(s) in RCA: 1] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 10/24/2022] [Revised: 12/31/2022] [Accepted: 01/08/2023] [Indexed: 06/17/2023]
Abstract
The widespread occurrence of bisphenol A (BPA), a typical endocrine-disrupting compound, poses potential threat to ecosystem and public health. Carotenoids are essential natural pigments, playing important roles in photosynthesis and antioxidant defense of plants. This study aimed to verify the value of carotenoids in enhancing plant tolerance to BPA stress and improving phytoremediation efficiency of tobacco (Nicotiana tabacum L.), through exogenous application of β-carotene (a typical carotenoid) and endogenous upregulation of carotenoids by overexpression of β-carotene hydroxylase (chyb) gene in tobacco. The results demonstrated that exogenous applied β-carotene alleviated the toxic effects of BPA exposure (100 mg kg-1) on wild-type (WT) tobacco plants after being cultivated for 40 d, reflecting by the increase of biomass (201.2%), chlorophyll content (27.5%) and the decrease of malondialdehyde (MDA) content (70.7%). Similar with the results of exogenous application of β-carotene, chyb gene overexpressing tobacco showed less phytotoxicity exposed to BPA, through enhancing photosynthetic efficiency (42.1%) and reducing reactive oxygen species (ROS) production (18%). Notably, about 94.8% BPA in contaminated soil was removed under the cultivation of transgenic tobacco for 40 d, however, only 82.7% was removed in that of WT tobacco. Moreover, transgenic tobacco is beneficial for the growth of plant roots, thus upregulating the abundance of bacteria contributing to BPA degradation or soil nutrient cycling (e.g., Proteobacteria, Acidobacteria, Actinobacteria, Sphingomonas and MND1), which might further help to enhance plant growth and improve BPA removal efficiency in soil. This study extended our understanding of the possible mechanisms of carotenoids-involved alleviation of BPA stress in tobacco, providing a novel strategy to improve phytoremediation efficiency of plants in BPA contaminated soil.
Collapse
Affiliation(s)
- Wenting Fu
- School of Environmental Science and Engineering, Tianjin University, 92 Weijin Road, Tianjin, 300072, China
| | - Xiaoyan Zheng
- School of Environmental Science and Engineering, Tianjin University, 92 Weijin Road, Tianjin, 300072, China
| | - Xiancao Chen
- School of Environmental Science and Engineering, Tianjin University, 92 Weijin Road, Tianjin, 300072, China
| | - Wenjing Wang
- School of Environmental Science and Engineering, Tianjin University, 92 Weijin Road, Tianjin, 300072, China
| | - Anran Liu
- School of Environmental Science and Engineering, Tianjin University, 92 Weijin Road, Tianjin, 300072, China
| | - Jing Ji
- School of Environmental Science and Engineering, Tianjin University, 92 Weijin Road, Tianjin, 300072, China
| | - Gang Wang
- School of Environmental Science and Engineering, Tianjin University, 92 Weijin Road, Tianjin, 300072, China
| | - Chunfeng Guan
- School of Environmental Science and Engineering, Tianjin University, 92 Weijin Road, Tianjin, 300072, China.
| |
Collapse
|
30
|
Peng D, Zhang R, Chen Y, Jiang L, Lei L, Xu H, Feng S. Effects of secondary release of chromium and vanadium on soil properties, nutrient cycling and bacterial communities in contaminated acidic paddy soil. JOURNAL OF ENVIRONMENTAL MANAGEMENT 2023; 326:116725. [PMID: 36375431 DOI: 10.1016/j.jenvman.2022.116725] [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: 09/12/2022] [Revised: 10/27/2022] [Accepted: 11/04/2022] [Indexed: 06/16/2023]
Abstract
Although the contamination situation of chromium (Cr) and vanadium (V) have been revealed, the effects of their re-release on ecological risk in contaminated acidic paddy soil are unclear. To evaluate the effects, we assigned soil microcosms across three different concentration (100, 200, 300 mg/L) and introduced Cr and V alone or combination into an already slightly contaminated acidic soil. We found that Cr and V alone or interacted to increased soil bioavailable-metals, changed soil properties and nutrients to varying degrees. Meanwhile, soil ammoniacal nitrogen (NH4+-N) and nitrate nitrogen (NO3--N) contents, nitrogen (N) -cycling enzyme activities, microbial mass N were significantly influenced by Cr addition. Which demonstrated that Cr re-release may disturb soil N cycle. However, V alone significantly improved soil NO3--N contents, cellulase and dehydrogenase activities, soil respiration intensity and microbial mass carbon: nitrogen. Meanwhile, V addition also decreased bacterial diversity while Cr addition increased bacterial diversity and shaped new bacterial community, some V(V) and Cr (VI) reducing bacteria were identified. Heatmap of Pearson correlation and Redundancy analysis showed that NH4+-N, NO3--N, Potassium, Phosphorus, and Cr played an important role in bacterial community structure. These findings suggested that re-release of Cr and V disturbed soil function and raised ecological risks, and the power to destroy the ecosystem stability originated from Cr was much stronger than V. This study was contributed to understand the effects of Cr and V re-release on microecology in contaminated acidic agricultural soil.
Collapse
Affiliation(s)
- Dinghua Peng
- Key Laboratory of Bio-Resource and Eco-Environment of Ministry of Education, College of Life Sciences, Sichuan University, Chengdu, 610065, PR China
| | - Renfeng Zhang
- Key Laboratory of Bio-Resource and Eco-Environment of Ministry of Education, College of Life Sciences, Sichuan University, Chengdu, 610065, PR China
| | - Yahui Chen
- Key Laboratory of Bio-Resource and Eco-Environment of Ministry of Education, College of Life Sciences, Sichuan University, Chengdu, 610065, PR China
| | - Lili Jiang
- Key Laboratory of Bio-Resource and Eco-Environment of Ministry of Education, College of Life Sciences, Sichuan University, Chengdu, 610065, PR China
| | - Ling Lei
- Key Laboratory of Bio-Resource and Eco-Environment of Ministry of Education, College of Life Sciences, Sichuan University, Chengdu, 610065, PR China
| | - Heng Xu
- Key Laboratory of Bio-Resource and Eco-Environment of Ministry of Education, College of Life Sciences, Sichuan University, Chengdu, 610065, PR China; Key Laboratory of Environment Protection, Soil Ecological Protection and Pollution Control, Sichuan University & Department of Ecology and Environment of Sichuan, Chengdu, 610065, Sichuan, PR China.
| | - Su Feng
- Key Laboratory of Bio-Resource and Eco-Environment of Ministry of Education, College of Life Sciences, Sichuan University, Chengdu, 610065, PR China.
| |
Collapse
|
31
|
Li D, Chen J, Zhang X, Shi W, Li J. Structural and functional characteristics of soil microbial communities in response to different ecological risk levels of heavy metals. Front Microbiol 2022; 13:1072389. [PMID: 36569064 PMCID: PMC9772559 DOI: 10.3389/fmicb.2022.1072389] [Citation(s) in RCA: 3] [Impact Index Per Article: 1.5] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 10/17/2022] [Accepted: 11/18/2022] [Indexed: 12/13/2022] Open
Abstract
Objective The potential ecological risk index (RI) is the most commonly used method to assess heavy metals (HMs) contamination in soils. However, studies have focused on the response of soil microorganisms to different concentrations, whereas little is known about the responses of the microbial community structures and functions to HMs at different RI levels. Methods Here, we conducted soil microcosms with low (L), medium (M) and high (H) RI levels, depending on the Pb and Cd concentrations, were conducted. The original soil was used as the control (CK). High-throughput sequencing, qPCR, and Biolog plate approaches were applied to investigate the microbial community structures, abundance, diversity, metabolic capacity, functional genes, and community assembly processes. Result The abundance and alpha diversity indices for the bacteria at different RI levels were significantly lower than those of the CK. Meanwhile, the abundance and ACE index for the fungi increased significantly with RI levels. Acidobacteria, Basidiomycota and Planctomycetes were enriched as the RI level increased. Keystone taxa and co-occurrence pattern analysis showed that rare taxa play a vital role in the stability and function of the microbial community at different RI levels. Network analysis indicates that not only did the complexity and vulnerability of microbial community decrease as risk levels increased, but that the lowest number of keystone taxa was found at the H level. However, the microbial community showed enhanced intraspecific cooperation to adapt to the HMs stress. The Biolog plate data suggested that the average well color development (AWCD) reduced significantly with RI levels in bacteria, whereas the fungal AWCD was dramatically reduced only at the H level. The functional diversity indices and gene abundance for the microorganisms at the H level were significantly lower than those the CK. In addition, microbial community assembly tended to be more stochastic with an increase in RI levels. Conclusion Our results provide new insight into the ecological impacts of HMs on the soil microbiome at different risk levels, and will aid in future risk assessments for Pb and Cd contamination.
Collapse
|
32
|
Sun C, Wu P, Wang G, Kong X. Heavy Metals Contained Within a Pb-Zn Waste Heap Exhibit Selective Association with Microbial Modules as Revealed by Network Analysis. BULLETIN OF ENVIRONMENTAL CONTAMINATION AND TOXICOLOGY 2022; 109:1067-1074. [PMID: 35338370 DOI: 10.1007/s00128-022-03499-2] [Citation(s) in RCA: 1] [Impact Index Per Article: 0.5] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 10/14/2021] [Accepted: 03/03/2022] [Indexed: 06/14/2023]
Abstract
Heavy metal contamination is a global environmental concern due to its persistence and toxicity. To explore soil microbial interaction mechanisms and their association with heavy metals on a Pb-Zn waste heap, ecological network analysis tools were used to analyze high-throughput data in microbiology. The microbial network was divided into several modules, but heavy metals were associated with specific modules. The heavy metal-tolerant module (M2) had a more negative than positive relationship with the heavy metal-mid-tolerant modules (M1 and M3). Tight coupling between fungal and bacterial operational taxonomic units (OTUs) within M2 was critical for module stability and heavy metal bioremediation. Additionally, members within M2 needed to form a positive relationship to cope with heavy metal contamination (As, Pb, Zn, Cu, and Cd). The study provides fundamental information for a deeper understanding of heavy metal bioremediation mechanisms in the Pb-Zn waste heap.
Collapse
Affiliation(s)
- Caili Sun
- College of Resource and Environmental Engineering, Guizhou University, Guiyang, 550025, China
- Key Laboratory of Karst Georesources and Environment, Ministry of Education, Guizhou University, Guiyang, 550025, China
- College of Eco-Environmental Engineering, Guizhou Minzu University, Guiyang, 550025, China
| | - Pan Wu
- College of Resource and Environmental Engineering, Guizhou University, Guiyang, 550025, China.
- Key Laboratory of Karst Georesources and Environment, Ministry of Education, Guizhou University, Guiyang, 550025, China.
| | - Guanghao Wang
- College of Resource and Environmental Engineering, Guizhou University, Guiyang, 550025, China
- Key Laboratory of Karst Georesources and Environment, Ministry of Education, Guizhou University, Guiyang, 550025, China
| | - Xingjie Kong
- College of Resource and Environmental Engineering, Guizhou University, Guiyang, 550025, China
- Key Laboratory of Karst Georesources and Environment, Ministry of Education, Guizhou University, Guiyang, 550025, China
| |
Collapse
|
33
|
Calabró MR, Roqueiro G, Tapia R, Crespo DC, Bargiela MF, Young BJ. Chronic toxicity, bioavailability and bioaccumulation of Zn, Cu and Pb in Lactuca sativa exposed to waste from an abandoned gold mine. CHEMOSPHERE 2022; 307:135855. [PMID: 35961448 DOI: 10.1016/j.chemosphere.2022.135855] [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: 04/28/2022] [Revised: 07/20/2022] [Accepted: 07/23/2022] [Indexed: 06/15/2023]
Abstract
Abandoned mines with untreated waste cause environmental pollution. The complex mixture of mining waste includes high metal content, anthropogenic chemicals and sterile rocks. Adverse effects of contaminated soils have been widely assessed by the use of plants. The aim of this study was to assess the chronic toxicity of a contaminated soil by waste from an abandoned gold mine on Lactuca sativa and its relationship with the bioavailability and bioaccumulation of Zn, Cu and Pb. Soil samples were taken from the site of mining waste stacking and a reference site in La Planta (Argentina). Contamination indices were calculated and acute and chronic exposures on L. sativa were carried out. Phytotoxicity indices, morphological and biochemical parameters, and concentrations of Zn, Cu and Pb in pseudo total and bioavailable soil fractions and in plant tissue were determined. Concentration- and time-dependent toxicity effects were observed, especially on plant width, fresh aerial biomass, leaf area and percentage of plants with completely necrotic aerial biomass. High levels of Zn (1453.3 ± 220.3 μg g-1) were found in plant tissue compared to Pb (277.2 ± 18.0 μg g-1) and Cu (255.3 ± 25.6 μg g-1). Toxicological endpoints correlated with metal uptake and mining waste concentration. In addition, bioaccumulation factors correlated with mobilisable and water soluble fractions. The concentration of Pb in aerial biomass surpassed the permissible concentrations in leaf vegetables, even at the reference site, indicating that lettuce crop consumption could be risky for the local population's health. This study demonstrated a strong relationship between metal bioavailability, toxicity endpoints and bioaccumulation, contributing with novel information to future ecotoxicological risk assessments and remediation plans.
Collapse
Affiliation(s)
- María Rosario Calabró
- Instituto Nacional de Tecnología Agropecuaria (INTA). Instituto de Microbiología y Zoología Agrícola (IMYZA). Nicolás Repetto y de los Reseros s/n (1686), Hurlingham, Argentina; Universidad de Buenos Aires, Facultad de Agronomía, Cátedra de Química Inorgánica y Analítica. Av. San Martín 4453 (1417), Buenos Aires, Argentina
| | - Gonzalo Roqueiro
- Instituto Nacional de Tecnología Agropecuaria (INTA). Estación Experimental Agropecuaria San Juan, Calle 11 y Vidart, Pocito (5427), San Juan, Argentina; Universidad Nacional de San Juan, Facultad de Ciencias Exactas, Físicas y Naturales. Av. Libertador General San Martín 1109 (5400), San Juan, Argentina
| | - Raúl Tapia
- Universidad Nacional de San Juan, Facultad de Ciencias Exactas, Físicas y Naturales. Av. Libertador General San Martín 1109 (5400), San Juan, Argentina; Instituto Nacional de Tecnología Agropecuaria (INTA) - Consejo Nacional de Investigaciones Científicas y Técnicas (CONICET-CCT San Juan), Calle 11 y Vidart, Pocito (5427), San Juan, Argentina
| | - Diana Cristina Crespo
- Instituto Nacional de Tecnología Agropecuaria (INTA). Instituto de Microbiología y Zoología Agrícola (IMYZA). Nicolás Repetto y de los Reseros s/n (1686), Hurlingham, Argentina
| | - Martha Fidela Bargiela
- Universidad de Buenos Aires, Facultad de Agronomía, Cátedra de Química Inorgánica y Analítica. Av. San Martín 4453 (1417), Buenos Aires, Argentina
| | - Brian Jonathan Young
- Instituto Nacional de Tecnología Agropecuaria (INTA). Instituto de Microbiología y Zoología Agrícola (IMYZA). Nicolás Repetto y de los Reseros s/n (1686), Hurlingham, Argentina; Universidad de Buenos Aires, Facultad de Agronomía, Cátedra de Química Inorgánica y Analítica. Av. San Martín 4453 (1417), Buenos Aires, Argentina.
| |
Collapse
|
34
|
Liu B, Yao J, Ma B, Li S, Duran R. Disentangling biogeographic and underlying assembly patterns of fungal communities in metalliferous mining and smelting soils. THE SCIENCE OF THE TOTAL ENVIRONMENT 2022; 845:157151. [PMID: 35798111 DOI: 10.1016/j.scitotenv.2022.157151] [Citation(s) in RCA: 6] [Impact Index Per Article: 3.0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 04/28/2022] [Revised: 06/29/2022] [Accepted: 06/30/2022] [Indexed: 06/15/2023]
Abstract
Elucidating community assembly and their relevance to environmental variables are fundamental for understanding microbial diversity and functioning in terrestrial ecosystems, yet the geographical diversity and assembly patterns of the fungal community in metalliferous ecospheres associated with mining and smelting activities have received penurious understandings. Here, the fungal communities collected from three groups of soils around the mining and smelting sites were profiled by Internal Transcribed Spacer (ITS) sequencing, in order to understand the geographical distributions of fungal community diversities, structures, compositions, assembly processes and the occurrence patterns. The results suggested obvious biogeographic distribution patterns of fungal compositions among the three groups of soils. Among them, 15 fungal phyla including Ascomycota, Basidiomycota and Mortierellomycota were recognized across the samples. 12 abundant classes showing significantly different in relative abundances among the three groups of soils. Total metal(loid)s and level significantly decreased the fungal abundances and diversities. The community similarity demonstrated distance-decay pattern among the three sites. Metal(loid)s explained relatively higher fungal community variations (4.16 %) relative to other factors (1.89 %) and geography (1.21 %), though 83.32 % of the variations could not be explained. Stochastic dispersal limitation and undominated fraction were dominated relative to deterministic heterogeneous selection in total and individual site, respectively. These results highlighted the stochastic processes in governing the biogeography of fungal communities in mining and smelting ecospheres.
Collapse
Affiliation(s)
- Bang Liu
- School of Water Resource and Environment, Research Center of Environmental Science and Engineering, MOE Key Laboratory of Groundwater Circulation and Environmental Evolution, China University of Geosciences (Beijing), 29 Xueyuan Road, Haidian District, Beijing 100083, People's Republic of China
| | - Jun Yao
- School of Water Resource and Environment, Research Center of Environmental Science and Engineering, MOE Key Laboratory of Groundwater Circulation and Environmental Evolution, China University of Geosciences (Beijing), 29 Xueyuan Road, Haidian District, Beijing 100083, People's Republic of China.
| | - Bo Ma
- School of Water Resource and Environment, Research Center of Environmental Science and Engineering, MOE Key Laboratory of Groundwater Circulation and Environmental Evolution, China University of Geosciences (Beijing), 29 Xueyuan Road, Haidian District, Beijing 100083, People's Republic of China
| | - Shuzhen Li
- School of Minerals Processing and Bioengineering, Central South University, Changsha 410083, People's Republic of China
| | - Robert Duran
- School of Water Resource and Environment, Research Center of Environmental Science and Engineering, MOE Key Laboratory of Groundwater Circulation and Environmental Evolution, China University of Geosciences (Beijing), 29 Xueyuan Road, Haidian District, Beijing 100083, People's Republic of China; Equipe Environnement et Microbiologie, MELODY group, Université de Pau et des Pays de l'Adour, E2S-UPPA, IPREM UMR CNRS 5254, BP 1155, 64013 Pau Cedex, France
| |
Collapse
|
35
|
Kang P, Pan Y, Yang P, Hu J, Zhao T, Zhang Y, Ding X, Yan X. A comparison of microbial composition under three tree ecosystems using the stochastic process and network complexity approaches. Front Microbiol 2022; 13:1018077. [PMID: 36299726 PMCID: PMC9589112 DOI: 10.3389/fmicb.2022.1018077] [Citation(s) in RCA: 7] [Impact Index Per Article: 3.5] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 08/12/2022] [Accepted: 09/22/2022] [Indexed: 10/26/2023] Open
Abstract
Soil microbes act as "players" in regulating biogeochemical cycles, whereas environmental heterogeneity drives microbial community assembly patterns and is influenced by stochastic and deterministic ecological processes. Currently, the limited understanding of soil microbial community assembly patterns and interactions under temperate forest stand differences pose a challenge in studying the soil microbial involvement during the succession from coniferous to broad-leaved forests. This study investigated the changes in soil bacterial and fungal community diversity and community structure at the regional scale and identified the pathways influencing soil microbial assembly patterns and their interactions. The results showed that broad-leaved forest cover in temperate forests significantly increased soil pH, and effectively increased soil water content, total carbon (TC), total nitrogen (TN), and total phosphorus (TP) contents. Both soil bacterial and fungal alpha diversity indices were correlated with soil physicochemical properties, especially in broad-leaved forest. The bacterial and fungal community composition of coniferous forest was dominated by deterministic process (bacteria: 69.4%; fungi: 88.9%), while the bacterial community composition of broad-leaved forest was dominated by stochastic process (77.8%) and the fungal community composition was dominated by deterministic process (52.8%). Proteobacteria, Acidobacteriota, Actinobacteriota, and Verrucomicrobiota were the dominant phyla of soil bacterial communities in temperate forests. Whereas Ascomycota, Mortierellomycota, Basidiomycota, and Rozellomycota were the dominant phyla of soil fungal communities in temperate forests. Most members of dominant phylum were regulated by soil physical and chemical properties. In addition, the succession from temperate coniferous forest to broad-leaved forest was conducive to maintaining the complex network of soil bacteria and fungi, and the top 20 degree of the major taxa in the network reflected the positive response of microbial interactions to the changes of soil nutrients during forest succession. This study not only shows the mechanism by which species differences in temperate forests of northern China affect soil microbial community assembly processes, but also further emphasizes the importance of the soil microbiome as a key ecosystem factor through co-occurrence network analysis.
Collapse
Affiliation(s)
- Peng Kang
- School of Biological Science and Engineering, North Minzu University, Yinchuan, Ningxia, China
- Key Laboratory of Ecological Protection of Agro-pastoral Ecotones in the Yellow River Basin, National Ethnic Affairs Commission of the People’s Republic of China, Yinchuan, Ningxia, China
- Innovation Team for Genetic Improvement of Economic Forests, North Minzu University, Yinchuan, Ningxia, China
| | - Yaqing Pan
- Shapotou Desert Research and Experiment Station, Northwest Institute of Eco-Environment and Resources, Chinese Academy of Sciences, Lanzhou, Gansu, China
| | - Pan Yang
- School of Biological Science and Engineering, North Minzu University, Yinchuan, Ningxia, China
| | - Jinpeng Hu
- School of Biological Science and Engineering, North Minzu University, Yinchuan, Ningxia, China
| | - Tongli Zhao
- School of Biological Science and Engineering, North Minzu University, Yinchuan, Ningxia, China
| | - Yaqi Zhang
- School of Biological Science and Engineering, North Minzu University, Yinchuan, Ningxia, China
| | - Xiaodong Ding
- School of Biological Science and Engineering, North Minzu University, Yinchuan, Ningxia, China
- Key Laboratory of Ecological Protection of Agro-pastoral Ecotones in the Yellow River Basin, National Ethnic Affairs Commission of the People’s Republic of China, Yinchuan, Ningxia, China
| | - Xingfu Yan
- School of Biological Science and Engineering, North Minzu University, Yinchuan, Ningxia, China
- Key Laboratory of Ecological Protection of Agro-pastoral Ecotones in the Yellow River Basin, National Ethnic Affairs Commission of the People’s Republic of China, Yinchuan, Ningxia, China
| |
Collapse
|
36
|
Feng S, Ji HL, Wang H, Zhang B, Sterzenbach R, Pan C, Guo X. MetaLP: An integrative linear programming method for protein inference in metaproteomics. PLoS Comput Biol 2022; 18:e1010603. [PMID: 36269761 PMCID: PMC9629623 DOI: 10.1371/journal.pcbi.1010603] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [MESH Headings] [Grants] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 05/23/2022] [Revised: 11/02/2022] [Accepted: 09/26/2022] [Indexed: 11/07/2022] Open
Abstract
Metaproteomics based on high-throughput tandem mass spectrometry (MS/MS) plays a crucial role in characterizing microbiome functions. The acquired MS/MS data is searched against a protein sequence database to identify peptides, which are then used to infer a list of proteins present in a metaproteome sample. While the problem of protein inference has been well-studied for proteomics of single organisms, it remains a major challenge for metaproteomics of complex microbial communities because of the large number of degenerate peptides shared among homologous proteins in different organisms. This challenge calls for improved discrimination of true protein identifications from false protein identifications given a set of unique and degenerate peptides identified in metaproteomics. MetaLP was developed here for protein inference in metaproteomics using an integrative linear programming method. Taxonomic abundance information extracted from metagenomics shotgun sequencing or 16s rRNA gene amplicon sequencing, was incorporated as prior information in MetaLP. Benchmarking with mock, human gut, soil, and marine microbial communities demonstrated significantly higher numbers of protein identifications by MetaLP than ProteinLP, PeptideProphet, DeepPep, PIPQ, and Sipros Ensemble. In conclusion, MetaLP could substantially improve protein inference for complex metaproteomes by incorporating taxonomic abundance information in a linear programming model.
Collapse
Affiliation(s)
- Shichao Feng
- Department of Computer Science and Engineering, University of North Texas, Denton, Texas, United States of America
| | - Hong-Long Ji
- Department of Cellular and Molecular Biology, University of Texas at Tyler, Tyler, Texas, United States of America
- Texas Lung Injury Institute, University of Texas at Tyler, Tyler, Texas, United States of America
| | - Huan Wang
- College of Informatics, Huazhong Agricultural University, Wuhan, Hubei, CHINA
| | - Bailu Zhang
- Department of Computer Science and Engineering, University of North Texas, Denton, Texas, United States of America
| | - Ryan Sterzenbach
- Department of Computer Science and Engineering, University of North Texas, Denton, Texas, United States of America
- Department of Biomedical Engineering, University of North Texas, Denton, Texas, United States of America
| | - Chongle Pan
- School of Computer Science, University of Oklahoma, Norman, Oklahoma, United States of America
| | - Xuan Guo
- Department of Computer Science and Engineering, University of North Texas, Denton, Texas, United States of America
| |
Collapse
|
37
|
Rashid MS, Liu G, Yousaf B, Hamid Y, Rehman A, Munir MAM, Arif M, Ahmed R, Song Y. Assessing the influence of sewage sludge and derived-biochar in immobilization and transformation of heavy metals in polluted soil: Impact on intracellular free radical formation in maize. ENVIRONMENTAL POLLUTION (BARKING, ESSEX : 1987) 2022; 309:119768. [PMID: 35841993 DOI: 10.1016/j.envpol.2022.119768] [Citation(s) in RCA: 8] [Impact Index Per Article: 4.0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 04/14/2022] [Revised: 07/02/2022] [Accepted: 07/09/2022] [Indexed: 06/15/2023]
Abstract
As one of the most common ways to get rid of municipal waste, landfill leachate, waste with complicated compositions and high levels of contaminants, has become a significant threat to the world's environment. Here, the impact of sewage sludge (SS) and derived-biochar (SSB) amendments on the immobilization and potential mobility of heavy metals in a contaminated soil-plant system was investigated. The sequential fractionation findings showed that using SS-2%, SSB-2%, and SSBC-1% reduced the potential mobility of heavy metals while increasing the residual fraction in polluted soils. The translocation and bioconcentration factors showed that heavy metals were slightly transferred into shoots from roots and lowered accumulation in roots from contaminated soils. Fourier transform infrared (FTIR) and X-ray photoelectron spectrum (XPS) comprehensive characterization results indicated the significant role of applied amendments for heavy metals transformation from the exchangeable-soluble fractions to the least available form by lowering their mobility to confirm the adsorption-based complexes, which results in the surface adsorption of heavy metals with functional groups. The electron paramagnetic resonance (EPR) results indicated the dominance of reactive oxygen species (ROS) in the intracellular formation of hydroxyl radicals (•OH) in maize plant roots and shoots. ROS (•OH) generation plays a critical influence in the interaction between the physiological processes of plants and heavy metals. Moreover, all the amendments increased maize growth and biomass production. Our study suggests that alone and combined application of SS and SSB have great potential to remediate heavy metals contaminated soil for environmental sustainability.
Collapse
Affiliation(s)
- Muhammad Saqib Rashid
- CAS-Key Laboratory of Crust-Mantle Materials and the Environments, School of Earth and Space Sciences, University of Science and Technology of China, Hefei, 230026, PR China
| | - Guijian Liu
- CAS-Key Laboratory of Crust-Mantle Materials and the Environments, School of Earth and Space Sciences, University of Science and Technology of China, Hefei, 230026, PR China; State Key Laboratory of Loess and Quaternary Geology, Institute of Earth Environment, The Chinese Academy of Sciences, Xi'an, Shaanxi, 710075, China.
| | - Balal Yousaf
- CAS-Key Laboratory of Crust-Mantle Materials and the Environments, School of Earth and Space Sciences, University of Science and Technology of China, Hefei, 230026, PR China; State Key Laboratory of Loess and Quaternary Geology, Institute of Earth Environment, The Chinese Academy of Sciences, Xi'an, Shaanxi, 710075, China
| | - Yasir Hamid
- Ministry of Education (MOE) Key Laboratory of Environmental Remediation and Ecosystem Health, College of Environmental and Resources Science, Zhejiang University, Hangzhou, 310058, People's Republic of China
| | - Abdul Rehman
- CAS-Key Laboratory of Crust-Mantle Materials and the Environments, School of Earth and Space Sciences, University of Science and Technology of China, Hefei, 230026, PR China
| | - Mehr Ahmed Mujtaba Munir
- Ministry of Education (MOE) Key Laboratory of Environmental Remediation and Ecosystem Health, College of Environmental and Resources Science, Zhejiang University, Hangzhou, 310058, People's Republic of China
| | - Muhammad Arif
- CAS-Key Laboratory of Crust-Mantle Materials and the Environments, School of Earth and Space Sciences, University of Science and Technology of China, Hefei, 230026, PR China; Department of Soil and Environmental Sciences, Muhammad Nawaz Shareef University of Agriculture, Multan, 66000, Pakistan
| | - Rafay Ahmed
- CAS-Key Laboratory of Crust-Mantle Materials and the Environments, School of Earth and Space Sciences, University of Science and Technology of China, Hefei, 230026, PR China
| | - Yu Song
- CAS-Key Laboratory of Crust-Mantle Materials and the Environments, School of Earth and Space Sciences, University of Science and Technology of China, Hefei, 230026, PR China; School of Civil Engineering and Architecture, Southwest University of Science and Technology, Mianyang, 621010, Sichuan, PR China
| |
Collapse
|
38
|
Tan H, Liu X, Yin S, Zhao C, Su L, Wang S, Khalid M, Setälä H, Hui N. Soil microbiota associated with immune-mediated disease was influenced by heavy metal stress in roadside soils of Shanghai. JOURNAL OF HAZARDOUS MATERIALS 2022; 438:129338. [PMID: 35785742 DOI: 10.1016/j.jhazmat.2022.129338] [Citation(s) in RCA: 2] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 04/09/2022] [Revised: 05/29/2022] [Accepted: 06/07/2022] [Indexed: 06/15/2023]
Abstract
Heavy metals (HMs) and total petroleum hydrocarbons (TPHs) in soils can be detrimental to both soil microorganisms and public health. However, the effects of HMs and TPHs on microbes as well as the consequent microbial-derived health risk remains unclear in soils by local roads where citizens are clearly accessible to traffic-derived pollutants. Herein, we sampled 84 roadside soils throughout Shanghai. We measured the levels of soil edaphic factors, 6 HMs, and alkane TPHs. We further focused on the responses of bacterial and fungal communities assessed via sequencing and network analysis. Results showed that all soil HMs exceeded background levels of Shanghai soil, while the levels of TPHs are comparable to unpolluted sites. Bacterial network nodes and links decreased sharply under HM stress whereas that of fungal networks remained unchanged. The differential pattern was attributed to the asynchronous response of key classes that fungal key classes were more resistant to HMs than bacteria. In addition, 66.8 % of fungal genera associated with immune-mediated disease increased with increased HM stress for its HM tolerance. Together our findings indicate that despite the relatively stable fungal community in response to environmental stresses, the elevation of harmful fungi likely pose threats to health of urban dwellers.
Collapse
Affiliation(s)
- Haoxin Tan
- School of Agriculture and Biology, Shanghai Jiao Tong University, 800 Dongchuan Rd., 200240 Shanghai, China; Shanghai Yangtze River Delta Eco-Environmental Change and Management Observation and Research Station, Ministry of Science and Technology, Ministry of Education, 800 Dongchuan Rd., 200240 Shanghai, China; Shanghai Urban Forest Ecosystem Research Station, National Forestry and Grassland Administration, 800 Dongchuan Rd., 200240 Shanghai, China.
| | - Xinxin Liu
- School of Agriculture and Biology, Shanghai Jiao Tong University, 800 Dongchuan Rd., 200240 Shanghai, China; Instrumental analysis center, Shanghai Jiao Tong University, 800 Dongchuan Rd., 200240 Shanghai, China; Shanghai Yangtze River Delta Eco-Environmental Change and Management Observation and Research Station, Ministry of Science and Technology, Ministry of Education, 800 Dongchuan Rd., 200240 Shanghai, China; Shanghai Urban Forest Ecosystem Research Station, National Forestry and Grassland Administration, 800 Dongchuan Rd., 200240 Shanghai, China.
| | - Shan Yin
- School of Agriculture and Biology, Shanghai Jiao Tong University, 800 Dongchuan Rd., 200240 Shanghai, China; Shanghai Yangtze River Delta Eco-Environmental Change and Management Observation and Research Station, Ministry of Science and Technology, Ministry of Education, 800 Dongchuan Rd., 200240 Shanghai, China; Shanghai Urban Forest Ecosystem Research Station, National Forestry and Grassland Administration, 800 Dongchuan Rd., 200240 Shanghai, China.
| | - Chang Zhao
- School of Agriculture and Biology, Shanghai Jiao Tong University, 800 Dongchuan Rd., 200240 Shanghai, China; Shanghai Yangtze River Delta Eco-Environmental Change and Management Observation and Research Station, Ministry of Science and Technology, Ministry of Education, 800 Dongchuan Rd., 200240 Shanghai, China; Shanghai Urban Forest Ecosystem Research Station, National Forestry and Grassland Administration, 800 Dongchuan Rd., 200240 Shanghai, China.
| | - Lantian Su
- School of Agriculture and Biology, Shanghai Jiao Tong University, 800 Dongchuan Rd., 200240 Shanghai, China; Shanghai Yangtze River Delta Eco-Environmental Change and Management Observation and Research Station, Ministry of Science and Technology, Ministry of Education, 800 Dongchuan Rd., 200240 Shanghai, China; Shanghai Urban Forest Ecosystem Research Station, National Forestry and Grassland Administration, 800 Dongchuan Rd., 200240 Shanghai, China.
| | - Song Wang
- School of Agriculture and Biology, Shanghai Jiao Tong University, 800 Dongchuan Rd., 200240 Shanghai, China.
| | - Muhammad Khalid
- School of Agriculture and Biology, Shanghai Jiao Tong University, 800 Dongchuan Rd., 200240 Shanghai, China; Shanghai Yangtze River Delta Eco-Environmental Change and Management Observation and Research Station, Ministry of Science and Technology, Ministry of Education, 800 Dongchuan Rd., 200240 Shanghai, China; Shanghai Urban Forest Ecosystem Research Station, National Forestry and Grassland Administration, 800 Dongchuan Rd., 200240 Shanghai, China.
| | - Heikki Setälä
- Faculty of Biological and Environmental Sciences, University of Helsinki, FIN-15140 Lahti, Finland.
| | - Nan Hui
- School of Agriculture and Biology, Shanghai Jiao Tong University, 800 Dongchuan Rd., 200240 Shanghai, China; Faculty of Biological and Environmental Sciences, University of Helsinki, FIN-15140 Lahti, Finland.
| |
Collapse
|
39
|
Su P, Gao P, Sun W, Gao W, Xu F, Wang Q, Xiao E, Soleimani M, Sun X. Keystone taxa and functional analysis in arsenic and antimony co-contaminated rice terraces. ENVIRONMENTAL SCIENCE AND POLLUTION RESEARCH INTERNATIONAL 2022; 29:61236-61246. [PMID: 35438402 DOI: 10.1007/s11356-022-20160-x] [Citation(s) in RCA: 4] [Impact Index Per Article: 2.0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 01/07/2022] [Accepted: 04/04/2022] [Indexed: 06/14/2023]
Abstract
Both arsenic (As) and antimony (Sb) are primary environmental contaminants that often co-exist at contaminated sites. Though the microbial community compositions of As- and Sb-contaminated sites have been previously described, the changes in microbial community interactions and community functions remain elusive. In the current study, several key metabolic processes, such as As/Sb detoxification and carbon fixation, were enriched under heavily contaminated conditions. Furthermore, the identified keystone taxa, which are associated with the families Nitrosomonadaceae, Pedosphaeraceae, Halieaceae, and Latescibacterota, demonstrated positive correlations with As and Sb concentrations, indicating that they may be resistant to As and Sb toxicities. Accordingly, arsenic resistance-related functions, along with several functions such as carbon fixation, were found to be enriched in heavily contaminated sites. The current study elucidated the key microbial populations in As- and Sb-contaminated rice terraces and may provide useful information for remediation purposes.
Collapse
Affiliation(s)
- Pingzhou Su
- Key Laboratory of Water Quality and Conservation in the Pearl River Delta, Ministry of Education, School of Environmental Science and Engineering, Guangzhou University, Guangzhou, 510006, People's Republic of China
- National-Regional Joint Engineering Research Center for Soil Pollution Control and Remediation in South China, Guangdong Key Laboratory of Integrated Agro-Environmental Pollution Control and Management, Institute of Eco-Environmental and Soil Sciences, Guangdong Academy of Sciences, Guangzhou, 510650, People's Republic of China
- Guangdong-Hong Kong-Macao Joint Laboratory for Environmental Pollution and ControlGuangzhou Institute of Geochemistry, Chinese Academy of Sciences, Guangzhou, 510640, China
| | - Pin Gao
- National-Regional Joint Engineering Research Center for Soil Pollution Control and Remediation in South China, Guangdong Key Laboratory of Integrated Agro-Environmental Pollution Control and Management, Institute of Eco-Environmental and Soil Sciences, Guangdong Academy of Sciences, Guangzhou, 510650, People's Republic of China
- Guangdong-Hong Kong-Macao Joint Laboratory for Environmental Pollution and ControlGuangzhou Institute of Geochemistry, Chinese Academy of Sciences, Guangzhou, 510640, China
| | - Weimin Sun
- National-Regional Joint Engineering Research Center for Soil Pollution Control and Remediation in South China, Guangdong Key Laboratory of Integrated Agro-Environmental Pollution Control and Management, Institute of Eco-Environmental and Soil Sciences, Guangdong Academy of Sciences, Guangzhou, 510650, People's Republic of China
- Guangdong-Hong Kong-Macao Joint Laboratory for Environmental Pollution and ControlGuangzhou Institute of Geochemistry, Chinese Academy of Sciences, Guangzhou, 510640, China
- School of Environment, Key Laboratory of Yellow River and Huai River Water Environment and Pollution Control, Ministry of Education, Henan Normal University, Xinxiang, 453007, China
| | - Wenlong Gao
- National-Regional Joint Engineering Research Center for Soil Pollution Control and Remediation in South China, Guangdong Key Laboratory of Integrated Agro-Environmental Pollution Control and Management, Institute of Eco-Environmental and Soil Sciences, Guangdong Academy of Sciences, Guangzhou, 510650, People's Republic of China
- Guangdong-Hong Kong-Macao Joint Laboratory for Environmental Pollution and ControlGuangzhou Institute of Geochemistry, Chinese Academy of Sciences, Guangzhou, 510640, China
| | - Fuqing Xu
- National-Regional Joint Engineering Research Center for Soil Pollution Control and Remediation in South China, Guangdong Key Laboratory of Integrated Agro-Environmental Pollution Control and Management, Institute of Eco-Environmental and Soil Sciences, Guangdong Academy of Sciences, Guangzhou, 510650, People's Republic of China
- Guangdong-Hong Kong-Macao Joint Laboratory for Environmental Pollution and ControlGuangzhou Institute of Geochemistry, Chinese Academy of Sciences, Guangzhou, 510640, China
| | - Qi Wang
- National-Regional Joint Engineering Research Center for Soil Pollution Control and Remediation in South China, Guangdong Key Laboratory of Integrated Agro-Environmental Pollution Control and Management, Institute of Eco-Environmental and Soil Sciences, Guangdong Academy of Sciences, Guangzhou, 510650, People's Republic of China
- Guangdong-Hong Kong-Macao Joint Laboratory for Environmental Pollution and ControlGuangzhou Institute of Geochemistry, Chinese Academy of Sciences, Guangzhou, 510640, China
| | - Enzong Xiao
- Key Laboratory of Water Quality and Conservation in the Pearl River Delta, Ministry of Education, School of Environmental Science and Engineering, Guangzhou University, Guangzhou, 510006, People's Republic of China
| | - Mohsen Soleimani
- Department of Natural Resources, Isfahan University of Technology, 8415683111, Isfahan, Iran
| | - Xiaoxu Sun
- National-Regional Joint Engineering Research Center for Soil Pollution Control and Remediation in South China, Guangdong Key Laboratory of Integrated Agro-Environmental Pollution Control and Management, Institute of Eco-Environmental and Soil Sciences, Guangdong Academy of Sciences, Guangzhou, 510650, People's Republic of China.
- Guangdong-Hong Kong-Macao Joint Laboratory for Environmental Pollution and ControlGuangzhou Institute of Geochemistry, Chinese Academy of Sciences, Guangzhou, 510640, China.
| |
Collapse
|
40
|
Qi Q, Hu C, Lin J, Wang X, Tang C, Dai Z, Xu J. Contamination with multiple heavy metals decreases microbial diversity and favors generalists as the keystones in microbial occurrence networks. ENVIRONMENTAL POLLUTION (BARKING, ESSEX : 1987) 2022; 306:119406. [PMID: 35561794 DOI: 10.1016/j.envpol.2022.119406] [Citation(s) in RCA: 36] [Impact Index Per Article: 18.0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 11/11/2021] [Revised: 04/01/2022] [Accepted: 04/30/2022] [Indexed: 06/15/2023]
Abstract
Soil contamination with multiple heavy metals poses threats to human health and ecosystem functioning. Using the Nemerow pollution index, which considers the effects of multiple heavy metals, we compared the diversity and composition of bacteria, fungi and protists and their potential interactions in response to a multi-metal contamination gradient. Multi-metal contamination significantly altered the community composition of bacteria, fungi and protists, and the degree of alteration increased with increasing severity of contamination. The alpha-diversity of bacteria, fungi and protists significantly decreased with increasing contamination level. The dominant generalists, found in all soil samples, were Gammaproteobacteria, Chloroflexi and Bacillus sp, whereas the dominant specialists were Anaerolineaceae, Entoloma sp. and Sandonidae_X sp. The relative abundances of generalists were positively correlated, whereas those of specialists were negatively correlated, with the Nemerow pollution index. In addition, the complexity of the microbial co-occurrence network increased with increasing contamination level. Generalists, rather than specialists, were the keystones in the microbial co-occurrence network and played a crucial role in adaptation to multi-metal contamination through enhanced potential interactions within the entire microbiome. Our results provide insights into the ecological effects of multi-metal contamination on the soil microbiome and will help to develop bio-remediation technologies for contaminated soils.
Collapse
Affiliation(s)
- Qian Qi
- Institute of Soil and Water Resources and Environmental Science, College of Environmental and Resource Sciences, Zhejiang University, Hangzhou, 310058, China; Zhejiang Provincial Key Laboratory of Agricultural Resources and Environment, Zhejiang University, Hangzhou, 310058, China
| | - Caixia Hu
- Institute of Soil and Water Resources and Environmental Science, College of Environmental and Resource Sciences, Zhejiang University, Hangzhou, 310058, China; Zhejiang Provincial Key Laboratory of Agricultural Resources and Environment, Zhejiang University, Hangzhou, 310058, China
| | - Jiahui Lin
- Institute of Soil and Water Resources and Environmental Science, College of Environmental and Resource Sciences, Zhejiang University, Hangzhou, 310058, China; Zhejiang Provincial Key Laboratory of Agricultural Resources and Environment, Zhejiang University, Hangzhou, 310058, China
| | - Xuehua Wang
- Institute of Soil and Water Resources and Environmental Science, College of Environmental and Resource Sciences, Zhejiang University, Hangzhou, 310058, China; Zhejiang Provincial Key Laboratory of Agricultural Resources and Environment, Zhejiang University, Hangzhou, 310058, China
| | - Caixian Tang
- Department of Animal, Plant and Soil Sciences, La Trobe University, Bundoora, Victoria, 3086, Australia
| | - Zhongmin Dai
- Institute of Soil and Water Resources and Environmental Science, College of Environmental and Resource Sciences, Zhejiang University, Hangzhou, 310058, China; Zhejiang Provincial Key Laboratory of Agricultural Resources and Environment, Zhejiang University, Hangzhou, 310058, China; The Rural Development Academy at Zhejiang University, Zhejiang University, Hangzhou, 310058, China.
| | - Jianming Xu
- Institute of Soil and Water Resources and Environmental Science, College of Environmental and Resource Sciences, Zhejiang University, Hangzhou, 310058, China; Zhejiang Provincial Key Laboratory of Agricultural Resources and Environment, Zhejiang University, Hangzhou, 310058, China; The Rural Development Academy at Zhejiang University, Zhejiang University, Hangzhou, 310058, China
| |
Collapse
|
41
|
Zhang L, Yi M, Lu P. Effects of pyrene on the structure and metabolic function of soil microbial communities. ENVIRONMENTAL POLLUTION (BARKING, ESSEX : 1987) 2022; 305:119301. [PMID: 35429592 DOI: 10.1016/j.envpol.2022.119301] [Citation(s) in RCA: 11] [Impact Index Per Article: 5.5] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 02/16/2022] [Revised: 04/05/2022] [Accepted: 04/10/2022] [Indexed: 06/14/2023]
Abstract
The widely detected pyrene (PYR) is prone to accumulate and pose risks to the soil ecosystem. In this study, an aerobic closed microcosm was constructed to assess the effects of PYR at the environmental concentration (12.09 mg kg-1) on the structure, interactions, and metabolism of carbon sources of soil microbial communities. The results found that half-life of PYR was 37 d and its aerobic biodegradation was mainly implemented by both Gram-negative and Gram-positive bacteria as revealed by the quantitative results. High-throughput sequencing based on 16 S rRNA and ITS genes showed that PYR exposure interfered more significantly with the diversity and abundance of the bacterial community than that of the fungal community. For bacteria, rare species were sensitive to PYR, while Gemmatimonadota, Gaiellales, and Planococcaceae involved in organic pollutants detoxification and degradation were tolerant of PYR stress. Co-occurrence network analysis demonstrated that PYR enhanced the intraspecific cooperation within the bacterial community and altered the patterns of trophic interaction in the fungal community. Furthermore, the keystone taxa and their topological roles were altered, potentially inducing functionality changes. Function annotation suggested PYR inhibited the nitrogen fixation and ammonia oxidation processes but stimulated methylotrophy and methanol oxidation, especially on day 7. For the metabolism, microbial communities accelerated the metabolism of nitrogenous carbon sources (e.g. amine) to meet the physiological needs under PYR stress. This study clarifies the impacts of PYR on the structure, metabolism, and potential N and C cycling functions of soil microbial communities, deepening the knowledge of the environmental risks of PYR.
Collapse
Affiliation(s)
- Lilan Zhang
- State Key Laboratory of Coal Mine Disaster Dynamics and Control, Chongqing University, Chongqing, 400044, People's Republic of China; Key Laboratory of Three Gorges Reservoir Region's Eco-environment, Ministry of Education, Chongqing University, Chongqing, 400045, China.
| | - Meiling Yi
- State Key Laboratory of Coal Mine Disaster Dynamics and Control, Chongqing University, Chongqing, 400044, People's Republic of China; Key Laboratory of Three Gorges Reservoir Region's Eco-environment, Ministry of Education, Chongqing University, Chongqing, 400045, China
| | - Peili Lu
- State Key Laboratory of Coal Mine Disaster Dynamics and Control, Chongqing University, Chongqing, 400044, People's Republic of China; Key Laboratory of Three Gorges Reservoir Region's Eco-environment, Ministry of Education, Chongqing University, Chongqing, 400045, China
| |
Collapse
|
42
|
Guo Z, Hui W, Li J, Yang C, Zhang H, Wang H. Effects of soft rock on soil properties and bacterial community in Mu Us Sandy Land, China. PeerJ 2022; 10:e13561. [PMID: 35757169 PMCID: PMC9231347 DOI: 10.7717/peerj.13561] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 01/12/2022] [Accepted: 05/19/2022] [Indexed: 01/17/2023] Open
Abstract
Soft rock is a new material that could be used for the improvement of Mu Us Sandy Land, China. It can be utilized for wind prevention and sand fixation, both of which are of great importance to ecological restoration aims and cultivated land replenishment in desert areas. Four treatments with different compound ratios of soft rock and sand-0:1 (CK), 1:5 (P1), 1:2 (P2), and 1:1 (P3)-were studied. Fluorescence quantitative PCR (qPCR) and high-throughput sequencing were used to analyze the structure and diversity of the bacterial community in the compound soil and its relationship with physical and chemical parameters in the soil. The results showed that in comparison to CK treatment, soil organic carbon (SOC), total nitrogen (TN), and NH4 +-N increased significantly in the P1 treatment; available phosphorus (AP), available potassium (AK), and NO3 --N increased significantly in the P3 treatment. The bacterial gene copy number with P3 treatment was highest, showing a significant increase of 182.05% compared with the CK treatment. The three bacterial groups with the highest relative abundance at the phylum level were Actinobacteria, Proteobacteria, and Chloroflexi, accounting for more than 70% of the total population. The bacterial α diversity showed the same trend, the diversity and abundance indices of the P1 and P3 treatments were the highest, and the β diversity showed that the community structure of the two groups in these treatments were similar. norank_f__Roseiflexaceae and Gaiella (belonging to Actinobacteria) significantly differed with differing compound ratios in each treatment. NO3 --N, NH4 +-N and SOC were the main factors affecting bacterial community structure, and had a significant positive correlation with Gaiella abundance. These species are known to play an important role in stabilizing the soil structure of sandy land. Overall, 1:5 and 1:1 compound soil mixtures were beneficial towards the microbial community of sandy land, which plays an important role in biological sand fixation. This study provides an important theoretical basis for the supplementation of arable land area and the improvement of sandy land productivity, and has a good promotion prospect.
Collapse
Affiliation(s)
- Zhen Guo
- Shaanxi Provincial Land Engineering Construction Group Co., Ltd., Xi’an, Shaanxi, China,Institute of Land Engineering and Technology, Shaanxi Provincial Land Engineering Construction Group Co., Ltd., Xi’an, Shaanxi, China
| | - Wei Hui
- Shaanxi Provincial Land Engineering Construction Group Co., Ltd., Xi’an, Shaanxi, China
| | - Juan Li
- Shaanxi Provincial Land Engineering Construction Group Co., Ltd., Xi’an, Shaanxi, China,Institute of Land Engineering and Technology, Shaanxi Provincial Land Engineering Construction Group Co., Ltd., Xi’an, Shaanxi, China
| | - Chenxi Yang
- Shaanxi Provincial Land Engineering Construction Group Co., Ltd., Xi’an, Shaanxi, China,Institute of Land Engineering and Technology, Shaanxi Provincial Land Engineering Construction Group Co., Ltd., Xi’an, Shaanxi, China
| | - Haiou Zhang
- Shaanxi Provincial Land Engineering Construction Group Co., Ltd., Xi’an, Shaanxi, China,Institute of Land Engineering and Technology, Shaanxi Provincial Land Engineering Construction Group Co., Ltd., Xi’an, Shaanxi, China
| | - Huanyuan Wang
- Shaanxi Provincial Land Engineering Construction Group Co., Ltd., Xi’an, Shaanxi, China,Institute of Land Engineering and Technology, Shaanxi Provincial Land Engineering Construction Group Co., Ltd., Xi’an, Shaanxi, China
| |
Collapse
|
43
|
Cruz-Hernández MA, Mendoza-Herrera A, Bocanegra-García V, Rivera G. Azospirillum spp. from Plant Growth-Promoting Bacteria to Their Use in Bioremediation. Microorganisms 2022; 10:1057. [PMID: 35630499 PMCID: PMC9143718 DOI: 10.3390/microorganisms10051057] [Citation(s) in RCA: 1] [Impact Index Per Article: 0.5] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 02/23/2022] [Revised: 05/17/2022] [Accepted: 05/18/2022] [Indexed: 02/01/2023] Open
Abstract
Xenobiotic contamination, a worldwide environmental concern, poses risks for humans, animals, microbe health, and agriculture. Hydrocarbons and heavy metals top the list of toxins that represent a risk to nature. This review deals with the study of Azospirillum sp., widely reported as plant growth-promoting bacteria in various cultures. However, its adaptation properties in adverse environments make it a good candidate for studying remediation processes in environments polluted with hydrocarbons and heavy metals. This review includes studies that address its properties as a plant growth promoter, its genomics, and that evaluate its potential use in the remediation of hydrocarbons and heavy metals.
Collapse
Affiliation(s)
- María Antonia Cruz-Hernández
- Laboratorio Interacción Ambiente Microorganismo, Centro de Biotecnología Genómica, Instituto Politécnico Nacional, Reynosa 88710, Mexico; (M.A.C.-H.); (A.M.-H.); (V.B.-G.)
| | - Alberto Mendoza-Herrera
- Laboratorio Interacción Ambiente Microorganismo, Centro de Biotecnología Genómica, Instituto Politécnico Nacional, Reynosa 88710, Mexico; (M.A.C.-H.); (A.M.-H.); (V.B.-G.)
| | - Virgilio Bocanegra-García
- Laboratorio Interacción Ambiente Microorganismo, Centro de Biotecnología Genómica, Instituto Politécnico Nacional, Reynosa 88710, Mexico; (M.A.C.-H.); (A.M.-H.); (V.B.-G.)
| | - Gildardo Rivera
- Laboratorio de Biotecnología Farmacéutica, Centro de Biotecnología Genómica, Instituto Politécnico Nacional, Reynosa 88710, Mexico
| |
Collapse
|
44
|
Liu B, Yao J, Chen Z, Ma B, Li H, Wancheng P, Liu J, Wang D, Duran R. Biogeography, assembly processes and species coexistence patterns of microbial communities in metalloids-laden soils around mining and smelting sites. JOURNAL OF HAZARDOUS MATERIALS 2022; 425:127945. [PMID: 34896705 DOI: 10.1016/j.jhazmat.2021.127945] [Citation(s) in RCA: 20] [Impact Index Per Article: 10.0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 09/28/2021] [Revised: 11/25/2021] [Accepted: 11/26/2021] [Indexed: 06/14/2023]
Abstract
Microbes are important component in terrestrial ecosystem, which are believed to play vital roles in biogeochemical cycles of metalloids in mining and smelting surroundings. Many studies on microbial diversity and structures have been investigated around mining and smelting sites, whereas the ecological processes and co-occurrence patterns that influence the biogeographic distributions of microbial communities is yet poorly understood. Herein, microbial biogeography, assembly mechanism and co-occurrence pattern around mining and smelting zone were systematically unraveled using 16S rRNA gene sequencing. The 66 microbial phyla co-occurring across all the samples were dominated by Proteobacteria, Chloroflexi, Acidobacteria and Crenarchaeota. Obvious distance-decay (r = 0.3448, p < 0.001) of microbial community was observed across geographic distances. Differences in microbial communities were driven by the joint impacts of soil factors, spatial and metalloids levels. Dispersal limitation dominated the microbial assemblies in whole, SC and GX sites while homogeneous selection governed that in YN site. The changes in pH and Sb level significantly influenced the deterministic and stochastic processes of microbial communities. Network analysis suggested a typical module distribution, which had apparent ecological links among taxa in modules. This study provides first insight of the mechanism to maintain microbial diversity in metalloids-laden biospheres.
Collapse
Affiliation(s)
- Bang Liu
- School of Water Resource and Environment, Research Center of Environmental Science and Engineering, MOE Key Laboratory of Groundwater Circulation and Environmental Evolution, China University of Geosciences (Beijing), 29 Xueyuan Road, Haidian District, Beijing 100083, People's Republic of China
| | - Jun Yao
- School of Water Resource and Environment, Research Center of Environmental Science and Engineering, MOE Key Laboratory of Groundwater Circulation and Environmental Evolution, China University of Geosciences (Beijing), 29 Xueyuan Road, Haidian District, Beijing 100083, People's Republic of China.
| | - Zhihui Chen
- School of Water Resource and Environment, Research Center of Environmental Science and Engineering, MOE Key Laboratory of Groundwater Circulation and Environmental Evolution, China University of Geosciences (Beijing), 29 Xueyuan Road, Haidian District, Beijing 100083, People's Republic of China
| | - Bo Ma
- School of Water Resource and Environment, Research Center of Environmental Science and Engineering, MOE Key Laboratory of Groundwater Circulation and Environmental Evolution, China University of Geosciences (Beijing), 29 Xueyuan Road, Haidian District, Beijing 100083, People's Republic of China
| | - Hao Li
- School of Water Resource and Environment, Research Center of Environmental Science and Engineering, MOE Key Laboratory of Groundwater Circulation and Environmental Evolution, China University of Geosciences (Beijing), 29 Xueyuan Road, Haidian District, Beijing 100083, People's Republic of China
| | - Pang Wancheng
- School of Water Resource and Environment, Research Center of Environmental Science and Engineering, MOE Key Laboratory of Groundwater Circulation and Environmental Evolution, China University of Geosciences (Beijing), 29 Xueyuan Road, Haidian District, Beijing 100083, People's Republic of China
| | - Jianli Liu
- School of Water Resource and Environment, Research Center of Environmental Science and Engineering, MOE Key Laboratory of Groundwater Circulation and Environmental Evolution, China University of Geosciences (Beijing), 29 Xueyuan Road, Haidian District, Beijing 100083, People's Republic of China
| | - Daya Wang
- Huawei National Engineering Research Center of High Efficient Cyclic Utilization of Metallic Mineral Resources Co., Ltd., 666 Xitang Road, Huashan District, Maanshan, Anhui 243000, People's Republic of China; Sinosteel Maanshan Institute of Mining Research Co., Ltd., 666 Xitang Road, Huashan District, Maanshan, Anhui 243000, People's Republic of China
| | - Robert Duran
- School of Water Resource and Environment, Research Center of Environmental Science and Engineering, MOE Key Laboratory of Groundwater Circulation and Environmental Evolution, China University of Geosciences (Beijing), 29 Xueyuan Road, Haidian District, Beijing 100083, People's Republic of China; Equipe Environnement et Microbiologie, MELODY Group, Université de Pau et des Pays de l'Adour, E2S-UPPA, IPREM UMR CNRS 5254, BP 1155, 64013 Pau Cedex, France
| |
Collapse
|
45
|
Huang C, Zhang X, Wang K, Yue S, Qiao Y. Evidence for the metal resistance of earthworm Eisenia fetida across generations (F1 and F2) under laboratory metal exposure. JOURNAL OF HAZARDOUS MATERIALS 2022; 425:128006. [PMID: 34896725 DOI: 10.1016/j.jhazmat.2021.128006] [Citation(s) in RCA: 11] [Impact Index Per Article: 5.5] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 08/26/2021] [Revised: 11/22/2021] [Accepted: 12/04/2021] [Indexed: 06/14/2023]
Abstract
Environmental stressors are persistent but most toxicological studies always evaluate the risk via short-term acute toxicity, while continuous toxicity and biological resistance across generations are relatively unknown. Here, earthworm Eisenia fetida was laboratory-reared and exposed to historically contaminated soils with an increasing metal gradient (CK, LM and HM), to investigate cross-generation toxicity and resistance of F1 and F2 worms. The results elucidated that biomass and juvenile hatching rate of F2 E. fetida showed maximum decreases of 20.8% and 38.5% than those of F1, which indicated severer toxicity of earthworm offspring. However, metal bioaccumulation in F2 E. fetida showed maximum increases of 150%, 49.2%, 19.7% and 25.5% than F1 for Cd, Cu, Zn and Pb, respectively. F2 E. fetida suffered less oxidative stress because the activities of superoxide dismutase (SOD), peroxidase (POD), glutathione (GSH), and malondialdehyde (MDA) contents were basically lower than that of F1. Meanwhile, the detoxification genes of metallothionein and heat shock protein 70 in F2 E. fetida showed maximum of 296% and 78.9% up-regulations, respectively, which suggested greater metal resistance of F2 E. fetida. This study confirmed the cross-generation toxicity and resistance of earthworms, which provides novel insights to reveal specific contaminant risks from longer lifecycles. CAPSULE: Earthworms under cross-generation exposure can develop metal resistance despite suffering worse toxicity effects.
Collapse
Affiliation(s)
- Caide Huang
- College of Resources and Environmental Science, China Agricultural University, Beijing 100193, China
| | - Xiaoling Zhang
- College of Resources and Environmental Science, China Agricultural University, Beijing 100193, China
| | - Kun Wang
- College of Resources and Environmental Science, China Agricultural University, Beijing 100193, China; State Key Laboratory of North China Crop Improvement and Regulation, College of Resources and Environmental Science, Hebei Agricultural University, Baoding 071001, China
| | - Shizhong Yue
- College of Resources and Environmental Science, China Agricultural University, Beijing 100193, China; Shandong Provincial Key Laboratory of Biophysics, Institute of Biophysics, Dezhou University, Dezhou 253023, China
| | - Yuhui Qiao
- College of Resources and Environmental Science, China Agricultural University, Beijing 100193, China; Beijing Key Laboratory of Biodiversity and Organic Farming, China Agricultural University, Beijing 100193, China.
| |
Collapse
|
46
|
Floc’h JB, Hamel C, Laterrière M, Tidemann B, St-Arnaud M, Hijri M. Long-Term Persistence of Arbuscular Mycorrhizal Fungi in the Rhizosphere and Bulk Soils of Non-host Brassica napus and Their Networks of Co-occurring Microbes. FRONTIERS IN PLANT SCIENCE 2022; 13:828145. [PMID: 35283923 PMCID: PMC8914178 DOI: 10.3389/fpls.2022.828145] [Citation(s) in RCA: 2] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [Abstract] [Key Words] [Grants] [Track Full Text] [Subscribe] [Scholar Register] [Received: 12/03/2021] [Accepted: 01/25/2022] [Indexed: 05/25/2023]
Abstract
Arbuscular mycorrhizal fungi (AMF) are obligate plant symbionts that improve the nutrition and health of their host. Most, but not all the crops form a symbiosis with AMF. It is the case for canola (Brassica napus), an important crop in the Canadian Prairies that is known to not form this association. From 2008 to 2018, an experiment was replicated at three locations of the Canadian Prairies and it was used to assess the impact of canola on the community of AMF naturally occurring in three cropping systems, canola monoculture, or canola in two different rotation systems (2-years, canola-wheat and 3-years, barley-pea-canola). We sampled canola rhizosphere and bulk soils to: (i) determine diversity and community structure of AMF, we expected that canola will negatively impact AMF communities in function of its frequency in crop rotations and (ii) wanted to assess how these AMF communities interact with other fungi and bacteria. We detected 49 AMF amplicon sequence variants (ASVs) in canola rhizosphere and bulk soils, confirming the persistence of a diversified AMF community in canola-planted soil, even after 10 years of canola monoculture, which was unexpected considering that canola is among non-mycorrhizal plants. Network analysis revealed a broad range of potential interactions between canola-associated AMF and some fungal and bacterial taxa. We report for the first time that two AMF, Funneliformis mosseae and Rhizophagus iranicus, shared their bacterial cohort almost entirely in bulk soil. Our results suggest the existence of non-species-specific AMF-bacteria or AMF-fungi relationships that could benefit AMF in absence of host plants. The persistence of an AMF community in canola rhizosphere and bulk soils brings a new light on AMF ecology and leads to new perspectives for further studies about AMF and soil microbes interactions and AMF subsistence without mycotrophic host plants.
Collapse
Affiliation(s)
- Jean-Baptiste Floc’h
- Département de Sciences Biologiques, Institut de Recherche en Biologie Végétale, Université de Montréal, Montréal, QC, Canada
- Quebec Research and Development Centre, Agriculture and Agri-Food Canada, Québec, QC, Canada
| | - Chantal Hamel
- Département de Sciences Biologiques, Institut de Recherche en Biologie Végétale, Université de Montréal, Montréal, QC, Canada
- Quebec Research and Development Centre, Agriculture and Agri-Food Canada, Québec, QC, Canada
| | - Mario Laterrière
- Quebec Research and Development Centre, Agriculture and Agri-Food Canada, Québec, QC, Canada
| | - Breanne Tidemann
- Lacombe Research and Development Centre, Agriculture and Agri-Food Canada, Lacombe, AB, Canada
| | - Marc St-Arnaud
- Département de Sciences Biologiques, Institut de Recherche en Biologie Végétale, Université de Montréal, Montréal, QC, Canada
| | - Mohamed Hijri
- Département de Sciences Biologiques, Institut de Recherche en Biologie Végétale, Université de Montréal, Montréal, QC, Canada
- African Genome Center, Mohammed VI Polytechnic University (UM6P), Ben Guerir, Morocco
| |
Collapse
|
47
|
Cáceres PFF, Vélez LP, Junca H, Moreno-Herrera CX. Theobroma cacao L. agricultural soils with natural low and high cadmium (Cd) in Santander (Colombia), contain a persistent shared bacterial composition shaped by multiple soil variables and bacterial isolates highly resistant to Cd concentrations. CURRENT RESEARCH IN MICROBIAL SCIENCES 2021; 2:100086. [PMID: 34927107 PMCID: PMC8649583 DOI: 10.1016/j.crmicr.2021.100086] [Citation(s) in RCA: 1] [Impact Index Per Article: 0.3] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 03/31/2021] [Revised: 11/22/2021] [Accepted: 11/26/2021] [Indexed: 12/21/2022] Open
Abstract
This study report statistically significant differences in beta-diversity correlated with soil properties, including Cd concentrations. Culture-dependent techniques allowed the isolation of bacterial strains tolerating high Cd concentrations up to 120 mgL−1 for potencial Cd biosorption or intracellular sequestration. The combination of different approaches provides a baseline about the bacterial composition and Cd tolerant strains found in these soils influence for lower Cd accumulation in cocoa crops.
Heavy metals can be found in soil as natural components or as product of contaminations events; plants growing in soils are prone to bioaccumulate heavy metals on their biomass. Theobroma cacao L. can bioaccumulate cadmium (Cd) in the seed and could be in derived food products, it considered a human health risk; therefore, removal of Cd is desirable but not vet technically and economically feasible; only to avoid Cd in cocoa is by selecting lands plots exhibiting lower Cd concentrations in soils, imposing a serious limitation to farmers and regulators. The study of bacterial communities and isolation bacteria with tolerance and mechanisms to counteract the translocation of Cd to the parts of cocoa plant exhibits high relevance in Colombia economy and especially to companies producing chocolate and derivatives. Here, we explore bacterial communities associated with soils having relatively high natural Cd concentrations in a large agricultural cocoa plot located in the Santander region. We characterized the bacterial communities’ compositions by amplicon 16S rRNA sequencing from metagenomics soil DNA and by culturing-based enumeration and isolation approaches. Culture-dependent techniques allowed the isolation of bacteria tolerant to Cd concentration, complement the information for Colombia, and expand the number of strains characterized with adaptive capacity against Cd with tolerance in a concentration of 120 mg/L, which represents the first capacity for Exiguobacterium sp., Ralstonia sp., Serratia sp., Dermacoccus sp., Klebsiella sp., Lactococcus sp. and Staphylococcus sp. In addition to confirming that there is a greater diversity of Cd-tolerant bacteria present in soils of farms cultivated with cocoa in Colombia. As for the results of new generation sequencing, they revealed that, the alpha-diversity in bacterial composition, according to the ANOVA, there are statistically significant differences of the bacterial communities present in the samples. Regarding Pearson correlation analysis, it was found the Shannon Simpson indices, have a positive correlation against OM, C, pH, Mn, C.E.C.I., Ca, P and negatively correlated with S; respect to bacterial community structure, a principal component analysis, which revealed that independent of the concentration of Cd present in soil samples, separates them according to pH value. Phyla to high abundance relative in all samples were Proteobacteria, Acidobacteriota, Actinobacteriota, Verrucomicrobiota, Myxococcota, Chloroflexi, Plactomycetota, Bacteroidota, Gemmatimonadota, Nitrospirota, Firmicutes and NB1_J; the bacteria genera with higher relative abundance (>0.5%) Nitrospira, candidatus Udaeobacter, Haliangium, Cupriavidus, MND1, Bacillus, Kitasatospora, Niveibacterium, Acidothermus, Burkholderia, Acidibacter, Terrimonas, Gaiella, candidatus Solibacter, Kitasatospora, Sphingomonas, Streptomyces, this genus with a relationship with the Cd tolerance process. After it, redundancy analysis was performed between the variation of the bacterial communities identified by dependent and independent techniques and edaphic soil variables, where their positive correlation was found against K, OM, C, Ca, pH (p<0.01) and P, C.E.C.I (p<0.05). For soil samples, the bacterial genera that make up the core community were identified, which are present in all samples as Nitrospira sp., Cupriavidus sp., Burkholderia sp., Haliangium sp., candidatus Udaeobacter, MND1, Kitasatospora, Acidothermus, Acidibacter, Streptomyces, Gaiella, candidatus Solibacter and Terramonas; the genera identified has a different and fundamental role in ecosystem functioning. The combination of different approaches offers new clues regarding the assessment of bacterial communities in soils cultivated with cocoa in soils with elevated Cd content in Colombia, and the ecological role and interplay of soil components and bacterial communities that contribute to modulate the effect of bioaccumulation in products.
Collapse
Affiliation(s)
- Pedro Felipe Feria Cáceres
- Universidad Nacional de Colombia, Faculty of Science, Microbiodiversity and bioprospecting research group, Cra. 65 #59a-110, Cellular and Molecular Biology laboratory 19-A 310, Medellin, Colombia
- Center for Research, Development and Quality – CIDCA (Spanish acronym), Compañía Nacional de Chocolates, Km.2 Vía Belén-Rionegro-Colombia
- Corresponding authors at: Universidad Nacional de Colombia, Faculty of Science, Microbiodiversity and bioprospecting research group, Cra. 65 # 59a-110, Cellular and Molecular Biology laboratory 19-A 310, Medellin, Colombia.
| | - Lucas Penagos Vélez
- Center for Research, Development and Quality – CIDCA (Spanish acronym), Compañía Nacional de Chocolates, Km.2 Vía Belén-Rionegro-Colombia
| | - Howard Junca
- RG Microbial Ecology: Metabolism, Genomics & Evolution, Div. Ecogenomics and Holobionts, Microbiomas Foundation, LT11A, 250008 Chía, Colombia
| | - Claudia Ximena Moreno-Herrera
- Universidad Nacional de Colombia, Faculty of Science, Microbiodiversity and bioprospecting research group, Cra. 65 #59a-110, Cellular and Molecular Biology laboratory 19-A 310, Medellin, Colombia
- Corresponding authors at: Universidad Nacional de Colombia, Faculty of Science, Microbiodiversity and bioprospecting research group, Cra. 65 # 59a-110, Cellular and Molecular Biology laboratory 19-A 310, Medellin, Colombia.
| |
Collapse
|