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Alam M, Pandit B, Moin A, Iqbal UN. Invisible Inhabitants of Plants and a Sustainable Planet: Diversity of Bacterial Endophytes and their Potential in Sustainable Agriculture. Indian J Microbiol 2024; 64:343-366. [PMID: 39011025 PMCID: PMC11246410 DOI: 10.1007/s12088-024-01225-6] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 07/31/2023] [Accepted: 02/07/2024] [Indexed: 07/17/2024] Open
Abstract
Uncontrolled usage of chemical fertilizers, climate change due to global warming, and the ever-increasing demand for food have necessitated sustainable agricultural practices. Removal of ever-increasing environmental pollutants, treatment of life-threatening diseases, and control of drug-resistant pathogens are also the need of the present time to maintain the health and hygiene of nature, as well as human beings. Research on plant-microbe interactions is paving the way to ameliorate all these sustainably. Diverse bacterial endophytes inhabiting the internal tissues of different parts of the plants promote the growth and development of their hosts by different mechanisms, such as through nutrient acquisition, phytohormone production and modulation, protection from biotic or abiotic challenges, assisting in flowering and root development, etc. Notwithstanding, efficient exploitation of endophytes in human welfare is hindered due to scarce knowledge of the molecular aspects of their interactions, community dynamics, in-planta activities, and their actual functional potential. Modern "-omics-based" technologies and genetic manipulation tools have empowered scientists to explore the diversity, dynamics, roles, and functional potential of endophytes, ultimately empowering humans to better use them in sustainable agricultural practices, especially in future harsh environmental conditions. In this review, we have discussed the diversity of bacterial endophytes, factors (biotic as well as abiotic) affecting their diversity, and their various plant growth-promoting activities. Recent developments and technological advancements for future research, such as "-omics-based" technologies, genetic engineering, genome editing, and genome engineering tools, targeting optimal utilization of the endophytes in sustainable agricultural practices, or other purposes, have also been discussed.
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Affiliation(s)
- Masrure Alam
- Microbial Ecology and Physiology Lab, Department of Biological Sciences, Aliah University, IIA/27 New Town, Kolkata, West Bengal 700160 India
| | - Baishali Pandit
- Microbial Ecology and Physiology Lab, Department of Biological Sciences, Aliah University, IIA/27 New Town, Kolkata, West Bengal 700160 India
- Department of Botany, Surendranath College, 24/2 MG Road, Kolkata, West Bengal 700009 India
| | - Abdul Moin
- Microbial Ecology and Physiology Lab, Department of Biological Sciences, Aliah University, IIA/27 New Town, Kolkata, West Bengal 700160 India
| | - Umaimah Nuzhat Iqbal
- Microbial Ecology and Physiology Lab, Department of Biological Sciences, Aliah University, IIA/27 New Town, Kolkata, West Bengal 700160 India
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Seth N, Vats S, Lakhanpaul S, Arafat Y, Mazumdar-Leighton S, Bansal M, Babu CR. Microbial community diversity of an integrated constructed wetland used for treatment of sewage. Front Microbiol 2024; 15:1355718. [PMID: 38562473 PMCID: PMC10982315 DOI: 10.3389/fmicb.2024.1355718] [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: 12/14/2023] [Accepted: 03/04/2024] [Indexed: 04/04/2024] Open
Abstract
The microbial community diversity in Constructed Wetland System (CWS) plays a key role in the removal of pollutants from waste water. An integrated functional CWS developed at Neela Hauz Biodiversity Park, Delhi was selected to assess the diversity in composition and structure of microbial community diversity of sludge and sediment of CWS, based on metagenomic approach using 16S rRNA genes. The sediment showed higher diversity than sludge and both formed distinct clusters. The taxonomic structure of the microbial community of CWS is represented by 6,731 OTUs distributed among 2 kingdoms, 103 phyla, 227 classes, 337 orders, 320 families, 295 identified genera, and 84 identified species. The relative abundance of top 5 dominant phyla of sludge and sediment varied from 3.77% (Acidobacteria) to 35.33% (Proteobacteria) and 4.07% (Firmicutes) to 28.20% (Proteobacteria), respectively. The range of variation in relative abundance of top 5 dominant genera of sludge and sediment was 2.58% (Hyphomicrobium) to 6.61% (Planctomyces) and 2.47% (Clostridium) to 4.22% (Syntrophobacter), respectively. The rich microbial diversity of CWS makes it perform better in pollutants removal (59.91-95.76%) than other CWs. Based on the abundance values of taxa, the taxa are grouped under four frequency distribution classes-abundant (>20), common (10-19), rare (5-9), and very rare (1-4). The unique structure of microbial communities of integrated CWS is that the number of abundant taxa decreases in descending order of taxonomic hierarchy, while the number of rare and very rare taxa increases. For example, the number of abundant phyla was 14 and 21 in sludge and sediment, respectively and both communities have only 3 abundant genera each. This is in contrast to 4 and 17 very rare phyla in sludge and sediment, respectively and both the communities have 114 and 91 very rare genera, respectively. The outcomes of the study is that the integrated CWS has much higher microbial community diversity than the diversity reported for other CWs, and the rich diversity can be used for optimizing the performance efficiency of CWS in the removal of pollutants from waste water. Such structural diversity might be an adaptation to heterogeneous environment of CWS.
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Affiliation(s)
- Nidhi Seth
- Department of Computer Science, Banasthali Vidyapith, Vanasthali, India
- CEMDE, University of Delhi, New Delhi, India
| | - Sharad Vats
- Department of Biotechnology, Banasthali Vidyapith, Vanasthali, India
| | | | | | | | - Mansi Bansal
- Department of Botany, University of Delhi, New Delhi, India
| | - C. R. Babu
- CEMDE, University of Delhi, New Delhi, India
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Tamang A, Kaur A, Thakur D, Thakur A, Thakur BK, Shivani, Swarnkar M, Pal PK, Hallan V, Pandey SS. Unraveling endophytic diversity in dioecious Siraitia grosvenorii: implications for mogroside production. Appl Microbiol Biotechnol 2024; 108:247. [PMID: 38427084 PMCID: PMC10907472 DOI: 10.1007/s00253-024-13076-8] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 08/10/2023] [Revised: 01/04/2024] [Accepted: 02/16/2024] [Indexed: 03/02/2024]
Abstract
Host and tissue-specificity of endophytes are important attributes that limit the endophyte application on multiple crops. Therefore, understanding the endophytic composition of the targeted crop is essential, especially for the dioecious plants where the male and female plants are different. Here, efforts were made to understand the endophytic bacterial composition of the dioecious Siraitia grosvenorii plant using 16S rRNA amplicon sequencing. The present study revealed the association of distinct endophytic bacterial communities with different parts of male and female plants. Roots of male and female plants had a higher bacterial diversity than other parts of plants, and the roots of male plants had more bacterial diversity than the roots of female plants. Endophytes belonging to the phylum Proteobacteria were abundant in all parts of male and female plants except male stems and fruit pulp, where the Firmicutes were most abundant. Class Gammaproteobacteria predominated in both male and female plants, with the genus Acinetobacter as the most dominant and part of the core microbiome of the plant (present in all parts of both, male and female plants). The presence of distinct taxa specific to male and female plants was also identified. Macrococcus, Facklamia, and Propionibacterium were the distinct genera found only in fruit pulp, the edible part of S. grosvenorii. Predictive functional analysis revealed the abundance of enzymes of secondary metabolite (especially mogroside) biosynthesis in the associated endophytic community with predominance in roots. The present study revealed bacterial endophytic communities of male and female S. grosvenorii plants that can be further explored for monk fruit cultivation, mogroside production, and early-stage identification of male and female plants. KEY POINTS: • Male and female Siraitia grosvenorii plants had distinct endophytic communities • The diversity of endophytic communities was specific to different parts of plants • S. grosvenorii-associated endophytes may be valuable for mogroside biosynthesis and monk fruit cultivation.
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Affiliation(s)
- Anish Tamang
- Biotechnology Division, CSIR-Institute of Himalayan Bioresource Technology (IHBT), Palampur, 176061, HP, India
- Academy of Scientific and Innovative Research (AcSIR), Ghaziabad, 201002, India
| | - Amanpreet Kaur
- Biotechnology Division, CSIR-Institute of Himalayan Bioresource Technology (IHBT), Palampur, 176061, HP, India
| | - Deepali Thakur
- Biotechnology Division, CSIR-Institute of Himalayan Bioresource Technology (IHBT), Palampur, 176061, HP, India
| | - Ankita Thakur
- Biotechnology Division, CSIR-Institute of Himalayan Bioresource Technology (IHBT), Palampur, 176061, HP, India
- Academy of Scientific and Innovative Research (AcSIR), Ghaziabad, 201002, India
| | - Babit Kumar Thakur
- Agrotechnology Division, CSIR-Institute of Himalayan Bioresource Technology (IHBT), Palampur, 176061, HP, India
- Academy of Scientific and Innovative Research (AcSIR), Ghaziabad, 201002, India
| | - Shivani
- Agrotechnology Division, CSIR-Institute of Himalayan Bioresource Technology (IHBT), Palampur, 176061, HP, India
- Academy of Scientific and Innovative Research (AcSIR), Ghaziabad, 201002, India
| | - Mohit Swarnkar
- Biotechnology Division, CSIR-Institute of Himalayan Bioresource Technology (IHBT), Palampur, 176061, HP, India
| | - Probir K Pal
- Agrotechnology Division, CSIR-Institute of Himalayan Bioresource Technology (IHBT), Palampur, 176061, HP, India
- Academy of Scientific and Innovative Research (AcSIR), Ghaziabad, 201002, India
| | - Vipin Hallan
- Biotechnology Division, CSIR-Institute of Himalayan Bioresource Technology (IHBT), Palampur, 176061, HP, India
- Academy of Scientific and Innovative Research (AcSIR), Ghaziabad, 201002, India
| | - Shiv Shanker Pandey
- Biotechnology Division, CSIR-Institute of Himalayan Bioresource Technology (IHBT), Palampur, 176061, HP, India.
- Academy of Scientific and Innovative Research (AcSIR), Ghaziabad, 201002, India.
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Kracmarova-Farren M, Papik J, Uhlik O, Freeman J, Foster A, Leewis MC, Creamer C. Compost, plants and endophytes versus metal contamination: choice of a restoration strategy steers the microbiome in polymetallic mine waste. ENVIRONMENTAL MICROBIOME 2023; 18:74. [PMID: 37805609 PMCID: PMC10559404 DOI: 10.1186/s40793-023-00528-3] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Grants] [Track Full Text] [Subscribe] [Scholar Register] [Received: 05/02/2023] [Accepted: 09/14/2023] [Indexed: 10/09/2023]
Abstract
Finding solutions for the remediation and restoration of abandoned mining areas is of great environmental importance as they pose a risk to ecosystem health. In this study, our aim was to determine how remediation strategies with (i) compost amendment, (ii) planting a metal-tolerant grass Bouteloua curtipendula, and (iii) its inoculation with beneficial endophytes influenced the microbiome of metal-contaminated tailings originating from the abandoned Blue Nose Mine, SE Arizona, near Patagonia (USA). We conducted an indoor microcosm experiment followed by a metataxonomic analysis of the mine tailings, compost, and root samples. Our results showed that each remediation strategy promoted a distinct pattern of microbial community structure in the mine tailings, which correlated with changes in their chemical properties. The combination of compost amendment and endophyte inoculation led to the highest prokaryotic diversity and total nitrogen and organic carbon, but also induced shifts in microbial community structure that significantly correlated with an enhanced potential for mobilization of Cu and Sb. Our findings show that soil health metrics (total nitrogen, organic carbon and pH) improved, and microbial community changed, due to organic matter input and endophyte inoculation, which enhanced metal leaching from the mine waste and potentially increased environmental risks posed by Cu and Sb. We further emphasize that because the initial choice of remediation strategy can significantly impact trace element mobility via modulation of both soil chemistry and microbial communities, site specific, bench-scale preliminary tests, as reported here, can help determine the potential risk of a chosen strategy.
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Affiliation(s)
- Martina Kracmarova-Farren
- Department of Biochemistry and Microbiology, Faculty of Food and Biochemical Technology, University of Chemistry and Technology, Prague, Technicka 3, 166 28, Prague 6, Czech Republic
| | - Jakub Papik
- Department of Biochemistry and Microbiology, Faculty of Food and Biochemical Technology, University of Chemistry and Technology, Prague, Technicka 3, 166 28, Prague 6, Czech Republic.
| | - Ondrej Uhlik
- Department of Biochemistry and Microbiology, Faculty of Food and Biochemical Technology, University of Chemistry and Technology, Prague, Technicka 3, 166 28, Prague 6, Czech Republic
| | - John Freeman
- Intrinsyx Environmental, Sunnyvale, CA, 94085, USA
| | | | - Mary-Cathrine Leewis
- U.S. Geological Survey, Menlo Park, CA, USA
- Agriculture and Agri-Food Canada, Quebec Research and Development Centre, Quebec, QC, Canada
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Świątczak J, Kalwasińska A, Szabó A, Brzezinska MS. The effect of seed bacterization with Bacillus paralicheniformis 2R5 on bacterial and fungal communities in the canola rhizosphere. Microbiol Res 2023; 275:127448. [PMID: 37453237 DOI: 10.1016/j.micres.2023.127448] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 04/17/2023] [Revised: 05/29/2023] [Accepted: 07/03/2023] [Indexed: 07/18/2023]
Abstract
Bacillus sp. is one of the best-studied plant growth-promoting rhizobacteria (PGPR). However, more detailed studies targeting its effect on the rhizosphere microbial community are required for improving management practices regarding its commercial application in the field. Our earlier study showed that PGPR Bacillus paralicheniformis 2R5 stimulated canola growth. Hence, this study aimed to assess the time-course impact of B. paralicheniformis 2R5 on bacterial and fungal community structure and diversity. The results showed that inoculation with B. paralicheniformis 2R5 initially significantly decreased the observed bacterial richness compared to the control, while after 44 days of treatment this alpha diversity metrics increased. A linear discriminant analysis effect size showed that B. paralicheniformis 2R5 altered the soil bacterial and fungal community structure by increasing the abundance of plants' beneficial microorganisms such as Nitrospira, Ramlibacter, Sphingomonas, Massilia, Terrimonas as well as Solicoccozyma, Schizothecium, Cyphellophora, Fusicolla, Humicola. B. paralicheniformis 2R5 seems to be a promising alternative to chemical pesticides and can be considered for practical application in the field. Its ability to alter the rhizosphere microbiome by increasing the diversity and composition of bacterial communities and increasing plants' beneficial groups of fungi, appears to be important in terms of improving canola development. However, further studies on these increased microbial taxa are necessary to confirm their function in promoting canola growth.
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Affiliation(s)
- Joanna Świątczak
- Department of Environmental Microbiology and Biotechnology, Nicolaus Copernicus University in Toruń, Lwowska 1, 87-100 Toruń, Poland.
| | - Agnieszka Kalwasińska
- Department of Environmental Microbiology and Biotechnology, Nicolaus Copernicus University in Toruń, Lwowska 1, 87-100 Toruń, Poland
| | - Attila Szabó
- Department of Aquatic Sciences and Assessment, Swedish University of Agricultural Sciences, Lennart Hjelms väg 9, SE-75007 Uppsala, Sweden
| | - Maria Swiontek Brzezinska
- Department of Environmental Microbiology and Biotechnology, Nicolaus Copernicus University in Toruń, Lwowska 1, 87-100 Toruń, Poland
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Xiao Y, Chen L, Teng K, Ma J, Xiang S, Jiang L, Liu G, Yang B, Fang J. Potential roles of the rhizospheric bacterial community in assisting Miscanthus floridulus in remediating multi-metal(loid)s contaminated soils. ENVIRONMENTAL RESEARCH 2023; 227:115749. [PMID: 36965787 DOI: 10.1016/j.envres.2023.115749] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Subscribe] [Scholar Register] [Received: 01/28/2023] [Revised: 02/23/2023] [Accepted: 03/22/2023] [Indexed: 05/08/2023]
Abstract
Phytoremediation technology is an important approach applied to heavy metal remediation, and how to improve its remediation efficiency is the key. In this study, we compared the rhizospheric bacterial communities and metals contents in Miscanthus floridulus (M. floridulus) of four towns, including Huayuan Town (HY), Longtan Town (LT), Maoer Village (ME), and Minle Town (ML) around the lead-zinc mining area in Huayuan County, China. The roles of rhizospheric bacterial communities in assisting the phytoremediation of M. floridulus were explored. It was found that the compositions of the rhizospheric bacterial community of M. floridulus differed in four regions, but majority of them were heavy metal-resistant bacteria that could promote plant growth. Results of bioconcentration factors showed the enrichment of Cu, Zn, and Pb by M. floridulus in these four regions were significantly different. The Zn enrichment capacity of ML was the strongest for Cu and stronger than LT and ME for Pb. The enrichment capacity of LT and ML was stronger than HY and ME. These bacteria may influence the different heavy metals uptake of M. floridulus by altering the soil physiochemical properties (e.g., soil peroxidase, pH and moisture content). In addition, co-occurrence network analysis also showed that LT and ML had higher network stability and complexity than HY and ME. Functional prediction analysis of the rhizospheric bacterial community showed that genes related to protein synthesis (e.g., zinc-binding alcohol dehydrogenase/oxidoreductase, Dtx R family transcriptional regulators and ACC deaminase) also contributed to phytoremediation in various ways. This study provides theoretical guidance for selecting suitable microorganisms to assist in the phytoremediation of heavy metals.
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Affiliation(s)
- Yunhua Xiao
- College of Bioscience and Biotechnology, Hunan Agricultural University, Changsha, 410128, China
| | - Liang Chen
- College of Bioscience and Biotechnology, Hunan Agricultural University, Changsha, 410128, China
| | - Kai Teng
- Hunan Tobacco Science Institute, Changsha, 410004, China
| | - Jingjing Ma
- College of Bioscience and Biotechnology, Hunan Agricultural University, Changsha, 410128, China
| | - Sha Xiang
- College of Bioscience and Biotechnology, Hunan Agricultural University, Changsha, 410128, China
| | - Lihong Jiang
- College of Bioscience and Biotechnology, Hunan Agricultural University, Changsha, 410128, China
| | - Gang Liu
- College of Bioscience and Biotechnology, Hunan Agricultural University, Changsha, 410128, China
| | - Bo Yang
- College of Bioscience and Biotechnology, Hunan Agricultural University, Changsha, 410128, China.
| | - Jun Fang
- College of Bioscience and Biotechnology, Hunan Agricultural University, Changsha, 410128, China.
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Plant Abiotic and Biotic Stress Alleviation: From an Endophytic Microbial Perspective. Curr Microbiol 2022; 79:311. [DOI: 10.1007/s00284-022-03012-2] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 04/07/2022] [Accepted: 08/26/2022] [Indexed: 11/03/2022]
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LaForgia ML, Kang H, Ettinger CL. Invasive Grass Dominance over Native Forbs Is Linked to Shifts in the Bacterial Rhizosphere Microbiome. MICROBIAL ECOLOGY 2022; 84:496-508. [PMID: 34505915 PMCID: PMC9436828 DOI: 10.1007/s00248-021-01853-1] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Figures] [Subscribe] [Scholar Register] [Received: 03/20/2021] [Accepted: 08/30/2021] [Indexed: 06/13/2023]
Abstract
Rhizosphere microbiomes have received growing attention in recent years for their role in plant health, stress tolerance, soil nutrition, and invasion. Still, relatively little is known about how these microbial communities are altered under plant competition, and even less about whether these shifts are tied to competitive outcomes between native and invasive plants. We investigated the structure and diversity of rhizosphere bacterial and fungal microbiomes of native annual forbs and invasive annual grasses grown in a shade-house both individually and in competition using high-throughput amplicon sequencing of the bacterial 16S rRNA gene and the fungal ITS region. We assessed how differentially abundant microbial families correlate to plant biomass under competition. We find that bacterial diversity and structure differ between native forbs and invasive grasses, but fungal diversity and structure do not. Furthermore, bacterial community structures under competition are distinct from individual bacterial community structures. We also identified five bacterial families that varied in normalized abundance between treatments and that were correlated with plant biomass under competition. We speculate that invasive grass dominance over these natives may be partially due to effects on the rhizosphere community, with changes in specific bacterial families potentially benefiting invaders at the expense of natives.
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Affiliation(s)
- Marina L LaForgia
- Department of Environmental Science and Policy, University of California, Davis, CA, USA
- Department of Plant Sciences, University of California, Davis, CA, USA
- Department of Evolution and Ecology, University of California, Davis, CA, USA
| | - Hannah Kang
- Department of Plant Sciences, University of California, Davis, CA, USA
| | - Cassandra L Ettinger
- Genome Center, University of California, Davis, CA, USA.
- Department of Evolution and Ecology, University of California, Davis, CA, USA.
- Microbiology & Plant Pathology, University of California, Riverside, CA, USA.
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Bigott Y, Gallego S, Montemurro N, Breuil MC, Pérez S, Michas A, Martin-Laurent F, Schröder P. Fate and impact of wastewater-borne micropollutants in lettuce and the root-associated bacteria. THE SCIENCE OF THE TOTAL ENVIRONMENT 2022; 831:154674. [PMID: 35318055 DOI: 10.1016/j.scitotenv.2022.154674] [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: 12/02/2021] [Revised: 02/24/2022] [Accepted: 03/15/2022] [Indexed: 06/14/2023]
Abstract
The reuse of water for agricultural practices becomes progressively more important due to increasing demands for a transition to a circular economy. Treated wastewater can be an alternative option of blue water used for the irrigation of crops but its risks need to be evaluated. This study assesses the uptake and metabolization of pharmaceuticals and personal care products (PPCPs) derived from treated wastewater into lettuce as well as the impact on root-associated bacteria under a realistic and worst-case scenario. Lettuce was grown in a controlled greenhouse and irrigated with water or treated wastewater spiked with and without a mixture of fourteen different PPCPs at 10 μg/L or 100 μg/L. After harvesting the plants, the same soil was reused for a consecutive cultivation campaign to test for the accumulation of PPCPs. Twelve out of fourteen spiked PPCPs were detected in lettuce roots, and thirteen in leaves. In roots, highest concentrations were measured for sucralose, sulfamethoxazole and citalopram, while sucralose, acesulfame and carbamazepine were the highest in leaves. Higher PPCP concentrations were found in lettuce roots irrigated with spiked treated wastewater than in those irrigated with spiked water. The absolute bacterial abundance remained stable over both cultivation campaigns and was not affected by any of the treatments (type of irrigation water (water vs. wastewater) nor concentration of PPCPs). However, the irrigation of lettuce with treated wastewater had a significant effect on the microbial α-diversity indices at the end of the second cultivation campaign, and modified the structure and community composition of root-associated bacteria at the end of both campaigns. Five and fourteen bacterial families were shown to be responsible for the observed changes at the end of the first and second cultivation campaign, respectively. Relative abundance of Haliangium and the clade Allorhizobium-Neorhizobium-Pararhizobium-Rhizobium was significantly affected in response to PCPPs exposure. Caulobacter, Cellvibrio, Hydrogenophaga and Rhizobacter were significantly affected in microcosms irrigated with wastewater.
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Affiliation(s)
- Yvonne Bigott
- Research Unit for Comparative Microbiome Analysis, Helmholtz Zentrum München GmbH, Ingolstädter Landstraße 1, 85764 Neuherberg, Germany
| | - Sara Gallego
- AgroSup Dijon, INRAE, Univ. Bourgogne, Univ. Bourgogne Franche-Comté, Agroécologie, Dijon, France
| | - Nicola Montemurro
- ENFOCHEM, IDAEA-CSIC, c/Jordi Girona 18-26, 08034 Barcelona, (Spain)
| | - Marie-Christine Breuil
- AgroSup Dijon, INRAE, Univ. Bourgogne, Univ. Bourgogne Franche-Comté, Agroécologie, Dijon, France
| | - Sandra Pérez
- ENFOCHEM, IDAEA-CSIC, c/Jordi Girona 18-26, 08034 Barcelona, (Spain)
| | - Antonios Michas
- Research Unit for Comparative Microbiome Analysis, Helmholtz Zentrum München GmbH, Ingolstädter Landstraße 1, 85764 Neuherberg, Germany
| | - Fabrice Martin-Laurent
- AgroSup Dijon, INRAE, Univ. Bourgogne, Univ. Bourgogne Franche-Comté, Agroécologie, Dijon, France
| | - Peter Schröder
- Research Unit for Comparative Microbiome Analysis, Helmholtz Zentrum München GmbH, Ingolstädter Landstraße 1, 85764 Neuherberg, Germany.
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Yasseen BT, Al-Thani RF. Endophytes and Halophytes to Remediate Industrial Wastewater and Saline Soils: Perspectives from Qatar. PLANTS 2022; 11:plants11111497. [PMID: 35684269 PMCID: PMC9182595 DOI: 10.3390/plants11111497] [Citation(s) in RCA: 1] [Impact Index Per Article: 0.5] [Reference Citation Analysis] [Abstract] [Track Full Text] [Download PDF] [Figures] [Subscribe] [Scholar Register] [Received: 03/09/2022] [Revised: 05/20/2022] [Accepted: 05/20/2022] [Indexed: 01/22/2023]
Abstract
Many halophytes are considered to be salt hyperaccumulators, adopting ion extrusion and inclusion mechanisms. Such plants, with high aboveground biomass, may play crucial roles in saline habitats, including soil desalination and phytoremediation of polluted soils and waters. These plants cause significant changes in some of the soil’s physical and chemical properties; and have proven efficient in removing heavy metals and metabolizing organic compounds from oil and gas activities. Halophytes in Qatar, such as Halopeplis perfoliata, Salicornia europaea, Salsola soda, and Tetraena qatarensis, are shown here to play significant roles in the phytoremediation of polluted soils and waters. Microorganisms associated with these halophytes (such as endophytic bacteria) might boost these plants to remediate saline and polluted soils. A significant number of these bacteria, such as Bacillus spp. and Pseudomonas spp., are reported here to play important roles in many sectors of life. We explore the mechanisms adopted by the endophytic bacteria to promote and support these halophytes in the desalination of saline soils and phytoremediation of polluted soils. The possible roles played by endophytes in different parts of native plants are given to elucidate the mechanisms of cooperation between these native plants and the associated microorganisms.
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Yu G, Wang G, Chi T, Du C, Wang J, Li P, Zhang Y, Wang S, Yang K, Long Y, Chen H. Enhanced removal of heavy metals and metalloids by constructed wetlands: A review of approaches and mechanisms. THE SCIENCE OF THE TOTAL ENVIRONMENT 2022; 821:153516. [PMID: 35101517 DOI: 10.1016/j.scitotenv.2022.153516] [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: 05/11/2021] [Revised: 12/23/2021] [Accepted: 01/25/2022] [Indexed: 06/14/2023]
Abstract
Constructed wetlands (CWs) are increasingly employed to remediate heavy metal and metalloid (HMM)-polluted water. However, the disadvantages of HMM removal by conventional CWs (without enhancement), such as an unstable and unpredictable removal efficiency, hinder the reliability of this technology. The objective of this study was to review research on enhanced CWs for HMM removal. In particular, we performed a bibliometric analysis to evaluate research trends, critical literature, and keyword evolution in recent years. Subsequently, we reviewed various enhanced approaches for the application of CWs for the removal of HMMs, including the use of improved substrates, aquatic macrophytes, microorganisms, bioelectrochemical coupling systems, hybrid CW, external additives, and operation parameters. Furthermore, the main mechanisms underlying HMM removal by these approaches are summarized. Our review clearly reveals that research on the remediation of HMM-polluted water via CW technology is receiving increased attention, with no apparent trends in topics. The selection of appropriate enhanced approaches or operation parameters as well as methodological improvements should be based on the dominant environmental conditions of the CW column and removal mechanisms for the targeted HMMs. Based on the established literature, several suggestions are proposed to guide the optimization of the design and operation of efficient CWs for the treatment of HMM-polluted water.
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Affiliation(s)
- Guanlong Yu
- School of Hydraulic Engineering, Changsha University of Science & Technology, Changsha 410114, PR China; Key Laboratory of Dongting Lake Aquatic Eco-Environmental Control and Restoration of Hunan Province, Changsha 410114, PR China
| | - Guoliang Wang
- School of Hydraulic Engineering, Changsha University of Science & Technology, Changsha 410114, PR China; Key Laboratory of Dongting Lake Aquatic Eco-Environmental Control and Restoration of Hunan Province, Changsha 410114, PR China
| | - Tianying Chi
- School of Hydraulic Engineering, Changsha University of Science & Technology, Changsha 410114, PR China; Key Laboratory of Dongting Lake Aquatic Eco-Environmental Control and Restoration of Hunan Province, Changsha 410114, PR China
| | - Chunyan Du
- School of Hydraulic Engineering, Changsha University of Science & Technology, Changsha 410114, PR China; Key Laboratory of Dongting Lake Aquatic Eco-Environmental Control and Restoration of Hunan Province, Changsha 410114, PR China
| | - Jianwu Wang
- School of Hydraulic Engineering, Changsha University of Science & Technology, Changsha 410114, PR China; Key Laboratory of Dongting Lake Aquatic Eco-Environmental Control and Restoration of Hunan Province, Changsha 410114, PR China
| | - Peiyuan Li
- School of Hydraulic Engineering, Changsha University of Science & Technology, Changsha 410114, PR China; Key Laboratory of Dongting Lake Aquatic Eco-Environmental Control and Restoration of Hunan Province, Changsha 410114, PR China
| | - Yameng Zhang
- School of Hydraulic Engineering, Changsha University of Science & Technology, Changsha 410114, PR China; Key Laboratory of Dongting Lake Aquatic Eco-Environmental Control and Restoration of Hunan Province, Changsha 410114, PR China
| | - Shitao Wang
- School of Hydraulic Engineering, Changsha University of Science & Technology, Changsha 410114, PR China; Key Laboratory of Dongting Lake Aquatic Eco-Environmental Control and Restoration of Hunan Province, Changsha 410114, PR China
| | - Kai Yang
- School of Hydraulic Engineering, Changsha University of Science & Technology, Changsha 410114, PR China; Key Laboratory of Dongting Lake Aquatic Eco-Environmental Control and Restoration of Hunan Province, Changsha 410114, PR China
| | - Yuannan Long
- School of Hydraulic Engineering, Changsha University of Science & Technology, Changsha 410114, PR China; Key Laboratory of Dongting Lake Aquatic Eco-Environmental Control and Restoration of Hunan Province, Changsha 410114, PR China
| | - Hong Chen
- School of Hydraulic Engineering, Changsha University of Science & Technology, Changsha 410114, PR China; Key Laboratory of Dongting Lake Aquatic Eco-Environmental Control and Restoration of Hunan Province, Changsha 410114, PR China.
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Wang J, Long Y, Yu G, Wang G, Zhou Z, Li P, Zhang Y, Yang K, Wang S. A Review on Microorganisms in Constructed Wetlands for Typical Pollutant Removal: Species, Function, and Diversity. Front Microbiol 2022; 13:845725. [PMID: 35450286 PMCID: PMC9016276 DOI: 10.3389/fmicb.2022.845725] [Citation(s) in RCA: 2] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 12/30/2021] [Accepted: 03/01/2022] [Indexed: 01/09/2023] Open
Abstract
Constructed wetlands (CWs) have been proven as a reliable alternative to traditional wastewater treatment technologies. Microorganisms in CWs, as an important component, play a key role in processes such as pollutant degradation and nutrient transformation. Therefore, an in-depth analysis of the community structure and diversity of microorganisms, especially for functional microorganisms, in CWs is important to understand its performance patterns and explore optimized strategies. With advances in molecular biotechnology, it is now possible to analyze and study microbial communities and species composition in complex environments. This review performed bibliometric analysis of microbial studies in CWs to evaluate research trends and identify the most studied pollutants. On this basis, the main functional microorganisms of CWs involved in the removal of these pollutants are summarized, and the effects of these pollutants on microbial diversity are investigated. The result showed that the main phylum involved in functional microorganisms in CWs include Proteobacteria, Bacteroidetes, Actinobacteria and Firmicutes. These functional microorganisms can remove pollutants from CWs by catalyzing chemical reactions, biodegradation, biosorption, and supporting plant growth, etc. Regarding microbial alpha diversity, heavy metals and high concentrations of nitrogen and phosphorus significantly reduce microbial richness and diversity, whereas antibiotics can cause large fluctuations in alpha diversity. Overall, this review can provide new ideas and directions for the research of microorganisms in CWs.
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Affiliation(s)
- Jianwu Wang
- School of Hydraulic and Environmental Engineering, Changsha University of Science & Technology, Changsha, China.,Key Laboratory of Dongting Lake Aquatic Eco-Environmental Control and Restoration of Hunan Province, Changsha, China
| | - Yuannan Long
- School of Hydraulic and Environmental Engineering, Changsha University of Science & Technology, Changsha, China.,Key Laboratory of Dongting Lake Aquatic Eco-Environmental Control and Restoration of Hunan Province, Changsha, China
| | - Guanlong Yu
- School of Hydraulic and Environmental Engineering, Changsha University of Science & Technology, Changsha, China.,Key Laboratory of Dongting Lake Aquatic Eco-Environmental Control and Restoration of Hunan Province, Changsha, China.,Engineering and Technical Center of Hunan Provincial Environmental Protection for River-Lake Dredging Pollution Control, Changsha, China
| | - Guoliang Wang
- School of Hydraulic and Environmental Engineering, Changsha University of Science & Technology, Changsha, China.,Key Laboratory of Dongting Lake Aquatic Eco-Environmental Control and Restoration of Hunan Province, Changsha, China
| | - Zhenyu Zhou
- School of Hydraulic and Environmental Engineering, Changsha University of Science & Technology, Changsha, China.,Key Laboratory of Dongting Lake Aquatic Eco-Environmental Control and Restoration of Hunan Province, Changsha, China
| | - Peiyuan Li
- School of Hydraulic and Environmental Engineering, Changsha University of Science & Technology, Changsha, China.,Key Laboratory of Dongting Lake Aquatic Eco-Environmental Control and Restoration of Hunan Province, Changsha, China
| | - Yameng Zhang
- School of Hydraulic and Environmental Engineering, Changsha University of Science & Technology, Changsha, China.,Key Laboratory of Dongting Lake Aquatic Eco-Environmental Control and Restoration of Hunan Province, Changsha, China
| | - Kai Yang
- School of Hydraulic and Environmental Engineering, Changsha University of Science & Technology, Changsha, China.,Key Laboratory of Dongting Lake Aquatic Eco-Environmental Control and Restoration of Hunan Province, Changsha, China
| | - Shitao Wang
- School of Hydraulic and Environmental Engineering, Changsha University of Science & Technology, Changsha, China.,Key Laboratory of Dongting Lake Aquatic Eco-Environmental Control and Restoration of Hunan Province, Changsha, China
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Chu C, Fan M, Song C, Li N, Zhang C, Fu S, Wang W, Yang Z. Unveiling Endophytic Bacterial Community Structures of Different Rice Cultivars Grown in a Cadmium-Contaminated Paddy Field. Front Microbiol 2021; 12:756327. [PMID: 34867879 PMCID: PMC8635021 DOI: 10.3389/fmicb.2021.756327] [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: 08/10/2021] [Accepted: 10/04/2021] [Indexed: 12/07/2022] Open
Abstract
Endophytic bacteria play potentially important roles in the processes of plant adaptation to the environment. Understanding the composition and dynamics of endophytic bacterial communities under heavy metal (HM) stress can reveal their impacts on host development and stress tolerance. In this study, we investigated root endophytic bacterial communities of different rice cultivars grown in a cadmium (Cd)-contaminated paddy field. These rice cultivars are classified into low (RBQ, 728B, and NX1B) and high (BB and S95B) levels of Cd-accumulating capacity. Our metagenomic analysis targeting 16S rRNA gene sequence data reveals that Proteobacteria, Firmicutes, Actinobacteria, Acidobacteria, Bacteroidetes, and Spirochaetes are predominant root endophytic bacterial phyla of the five rice cultivars that we studied. Principal coordinate analysis shows that the developmental stage of rice governs a larger source of variation in the bacterial communities compared to that of any specific rice cultivar or of the root Cd content. Endophytic bacterial communities during the reproductive stage of rice form a more highly interconnected network and exhibit higher operational taxonomic unit numbers, diversities, and abundance than those during the vegetative stage. Forty-five genera are significantly correlated with Cd content in rice root, notably including positive-correlating Geobacter and Haliangium; and negative-correlating Pseudomonas and Streptacidiphilus. Furthermore, Phylogenetic Investigation of Communities by Reconstruction of Unobserved States analysis shows that functional pathways, such as biosynthesis of siderophore and type II polyketide products, are significantly enhanced during the reproductive stage compared to those during the vegetative stage under Cd stress. The isolated endophytic bacteria from the Cd-contaminated rice roots display high Cd resistance and multiple traits that may promote plant growth, suggesting their potential application in alleviating HM stress on plants. This study describes in detail for the first time the assemblage of the bacterial endophytomes of rice roots under Cd stress and may provide insights into the interactions among endophytes, plants, and HM contamination.
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Affiliation(s)
- Chaoqun Chu
- College of Life Sciences, Capital Normal University, Beijing, China
| | - Meiyu Fan
- College of Life Sciences, Capital Normal University, Beijing, China
| | - Chongyang Song
- College of Life Sciences, Capital Normal University, Beijing, China
| | - Ni Li
- State Key Laboratory of Hybrid Rice, Hunan Hybrid Rice Research Center, Changsha, China
| | - Chao Zhang
- State Key Laboratory of Hybrid Rice, Hunan Hybrid Rice Research Center, Changsha, China
| | - Shaowei Fu
- College of Life Sciences, Capital Normal University, Beijing, China
| | - Weiping Wang
- State Key Laboratory of Hybrid Rice, Hunan Hybrid Rice Research Center, Changsha, China
| | - Zhiwei Yang
- College of Life Sciences, Capital Normal University, Beijing, China
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Papik J, Folkmanova M, Polivkova-Majorova M, Suman J, Uhlik O. The invisible life inside plants: Deciphering the riddles of endophytic bacterial diversity. Biotechnol Adv 2020; 44:107614. [PMID: 32858117 DOI: 10.1016/j.biotechadv.2020.107614] [Citation(s) in RCA: 43] [Impact Index Per Article: 10.8] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 04/21/2020] [Revised: 07/14/2020] [Accepted: 08/15/2020] [Indexed: 10/25/2022]
Abstract
Endophytic bacteria often promote plant growth and protect their host plant against pathogens, herbivores, and abiotic stresses including drought, increased salinity or pollution. Current agricultural practices are being challenged in terms of climate change and the ever-increasing demand for food. Therefore, the rational exploitation of bacterial endophytes to increase the productivity and resistance of crops appears to be very promising. However, the efficient and larger-scale use of bacterial endophytes for more effective and sustainable agriculture is hindered by very little knowledge on molecular aspects of plant-endophyte interactions and mechanisms driving bacterial communities in planta. In addition, since most of the information on bacterial endophytes has been obtained through culture-dependent techniques, endophytic bacterial diversity and its full biotechnological potential still remain highly unexplored. In this study, we discuss the diversity and role of endophytic populations as well as complex interactions that the endophytes have with the plant and vice versa, including the interactions leading to plant colonization. A description of biotic and abiotic factors influencing endophytic bacterial communities is provided, along with a summary of different methodologies suitable for determining the diversity of bacterial endophytes, mechanisms governing the assembly and structure of bacterial communities in the endosphere, and potential biotechnological applications of endophytes in the future.
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Affiliation(s)
- Jakub Papik
- University of Chemistry and Technology, Prague, Faculty of Food and Biochemical Technology, Department of Biochemistry and Microbiology, Prague, Czech Republic
| | - Magdalena Folkmanova
- University of Chemistry and Technology, Prague, Faculty of Food and Biochemical Technology, Department of Biochemistry and Microbiology, Prague, Czech Republic
| | - Marketa Polivkova-Majorova
- University of Chemistry and Technology, Prague, Faculty of Food and Biochemical Technology, Department of Biochemistry and Microbiology, Prague, Czech Republic
| | - Jachym Suman
- University of Chemistry and Technology, Prague, Faculty of Food and Biochemical Technology, Department of Biochemistry and Microbiology, Prague, Czech Republic
| | - Ondrej Uhlik
- University of Chemistry and Technology, Prague, Faculty of Food and Biochemical Technology, Department of Biochemistry and Microbiology, Prague, Czech Republic.
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15
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Comparison of Two Inoculation Methods of Endophytic Bacteria to Enhance Phytodegradation Efficacy of an Aged Petroleum Hydrocarbons Polluted Soil. AGRONOMY-BASEL 2020. [DOI: 10.3390/agronomy10081196] [Citation(s) in RCA: 11] [Impact Index Per Article: 2.8] [Reference Citation Analysis] [Abstract] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 01/21/2023]
Abstract
Endophyte-enhanced phytodegradation is a promising technology to clean up polluted soils. To improve the success rate of this nature-based remediation approach, it is important to advance the inoculation method as this has been shown to strongly affect the final outcome. However, studies evaluating inoculation strategies and their effect on hydrocarbon degradation are limited. This study aims to investigate two different manners of endophyte inoculation in Lolium perenne growing in an aged petroleum hydrocarbon polluted soil: (1) direct soil inoculation (SI), and (2) pre-inoculation of the caryopses followed by soil inoculation (PI). Different endophytic bacterial strains, Rhodococcus erythropolis 5WK and Rhizobium sp. 10WK, were applied individually as well as in combination. Depending on the method of inoculation, the petroleum hydrocarbon (PHC) degradation potential was significantly different. The highest PHC removal was achieved after pre-inoculation of ryegrass caryopses with a consortium of both bacterial strains. Moreover, both strains established in the aged-polluted soil and could also colonize the roots and shoots of L. perenne. Importantly, used endophytes showed the selective colonization of the environment compartments. Our findings show that the method of inoculation determines the efficiency of the phytodegradation process, especially the rate of PHC degradation. This study provides valuable information for choosing the most cost-effective and beneficial means to optimize phytodegradation.
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Wu Y, Ma L, Liu Q, Vestergård M, Topalovic O, Wang Q, Zhou Q, Huang L, Yang X, Feng Y. The plant-growth promoting bacteria promote cadmium uptake by inducing a hormonal crosstalk and lateral root formation in a hyperaccumulator plant Sedum alfredii. JOURNAL OF HAZARDOUS MATERIALS 2020; 395:122661. [PMID: 32305720 DOI: 10.1016/j.jhazmat.2020.122661] [Citation(s) in RCA: 54] [Impact Index Per Article: 13.5] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 01/10/2020] [Revised: 03/17/2020] [Accepted: 04/04/2020] [Indexed: 05/27/2023]
Abstract
Plant growth-promoting bacteria (PGPB) that inhabit hyperaccumulating plants assist cadmium (Cd) absorption, but the underlying mechanism has not been comprehensively studied. For this reason, we combined the fluorescence imaging, and transcriptomic and metabolomic methods in a Cd hyperaccumulator, Sedum alfredii, inoculated or not with PGPB Pseudomonas fluorescens. The results showed that the newly emerged lateral roots, that were heavily colonized by P. fluorescens, are the main entry for Cd influx in S. alfredii. Inoculation with P. fluorescens promoted a lateral root formation of its host plant, leading to a higher Cd phytoremediation efficiency. Furthermore, the plant transcriptome revealed that 146 plant hormone related genes were significantly up-regulated by the bacterial inoculation, with 119 of them showing a complex interaction, which suggests that a hormonal crosstalk participated root development. The targeted metabolomics analysis showed that P. fluorescens inoculation significantly increased indole acetic acid concentration and significantly decreased concentrations of abscisic acid, brassinolide, trans-zeatin, ethylene and jasmonic acid in S. alfredii roots, thereby inducing lateral root emergence. Altogether, our results highlight the importance of PGPB-induced lateral root formation for the increased Cd uptake in a hyperaccumulating plant.
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Affiliation(s)
- Yingjie Wu
- Key Laboratory of Environment Remediation and Ecological Health of Ministry of Education, College of Environmental and Resource Sciences, Zhejiang University, Hangzhou 310058, China; Department of Agroecology, Faculty of Technical Sciences, Aarhus University, Forsøgsvej 1, 4200, Slagelse, Denmark
| | - Luyao Ma
- Key Laboratory of Environment Remediation and Ecological Health of Ministry of Education, College of Environmental and Resource Sciences, Zhejiang University, Hangzhou 310058, China
| | - Qizhen Liu
- Key Laboratory of Environment Remediation and Ecological Health of Ministry of Education, College of Environmental and Resource Sciences, Zhejiang University, Hangzhou 310058, China
| | - Mette Vestergård
- Department of Agroecology, Faculty of Technical Sciences, Aarhus University, Forsøgsvej 1, 4200, Slagelse, Denmark
| | - Olivera Topalovic
- Department of Agroecology, Faculty of Technical Sciences, Aarhus University, Forsøgsvej 1, 4200, Slagelse, Denmark
| | - Qiong Wang
- Key Laboratory of Environment Remediation and Ecological Health of Ministry of Education, College of Environmental and Resource Sciences, Zhejiang University, Hangzhou 310058, China
| | - Qiyao Zhou
- Key Laboratory of Environment Remediation and Ecological Health of Ministry of Education, College of Environmental and Resource Sciences, Zhejiang University, Hangzhou 310058, China
| | - Lukuan Huang
- Key Laboratory of Environment Remediation and Ecological Health of Ministry of Education, College of Environmental and Resource Sciences, Zhejiang University, Hangzhou 310058, China
| | - Xiaoe Yang
- Key Laboratory of Environment Remediation and Ecological Health of Ministry of Education, College of Environmental and Resource Sciences, Zhejiang University, Hangzhou 310058, China
| | - Ying Feng
- Key Laboratory of Environment Remediation and Ecological Health of Ministry of Education, College of Environmental and Resource Sciences, Zhejiang University, Hangzhou 310058, China.
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Understanding Phytomicrobiome: A Potential Reservoir for Better Crop Management. SUSTAINABILITY 2020. [DOI: 10.3390/su12135446] [Citation(s) in RCA: 30] [Impact Index Per Article: 7.5] [Reference Citation Analysis] [Abstract] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 02/07/2023]
Abstract
Recent crop production studies have aimed at an increase in the biotic and abiotic tolerance of plant communities, along with increased nutrient availability and crop yields. This can be achieved in various ways, but one of the emerging approaches is to understand the phytomicrobiome structure and associated chemical communications. The phytomicrobiome was characterized with the advent of high-throughput techniques. Its composition and chemical signaling phenomena have been revealed, leading the way for “rhizosphere engineering”. In addition to the above, phytomicrobiome studies have paved the way to best tackling soil contamination with various anthropogenic activities. Agricultural lands have been found to be unbalanced for crop production. Due to the intense application of agricultural chemicals such as herbicides, fungicides, insecticides, fertilizers, etc., which can only be rejuvenated efficiently through detailed studies on the phytomicrobiome component, the phytomicrobiome has recently emerged as a primary plant trait that affects crop production. The phytomicrobiome also acts as an essential modifying factor in plant root exudation and vice versa, resulting in better plant health and crop yield both in terms of quantity and quality. Not only supporting better plant growth, phytomicrobiome members are involved in the degradation of toxic materials, alleviating the stress conditions that adversely affect plant development. Thus, the present review compiles the progress in understanding phytomicrobiome relationships and their application in achieving the goal of sustainable agriculture.
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18
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Sediment Microbial Diversity in Urban Piedmont North Carolina Watersheds Receiving Wastewater Input. WATER 2020. [DOI: 10.3390/w12061557] [Citation(s) in RCA: 4] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 01/10/2023]
Abstract
Urban streams are heavily influenced by human activity. One way that this occurs is through the reintroduction of treated effluent from wastewater treatment plants. We measured the microbial community composition of water, sediment, and soil at sites upstream and downstream from two Charlotte treatment facilities. We performed 16S rRNA gene sequencing to assay the microbial community composition at each site at four time points between the late winter and mid-summer of 2016. Despite the location of these streams in an urban area with many influences and disruptions, the streams maintain distinct water, sediment, and soil microbial profiles. While there is an overlap of microbial species in upstream and downstream sites, there are several taxa that differentiate these sites. Some taxa characteristics of human-associated microbial communities appear elevated in the downstream sediment communities. In the wastewater treatment plant and to a lesser extent in the downstream community, there are high abundance amplicon sequence variants (ASVs) which are less than 97% similar to any sequence in reference databases, suggesting that these environments contain an unexplored biological novelty. Taken together, these results suggest a need to more fully characterize the microbial communities associated with urban streams, and to integrate information about microbial community composition with mechanistic models.
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Płociniczak T, Pacwa-Płociniczak M, Kwaśniewski M, Chwiałkowska K, Piotrowska-Seget Z. Response of rhizospheric and endophytic bacterial communities of white mustard (Sinapis alba) to bioaugmentation of soil with the Pseudomonas sp. H15 strain. ECOTOXICOLOGY AND ENVIRONMENTAL SAFETY 2020; 194:110434. [PMID: 32155483 DOI: 10.1016/j.ecoenv.2020.110434] [Citation(s) in RCA: 1] [Impact Index Per Article: 0.3] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 12/12/2019] [Revised: 02/08/2020] [Accepted: 03/03/2020] [Indexed: 06/10/2023]
Abstract
A factor that may significantly increase the efficacy of phytoextraction is soil bioaugmentation with specific bacteria, which can alter the composition of rhizospheric and endophytic bacterial communities. The aim of this study was to compare the effect of soil treatment with living (bioaugmentation) and dead (control) cells of the plant growth-promoting metal-resistant endophytic strain Pseudomonas sp. H15 on the bacterial community composition in the rhizo- and endo-sphere of white mustard during enhanced phytoextraction. The bacterial communities in the rhizosphere were dominated (51.7-68.2%) by Proteobacteria, regardless of the soil treatment or sampling point. A temporary increase in the number of sequences belonging to Gammaproteobacteria (up to 37.3%) was only observed 24 h after the soil treatment with living Pseudomonas sp. H15 cells, whereas for the remaining samples, the relative abundance of this class did not exceed 7.1%. The relative abundance of Proteobacteria in the endosphere of the roots, stems, and leaves of white mustard was higher in the control than in bioaugmented plants. The most pronounced dominance of the Gammaproteobacteria sequences was observed in the stems and leaves of the control plants at the first sampling point, which strongly indicates the ability of the plants to rapidly uptake DNA from soil and translocate it to the aboveground parts of the plants. Additionally, the bioaugmentation of the soil caused a diverse shift in the bacterial communities in the rhizo- and endo-sphere of white mustard compared to control. The most distinct differences, which were dependent on the treatment, were observed in the endosphere of plants at the beginning of the experiment and decreased over time. These results indicate that the rhizo- and endo-biome of white mustard reacts to soil bioaugmentation and may influence the efficiency of bacterial-assisted phytoextraction.
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Affiliation(s)
- Tomasz Płociniczak
- Faculty of Natural Sciences, Institute of Biology, Biotechnology and Environmental Protection, University of Silesia in Katowice, Jagiellońska 28, 40-032, Katowice, Poland.
| | - Magdalena Pacwa-Płociniczak
- Faculty of Natural Sciences, Institute of Biology, Biotechnology and Environmental Protection, University of Silesia in Katowice, Jagiellońska 28, 40-032, Katowice, Poland
| | - Mirosław Kwaśniewski
- Centre for Bioinformatics and Data Analysis, Medical University of Białystok, Waszyngtona 13a, 15-269, Białystok, Poland
| | - Karolina Chwiałkowska
- Centre for Bioinformatics and Data Analysis, Medical University of Białystok, Waszyngtona 13a, 15-269, Białystok, Poland
| | - Zofia Piotrowska-Seget
- Faculty of Natural Sciences, Institute of Biology, Biotechnology and Environmental Protection, University of Silesia in Katowice, Jagiellońska 28, 40-032, Katowice, Poland
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20
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Sauvêtre A, Węgrzyn A, Yang L, Vestergaard G, Miksch K, Schröder P, Radl V. Enrichment of endophytic Actinobacteria in roots and rhizomes of Miscanthus × giganteus plants exposed to diclofenac and sulfamethoxazole. ENVIRONMENTAL SCIENCE AND POLLUTION RESEARCH INTERNATIONAL 2020; 27:11892-11904. [PMID: 31981026 DOI: 10.1007/s11356-020-07609-7] [Citation(s) in RCA: 19] [Impact Index Per Article: 4.8] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 06/17/2019] [Accepted: 01/01/2020] [Indexed: 06/10/2023]
Abstract
This study investigates how wastewater containing 2 mg l-1 of sulfamethoxazole (SMX) and 2 mg l-1 of diclofenac (DCF) affects the composition of bacterial communities present in the roots and rhizomes of Miscanthus × giganteus plants grown in laboratory-scale constructed wetlands. Bacterial communities in plant roots and rhizomes were identified in treated and control samples by 16S rRNA amplicon sequencing. Moreover, bacterial endophytes were isolated in R2A and 1/10 869 media and screened for their ability to metabolize SMX and DCF in liquid medium by HPLC. Our results show significant changes in the abundance of main genera, namely Sphingobium and Streptomyces between control and treated plants. Around 70% of the strains isolated from exposed plants belonged to the phylum Actinobacteria and were classified as Streptomyces, Microbacterium, and Glycomyces. In non-exposed plants, Proteobacteria represented 43.5% to 63.6% of the total. We identified 17 strains able to remove SMX and DCF in vitro. From those, 76% were isolated from exposed plants. Classified mainly as Streptomyces, they showed the highest SMX (33%) and DCF (41%) removal efficiency. These isolates, alone or in combination, might be used as bio-inoculants in constructed wetlands to enhance the phytoremediation of SMX and DCF during wastewater treatment.
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Affiliation(s)
- Andrés Sauvêtre
- Research Unit Comparative Microbiome Analysis, Helmholtz Zentrum München, German Research Center for Environmental Health, Ingolstädter Landstr. 1, 85764, Neuherberg, Germany.
- HydroSciences Montpellier, UMR 5569, Faculté de Pharmacie, University of Montpellier, Avenue Charles Flahault 15, 34000, Montpellier, France.
| | - Anna Węgrzyn
- Environmental Biotechnology Department, Faculty of Energy and Environmental Engineering, Silesian University of Technology, Gliwice, Poland., Konarskiego 18, 44-100, Gliwice, Poland
| | - Luhua Yang
- Research Unit Comparative Microbiome Analysis, Helmholtz Zentrum München, German Research Center for Environmental Health, Ingolstädter Landstr. 1, 85764, Neuherberg, Germany
| | - Gisle Vestergaard
- Research Unit Comparative Microbiome Analysis, Helmholtz Zentrum München, German Research Center for Environmental Health, Ingolstädter Landstr. 1, 85764, Neuherberg, Germany
- Institute for Microbiology, University of Copenhagen; Microbiology, Universitetsparken 15, 2100, Copenhagen, Denmark
| | - Korneliusz Miksch
- Environmental Biotechnology Department, Faculty of Energy and Environmental Engineering, Silesian University of Technology, Gliwice, Poland., Konarskiego 18, 44-100, Gliwice, Poland
| | - Peter Schröder
- Research Unit Comparative Microbiome Analysis, Helmholtz Zentrum München, German Research Center for Environmental Health, Ingolstädter Landstr. 1, 85764, Neuherberg, Germany
| | - Viviane Radl
- Research Unit Comparative Microbiome Analysis, Helmholtz Zentrum München, German Research Center for Environmental Health, Ingolstädter Landstr. 1, 85764, Neuherberg, Germany
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21
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Cuba-Díaz M, Rivera-Mora C, Navarrete E, Klagges M. Advances of native and non-native Antarctic species to in vitro conservation: improvement of disinfection protocols. Sci Rep 2020; 10:3845. [PMID: 32123221 PMCID: PMC7052217 DOI: 10.1038/s41598-020-60533-1] [Citation(s) in RCA: 6] [Impact Index Per Article: 1.5] [Reference Citation Analysis] [Abstract] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 08/27/2019] [Accepted: 02/06/2020] [Indexed: 11/20/2022] Open
Abstract
Plants that inhabit Antarctica have raised scientific interest due to their resilience to climate change, abiotic tolerance mechanisms and potential biological applications. In vitro propagation is useful for conservation, genetic material availability of these species and avoiding mass collection in their habitat. In vitro culture protocols for the native plants Colobanthus quitensis and Deschampsia antarctica and the non-native Juncus bufonius have been affected by endophytic microorganisms that proliferate when introduced to tissue cultures. This study evaluated the microbicidal and phytotoxic effect of calcium hypochlorite (Ca(ClO)2), silver nitrate (AgNO3) and silver nanoparticles (AgNPs), and their use at different concentrations for different time periods. The Ca(ClO)2 at 100 mg mL−1 showed the best microbial contamination control in D. antarctica (applied for 20 min) and for the three C. quitensis populations (applied for 15 min). In J. bufonius, AgNO3 at 10 mg mL−1 for 10 min reduced the microbial growth, but oxidative damage was generated. AgNPs did not prevent contamination or have adverse effects on tissues. Survival plantlets from each treatment, population or species were effectively introduced to the tissue culture and their propagation was successful. These results constitute a fundamental advance for the introduction, propagation and conservation of Antarctic species and their use in scientific research.
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Affiliation(s)
- Marely Cuba-Díaz
- Laboratorio de Biotecnología y Estudios Ambientales, Universidad de Concepción, Campus Los Ángeles, Los Ángeles, Chile. .,Departamento de Ciencias y Tecnología Vegetal, Escuela de Ciencias y Tecnologías, Universidad de Concepción, Campus Los Ángeles. Juan Antonio Coloma 0201, 4440000, Los Ángeles, Chile.
| | - Claudia Rivera-Mora
- Laboratorio de Biotecnología y Estudios Ambientales, Universidad de Concepción, Campus Los Ángeles, Los Ángeles, Chile.,Departamento de Ciencias y Tecnología Vegetal, Escuela de Ciencias y Tecnologías, Universidad de Concepción, Campus Los Ángeles. Juan Antonio Coloma 0201, 4440000, Los Ángeles, Chile
| | - Eduardo Navarrete
- Departamento de Ciencias y Tecnología Vegetal, Escuela de Ciencias y Tecnologías, Universidad de Concepción, Campus Los Ángeles. Juan Antonio Coloma 0201, 4440000, Los Ángeles, Chile
| | - Macarena Klagges
- Laboratorio de Biotecnología y Estudios Ambientales, Universidad de Concepción, Campus Los Ángeles, Los Ángeles, Chile
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