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Shchyogolev SY, Burygin GL, Dykman LA, Matora LY. Phylogenetic and pangenomic analyses of members of the family Micrococcaceae related to a plant-growth-promoting rhizobacterium isolated from the rhizosphere of potato (Solanum tuberosum L.). Vavilovskii Zhurnal Genet Selektsii 2024; 28:308-316. [PMID: 38952705 PMCID: PMC11214901 DOI: 10.18699/vjgb-24-35] [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: 09/15/2023] [Revised: 11/29/2023] [Accepted: 11/30/2023] [Indexed: 07/03/2024] Open
Abstract
We report the results of taxonomic studies on members of the family Micrococcaceae that, according to the 16S rRNA, internal transcribed spacer 1 (ITS1), average nucleotide identity (ANI), and average amino acid identity (AAI) tests, are related to Kocuria rosea strain RCAM04488, a plant-growth-promoting rhizobacterium (PGPR) isolated from the rhizosphere of potato (Solanum tuberosum L.). In these studies, we used whole-genome phylogenetic tests and pangenomic analysis. According to the ANI > 95 % criterion, several known members of K. salina, K. polaris, and K. rosea (including K. rosea type strain ATCC 186T) that are related most closely to isolate RCAM04488 in the ITS1 test should be assigned to the same species with appropriate strain verification. However, these strains were isolated from strongly contrasting ecological and geographical habitats, which could not but affect their genotypes and phenotypes and which should be taken into account in evaluation of their systematic position. This contradiction was resolved by a pangenomic analysis, which showed that the strains differed strongly in the number of accessory and strain-specific genes determining their individuality and possibly their potential for adaptation to different ecological niches. Similar results were obtained in a full-scale AAI test against the UniProt database (about 250 million records), by using the AAI-profiler program and the proteome of K. rosea strain ATCC 186T as a query. According to the AAI > 65 % criterion, members of the genus Arthrobacter and several other genera belonging to the class Actinomycetes, with a very wide geographical and ecological range of sources of isolation, should be placed into the same genus as Kocuria. Within the paradigm with vertically inherited phylogenetic markers, this could be regarded as a signal for their following taxonomic reclassification. An important factor in this case may be the detailing of the gene composition of the strains and the taxonomic ratios resulting from analysis of the pangenomes of the corresponding clades.
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Affiliation(s)
- S Yu Shchyogolev
- Institute of Biochemistry and Physiology of Plants and Microorganisms - Subdivision of the Saratov Federal Scientific Centre of the Russian Academy of Sciences, Saratov, Russia
| | - G L Burygin
- Institute of Biochemistry and Physiology of Plants and Microorganisms - Subdivision of the Saratov Federal Scientific Centre of the Russian Academy of Sciences, Saratov, Russia Saratov State Vavilov Agrarian University, Saratov, Russia
| | - L A Dykman
- Institute of Biochemistry and Physiology of Plants and Microorganisms - Subdivision of the Saratov Federal Scientific Centre of the Russian Academy of Sciences, Saratov, Russia
| | - L Yu Matora
- Institute of Biochemistry and Physiology of Plants and Microorganisms - Subdivision of the Saratov Federal Scientific Centre of the Russian Academy of Sciences, Saratov, Russia
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Sanjana S, Jazeel K, Janeeshma E, Nair SG, Shackira AM. Synergistic interactions of assorted ameliorating agents to enhance the potential of heavy metal phytoremediation. STRESS BIOLOGY 2024; 4:13. [PMID: 38363436 PMCID: PMC10873264 DOI: 10.1007/s44154-024-00153-1] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Grants] [Track Full Text] [Subscribe] [Scholar Register] [Received: 09/13/2023] [Accepted: 01/29/2024] [Indexed: 02/17/2024]
Abstract
Pollution by toxic heavy metals creates a significant impact on the biotic community of the ecosystem. Nowadays, a solution to this problem is an eco-friendly approach like phytoremediation, in which plants are used to ameliorate heavy metals. In addition, various amendments are used to enhance the potential of heavy metal phytoremediation. Symbiotic microorganisms such as phosphate-solubilizing bacteria (PSB), endophytes, mycorrhiza and plant growth-promoting rhizobacteria (PGPR) play a significant role in the improvement of heavy metal phytoremediation potential along with promoting the growth of plants that are grown in contaminated environments. Various chemical chelators (Indole 3-acetic acid, ethylene diamine tetra acetic acid, ethylene glycol tetra acetic acid, ethylenediamine-N, N-disuccinic acid and nitrilotri-acetic acid) and their combined action with other agents also contribute to heavy metal phytoremediation enhancement. With modern techniques, transgenic plants and microorganisms are developed to open up an alternative strategy for phytoremediation. Genomics, proteomics, transcriptomics and metabolomics are widely used novel approaches to develop competent phytoremediators. This review accounts for the synergistic interactions of the ameliorating agent's role in enhancing heavy metal phytoremediation, intending to highlight the importance of these various approaches in reducing heavy metal pollution.
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Affiliation(s)
- S Sanjana
- Department of Botany, Sir Syed College, Kannur University, Kerala, 670142, India
| | - K Jazeel
- Department of Botany, Sir Syed College, Kannur University, Kerala, 670142, India
| | - E Janeeshma
- Department of Botany, MES KEVEEYAM College, Valanchery, Malappuram, Kerala, India
| | - Sarath G Nair
- Department of Botany, Mar Athanasius College, Mahatma Gandhi University, Kottayam, Kerala, India
| | - A M Shackira
- Department of Botany, Sir Syed College, Kannur University, Kerala, 670142, India.
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Tournay RJ, Firrincieli A, Parikh SS, Sivitilli DM, Doty SL. Effect of Arsenic on EPS Synthesis, Biofilm Formation, and Plant Growth-Promoting Abilities of the Endophytes Pseudomonas PD9R and Rahnella laticis PD12R. ENVIRONMENTAL SCIENCE & TECHNOLOGY 2023. [PMID: 37256822 DOI: 10.1021/acs.est.2c08586] [Citation(s) in RCA: 4] [Impact Index Per Article: 4.0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 06/02/2023]
Abstract
Phytoremediation, a cost-effective, eco-friendly alternative to conventional remediation, could expand efforts to remediate arsenic-contaminated soils. As with other pollutants, the plant microbiome may improve phytoremediation outcomes for arsenic-contaminated sites. We used in vitro and in silico methods to compare the arsenic resistance mechanisms, synthesis of extracellular polymeric substances (EPS), biofilm formation, and plant growth-promoting abilities of the endophytes Pseudomonas sp. PD9R and Rahnella laticis PD12R. PD12R, which tolerates arsenate (As(V)) and arsenite (As(III)) to concentrations fivefold greater than PD9R, synthesizes high volumes of EPS in response to arsenic, and sequesters arsenic in the capsular EPS and cells. While arsenic exposure induced EPS synthesis in both strains, only PD12R continued to form biofilms at high As(III) and As(V) concentrations. The effects of endophyte inoculation on Arabidopsis growth varied by strain and As(V) concentration, and PD9R had positive effect on plants exposed to low levels of arsenic. Comparative genomic analyses exploring the EPS synthesis and arsenic resistance mechanisms against other Pseudomonas and Rahnella strains suggest that both strains possess atypical arsenic resistance mechanisms from other plant-associated strains, while the configuration of the EPS synthesis systems appeared to be more broadly distributed among plant- and non-plant-associated strains.
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Affiliation(s)
- Robert J Tournay
- School of Environmental and Forest Sciences, Anderson Hall, Box 352100, University of Washington, Seattle, Washington 98195, United States
| | - Andrea Firrincieli
- School of Environmental and Forest Sciences, Anderson Hall, Box 352100, University of Washington, Seattle, Washington 98195, United States
| | - Shruti S Parikh
- School of Environmental and Forest Sciences, Anderson Hall, Box 352100, University of Washington, Seattle, Washington 98195, United States
| | - Dominic M Sivitilli
- School of Environmental and Forest Sciences, Anderson Hall, Box 352100, University of Washington, Seattle, Washington 98195, United States
| | - Sharon L Doty
- School of Environmental and Forest Sciences, Anderson Hall, Box 352100, University of Washington, Seattle, Washington 98195, United States
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Ali S, Tyagi A, Mushtaq M, Al-Mahmoudi H, Bae H. Harnessing plant microbiome for mitigating arsenic toxicity in sustainable agriculture. ENVIRONMENTAL POLLUTION (BARKING, ESSEX : 1987) 2022; 300:118940. [PMID: 35122918 DOI: 10.1016/j.envpol.2022.118940] [Citation(s) in RCA: 18] [Impact Index Per Article: 9.0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 09/08/2021] [Revised: 01/08/2022] [Accepted: 01/30/2022] [Indexed: 06/14/2023]
Abstract
Heavy metal toxicity has become an impediment to agricultural productivity, which presents major human health concerns in terms of food safety. Among them, arsenic (As) a non-essential heavy metal has gained worldwide attention because of its noxious effects on agriculture and public health. The increasing rate of global warming and anthropogenic activities have promptly exacerbated As levels in the agricultural soil, thereby causing adverse effects to crop genetic and phenotypic traits and rendering them vulnerable to other stresses. Conventional breeding and transgenic approaches have been widely adapted for producing heavy metal resilient crops; however, they are time-consuming and labor-intensive. Hence, finding new mitigation strategies for As toxicity would be a game-changer for sustainable agriculture. One such promising approach is harnessing plant microbiome in the era of 'omics' which is gaining prominence in recent years. The use of plant microbiome and their cocktails to combat As metal toxicity has gained widespread attention, because of their ability to metabolize toxic elements and offer an array of perquisites to host plants such as increased nutrient availability, stress resilience, soil fertility, and yield. A comprehensive understanding of below-ground plant-microbiome interactions and their underlying molecular mechanisms in exhibiting resilience towards As toxicity will help in identifying elite microbial communities for As mitigation. In this review, we have discussed the effect of As, their accumulation, transportation, signaling, and detoxification in plants. We have also discussed the role of the plant microbiome in mitigating As toxicity which has become an intriguing research frontier in phytoremediation. This review also provides insights on the advancements in constructing the beneficial synthetic microbial communities (SynComs) using microbiome engineering that will facilitate the development of the most advanced As remedial tool kit in sustainable agriculture.
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Affiliation(s)
- Sajad Ali
- Department of Biotechnology, Yeungnam University, Gyeongsan, Gyeongbuk, 38541, Republic of Korea
| | - Anshika Tyagi
- Department of Biotechnology, Yeungnam University, Gyeongsan, Gyeongbuk, 38541, Republic of Korea
| | | | - Henda Al-Mahmoudi
- Directorate of Programs, International Center for Biosaline Agriculture, Dubai, United Arab Emirates
| | - Hanhong Bae
- Department of Biotechnology, Yeungnam University, Gyeongsan, Gyeongbuk, 38541, Republic of Korea.
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Ustiatik R, Nuraini Y, Suharjono S, Jeyakumar P, Anderson CWN, Handayanto E. Endophytic bacteria promote biomass production and mercury-bioaccumulation of Bermuda grass and Indian goosegrass. INTERNATIONAL JOURNAL OF PHYTOREMEDIATION 2022; 24:1184-1192. [PMID: 34986046 DOI: 10.1080/15226514.2021.2023461] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 06/14/2023]
Abstract
Plant growth-promoting endophytic bacteria can potentially improve the biomass production of Hg-accumulating grasses, resulting in improved Hg extraction from contaminated soils. This study aimed to analyze the effect of inoculation of Hg-resistant endophytic bacteria (i) Jeotgalicoccus huakuii (B1) and (ii) Bacillus amyloliquefaciens (B2), as single and consortium inoculant, on biomass production and Hg bioaccumulation of Bermuda grass (R1) and Indian goosegrass (R2) planted as monoculture and mixed cropping. The grass seeds were surface-sterilized before the inoculation. Both inoculated seeds with B1 and B2 (treatments) and uninoculated seeds were sown separately in sterilized sand. Grass seedlings of both treatments and control were replanted in the washed and sterilized sand medium, spiked with HgCl2 (100 mg kg-1). A subset of grass was harvested at 0, 4, 6, and 10 weeks after planting to measure biomass production and Hg bioaccumulation. The results showed that bacterial inoculation enhanced the grass biomass by 52.68% and Hg bioaccumulation by 47.76%. Mercury residue of Hg-spiked sand treated with the bacterial consortium was reduced by 80%. This suggests that endophytic bacteria can improve grass biomass production and enhance Hg bioaccumulation in grass biomass.
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Affiliation(s)
- Reni Ustiatik
- Soil Science Department, Faculty of Agriculture, Brawijaya University, Malang, Indonesia
| | - Yulia Nuraini
- Soil Science Department, Faculty of Agriculture, Brawijaya University, Malang, Indonesia
| | - Suharjono Suharjono
- Department of Biology, Faculty of Science, Brawijaya University, Malang, Indonesia
| | - Paramsothy Jeyakumar
- Environmental Science Group, School of Agriculture and Environment, Massey University, Palmerston North, New Zealand
| | - Christopher W N Anderson
- Environmental Science Group, School of Agriculture and Environment, Massey University, Palmerston North, New Zealand
| | - Eko Handayanto
- Soil Science Department, Faculty of Agriculture, Brawijaya University, Malang, Indonesia
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Singh R, Misra AN, Sharma P. Safe, efficient, and economically beneficial remediation of arsenic-contaminated soil: possible strategies for increasing arsenic tolerance and accumulation in non-edible economically important native plants. ENVIRONMENTAL SCIENCE AND POLLUTION RESEARCH INTERNATIONAL 2021; 28:64113-64129. [PMID: 34036509 DOI: 10.1007/s11356-021-14507-z] [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: 09/02/2020] [Accepted: 05/17/2021] [Indexed: 06/12/2023]
Abstract
Anthropogenic activities, geological processes, and biogenic sources have led to the enhanced concentration of arsenic (As), a toxic metalloid in water and soil. Non-edible, economically important plants can be employed for safe As phytoremediation in addition to generating extra income. However, these plants may get affected by stressful local environmental conditions. Native plant species are adapted to local environmental conditions and hence overcome this problem. Native non-edible economic plant species which show high As tolerance and accumulation are promising candidate for safe, efficient, and economically beneficial phytoremediation of As-contaminated sites. The current review discusses the potential of native economic plant species that can be used in As phytoremediation programme. However, since their phytoremediation potential is moderate, possible strategies for increasing As olerance and accumulation, especially genetic modification, have been discussed in detail. Knowledge gained from the review can be used for the development of As tolerance and accumulation in non-edible economic native plants.
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Affiliation(s)
- Rajani Singh
- Department of Life Sciences, Central University of Jharkhand, Brambe, Ranchi, Jharkhand, 835205, India
| | - Amarendra Narayan Misra
- Department of Life Sciences, Central University of Jharkhand, Brambe, Ranchi, Jharkhand, 835205, India
| | - Pallavi Sharma
- Department of Life Sciences, Central University of Jharkhand, Brambe, Ranchi, Jharkhand, 835205, India.
- School of Environment and Sustainable Development, Central University of Gujarat, Sector-30, Gandhinagar, Gujarat, 382030, India.
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Alka S, Shahir S, Ibrahim N, Rahmad N, Haliba N, Abd Manan F. Histological and proteome analyses of Microbacterium foliorum-mediated decrease in arsenic toxicity in Melastoma malabathricum. 3 Biotech 2021; 11:336. [PMID: 34221807 PMCID: PMC8208456 DOI: 10.1007/s13205-021-02864-y] [Citation(s) in RCA: 2] [Impact Index Per Article: 0.7] [Reference Citation Analysis] [Abstract] [Key Words] [Grants] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 11/14/2020] [Accepted: 05/31/2021] [Indexed: 01/03/2023] Open
Abstract
Arsenic (As) is an increasing threat across the globe, widely known as a non-threshold carcinogen, and it is reaching harmful values in several areas of the world. In this study, the effect of plant growth promoting bacteria (Microbacterium foliorum) on inorganic arsenic (Arsenate) phytoremediation by Melastoma malabathricum plants was investigated through histological analysis and proteome profiling of the M. malabathricum plants. Two-dimensional gel electrophoresis and transmission electron microscopy were used to conduct the proteome and histological analysis. When arsenic-treated cells were compared to untreated cells, substantial changes were found (1) severely altered the morphology of the cells, intensely disturbed; (2) the cell wall was thicker; (3) drastically changed the cytoplasm, the cells were polygonal in shape, different in size (scattered), and relatively dense. Compared to the control group, the ultra-structure of the root cells of the control group revealed intact cytoplasm, vacuole, and cell wall under exposure to As + bacteria that had a minor effect on the cell form. To further understand As + bacteria interaction, proteome profiling of the root cell was analyzed. The As-induced oxidative stress enrichment was confirmed by the up-regulation of tubulin, nucleoside diphosphate kinase, and major allergen during As + bacteria exposure It was observed that the profusion of proteins involved in defence, protein biogenesis, signaling, photosynthesis, nucleoside and energy metabolism was greater in As + bacteria as compared to the rooting out of As only. Overall, it can be obviously seen that the current study demonstrates the effectiveness of phytoremediation by M. foliorum on proteins involved and responsive pathways in dealing with As toxicity in M. malabathricum plant.
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Affiliation(s)
- Sadiya Alka
- Department of Biosciences, Faculty of Science, Universiti Teknologi Malaysia, 81310 Skudai, Johor Malaysia
| | - Shafinaz Shahir
- Department of Biosciences, Faculty of Science, Universiti Teknologi Malaysia, 81310 Skudai, Johor Malaysia
| | - Norahim Ibrahim
- Department of Biosciences, Faculty of Science, Universiti Teknologi Malaysia, 81310 Skudai, Johor Malaysia
| | - Norasfaliza Rahmad
- Agro-Biotechnology Institute, National Institutes of Biotechnology Malaysia (NIBM), c/o MARDI Headquater, 43400 Serdang, Selangor Malaysia
| | - Norhazalina Haliba
- University Industry Research Laboratory, Universiti Teknologi Malaysia, 81310 Skudai, Johor Malaysia
| | - Fazilah Abd Manan
- Department of Biosciences, Faculty of Science, Universiti Teknologi Malaysia, 81310 Skudai, Johor Malaysia
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Irshad S, Xie Z, Mehmood S, Nawaz A, Ditta A, Mahmood Q. Insights into conventional and recent technologies for arsenic bioremediation: A systematic review. ENVIRONMENTAL SCIENCE AND POLLUTION RESEARCH INTERNATIONAL 2021; 28:18870-18892. [PMID: 33586109 DOI: 10.1007/s11356-021-12487-8] [Citation(s) in RCA: 12] [Impact Index Per Article: 4.0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 09/26/2020] [Accepted: 01/11/2021] [Indexed: 05/22/2023]
Abstract
Arsenic (As) bioremediation has been an economical and sustainable approach, being practiced widely under several As-contaminated environments. Bioremediation of As involves the use of bacteria, fungi, yeast, plants, and genetically modified organisms for detoxification/removal of As from the contaminated site. The understanding of multi-factorial biological components involved in these approaches is complex and more and more efforts are on their way to make As bioremediation economical and efficient. In this regard, we systematically reviewed the recent literature (n=200) from the last two decades regarding As bioremediation potential of conventional and recent technologies including genetically modified plants for phytoremediation and integrated approaches. Also, the responsible mechanisms behind different approaches have been identified. From the literature, it was found that As bioremediation through biosorption, bioaccumulation, phytoextraction, and volatilization involving As-resistant microbes has proved a very successful technology. However, there are various pathways of As tolerance of which the mechanisms have not been fully understood. Recently, phytosuction separation technology has been introduced and needs further exploration. Also, integrated approaches like phytobial, constructed wetlands using As-resistant bacteria with plant growth-promoting activities have not been extensively studied. It is speculated that the integrated bioremediation approaches with practical applicability and reliability would prove most promising for As remediation. Further technological advancements would help explore the identified research gaps in different approaches and lead us toward sustainability and perfection in As bioremediation.
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Affiliation(s)
- Sana Irshad
- School of Environmental Studies, China University of Geosciences, Wuhan, 430074, People's Republic of China
| | - Zuoming Xie
- School of Environmental Studies, China University of Geosciences, Wuhan, 430074, People's Republic of China
- State Key Laboratory of Biogeology and Environmental Geology, China University of Geosciences, Wuhan, 430074, People's Republic of China
| | - Sajid Mehmood
- Guangdong Provincial Key Laboratory for Radionuclides Pollution Control and Resources, School of Environmental Science and Engineering, Guangzhou University, Guangzhou, 510006, China
| | - Asad Nawaz
- Jiangsu Key Laboratory of Crop Genetics and Physiology, Key Laboratory of Plant Functional Genomics of the Ministry of Education, College of Agriculture, Yangzhou University, Yangzhou, 225009, Jiangsu, People's Republic of China
| | - Allah Ditta
- Department of Environmental Sciences, Shaheed Benazir Bhutto University Sheringal, Upper Dir, Khyber Pakhtunkhwa, 18000, Pakistan.
- School of Biological Sciences, The University of Western Australia, 35 Stirling Highway, Perth, WA, 6009, Australia.
| | - Qaisar Mahmood
- Department of Environmental Sciences, COMSATS University Islamabad, Abbottabad Campus, Abbottabad, 22060, Pakistan.
- School of Biotechnology and Food Engineering, Huanghuai University, Zhumadian, 463000, China.
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A Gnotobiotic Model to Examine Plant and Microbiome Contributions to Survival under Arsenic Stress. Microorganisms 2020; 9:microorganisms9010045. [PMID: 33375331 PMCID: PMC7823691 DOI: 10.3390/microorganisms9010045] [Citation(s) in RCA: 7] [Impact Index Per Article: 1.8] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 11/11/2020] [Revised: 12/16/2020] [Accepted: 12/23/2020] [Indexed: 12/27/2022] Open
Abstract
So far, the relative importance of the plant and its microbiome in the development of early stages of plant seedling growth under arsenic stress has not been studied. To test the role of endophytic bacteria in increasing plant success under arsenic stress, gnotobiotic seeds of J. montana were inoculated with two endophytic bacteria: Pantoea conspicua MC-K1 (PGPB and As resistant bacteria) and Arthrobacter sp. MC-D3A (non-helper and non-As resistant bacteria) and an endobacteria mixture. In holobiotic seedlings (with seed-vectored microbes intact), neither the capacity of germination nor development of roots and lateral hairs was affected at 125 μM As(V). However, in gnotobiotic seedlings, the plants are negatively impacted by absence of a microbiome and presence of arsenic, resulting in reduced growth of roots and root hairs. The inoculation of a single PGPB (P. conspicua-MCK1) shows a tendency to the recovery of the plant, both in arsenic enriched and arsenic-free media, while the inoculation with Arthrobacter sp. does not help in the recovery of the plants. Inoculation with a bacterial mixture allows recovery of plants in arsenic free media; however, plants did not recover under arsenic stress, probably because of a bacterial interaction in the mixture.
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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: 48] [Impact Index Per Article: 12.0] [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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Zhen Z, Yan C, Zhao Y. Influence of epiphytic bacteria on arsenic metabolism in Hydrilla verticillata. ENVIRONMENTAL POLLUTION (BARKING, ESSEX : 1987) 2020; 261:114232. [PMID: 32114122 DOI: 10.1016/j.envpol.2020.114232] [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: 09/04/2019] [Revised: 01/09/2020] [Accepted: 02/16/2020] [Indexed: 06/10/2023]
Abstract
Microbial assemblages such as biofilms around aquatic plants play a major role in arsenic (As) cycling, which has often been overlooked in previous studies. In this study, arsenite (As(III))-oxidizing, arsenate (As(V))-reducing and As(III)-methylating bacteria were found to coexist in the phyllosphere of Hydrilla verticillata, and their relative activities were shown to determine As speciation, accumulation and efflux. When exposed to As(III), As(III) oxidation was not observed in treatment H(III)-B, whereas treatment H(III)+B showed a significant As(III) oxidation ability, thereby indicating that epiphytic bacteria displayed a substantial As(III) oxidation ability. When exposed to As(V), the medium only contained 5.89% As(III) after 48 h of treatment H(V)-B, while an As(III) content of 86.72% was observed after treatment H(V)+B, thereby indicating that the elevated As(III) in the medium probably originated from As(V) reduction by epiphytic bacteria. Our data also indicated that oxidizing bacteria decreased the As accumulation (by approximately 64.44% compared with that of treatment H(III)-B) in plants, while reducing bacteria played a critical role in increasing As accumulation (by approximately 3.31-fold compared with that of treatment H(V)-B) in plants. Regardless of whether As(III) or As(V) was supplied, As(III) was dominant in the plant tissue (over 75%). Furthermore, the presence of epiphytic bacteria enhanced As efflux by approximately 9-fold. Metagenomic analysis revealed highly diverse As metabolism genes in epiphytic bacterial community, particularly those related to energetic metabolism (aioAB), and As resistance (arsABCR, acr3, arsM). Phylogenetic analysis of As metabolism genes revealed evidence of both vertical inheritance and horizontal gene transfer, which might have contributed to the evolution of the As metabolism genes. Taken together, our research suggested that the diversity of As metabolism genes in epiphytic bacterial community is associated with aquatic submerged macrophytes which may play an important role in As biogeochemistry in aquatic environments.
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Affiliation(s)
- Zhuo Zhen
- Key Laboratory of Urban Environment and Health, Institute of Urban Environment, Chinese Academy of Sciences, Xiamen 361021, China; University of Chinese Academy of Sciences, Beijing 100049, China.
| | - Changzhou Yan
- Key Laboratory of Urban Environment and Health, Institute of Urban Environment, Chinese Academy of Sciences, Xiamen 361021, China.
| | - Yuan Zhao
- Key Laboratory of Urban Environment and Health, Institute of Urban Environment, Chinese Academy of Sciences, Xiamen 361021, China; University of Chinese Academy of Sciences, Beijing 100049, China.
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Saxena G, Purchase D, Mulla SI, Saratale GD, Bharagava RN. Phytoremediation of Heavy Metal-Contaminated Sites: Eco-environmental Concerns, Field Studies, Sustainability Issues, and Future Prospects. REVIEWS OF ENVIRONMENTAL CONTAMINATION AND TOXICOLOGY 2020; 249:71-131. [PMID: 30806802 DOI: 10.1007/398_2019_24] [Citation(s) in RCA: 29] [Impact Index Per Article: 7.3] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 06/09/2023]
Abstract
Environmental contamination due to heavy metals (HMs) is of serious ecotoxicological concern worldwide because of their increasing use at industries. Due to non-biodegradable and persistent nature, HMs cause serious soil/water pollution and severe health hazards in living beings upon exposure. HMs can be genotoxic, carcinogenic, mutagenic, and teratogenic in nature even at low concentration. They may also act as endocrine disruptors and induce developmental as well as neurological disorders, and thus, their removal from our natural environment is crucial for the rehabilitation of contaminated sites. To cope with HM pollution, phytoremediation has emerged as a low-cost and eco-sustainable solution to conventional physicochemical cleanup methods that require high capital investment and labor alter soil properties and disturb soil microflora. Phytoremediation is a green technology wherein plants and associated microbes are used to remediate HM-contaminated sites to safeguard the environment and protect public health. Hence, in view of the above, the present paper aims to examine the feasibility of phytoremediation as a sustainable remediation technology for the management of metal-contaminated sites. Therefore, this paper provides an in-depth review on both the conventional and novel phytoremediation approaches; evaluates their efficacy to remove toxic metals from our natural environment; explores current scientific progresses, field experiences, and sustainability issues; and revises world over trends in phytoremediation research for its wider recognition and public acceptance as a sustainable remediation technology for the management of contaminated sites in the twenty-first century.
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Affiliation(s)
- Gaurav Saxena
- Laboratory for Bioremediation and Metagenomics Research (LBMR), Department of Environmental Microbiology (DEM), Babasaheb Bhimrao Ambedkar University (A Central University), Lucknow, Uttar Pradesh, India
| | - Diane Purchase
- Department of Natural Sciences, Faculty of Science and Technology, Middlesex University, London, UK
| | - Sikandar I Mulla
- CAS Key Laboratory of Urban Pollutant Conversion, Institute of Urban Environment, Chinese Academy of Sciences, Xiamen, People's Republic of China
| | - Ganesh Dattatraya Saratale
- Department of Food Science and Biotechnology, Dongguk University-Seoul, Goyang-si, Gyeonggi-do, Republic of Korea
| | - Ram Naresh Bharagava
- Laboratory for Bioremediation and Metagenomics Research (LBMR), Department of Environmental Microbiology (DEM), Babasaheb Bhimrao Ambedkar University (A Central University), Lucknow, Uttar Pradesh, India.
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Mohd S, Kushwaha AS, Shukla J, Mandrah K, Shankar J, Arjaria N, Saxena PN, Khare P, Narayan R, Dixit S, Siddiqui MH, Tuteja N, Das M, Roy SK, Kumar M. Fungal mediated biotransformation reduces toxicity of arsenic to soil dwelling microorganism and plant. ECOTOXICOLOGY AND ENVIRONMENTAL SAFETY 2019; 176:108-118. [PMID: 30925326 DOI: 10.1016/j.ecoenv.2019.03.053] [Citation(s) in RCA: 16] [Impact Index Per Article: 3.2] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 01/14/2019] [Revised: 03/11/2019] [Accepted: 03/13/2019] [Indexed: 05/24/2023]
Abstract
Rhizospheric and plant root associated microbes generally play a protective role against arsenic toxicity in rhizosphere. Rhizospheric microbial interaction influences arsenic (As) detoxification/mobilization into crop plants and its level of toxicity and burden. In the present investigation, we have reported a rhizospheric fungi Aspergillus flavus from an As contaminated rice field, which has capability to grow at high As concentration and convert soluble As into As particles. These As particles showed a reduced toxicity to soil dwelling bacteria, fungi, plant and slime mold. It does not disrupt membrane potential, inner/outer membrane integrity and survival of the free N2 fixating bacteria. In arbuscular mycorrhiza like endophytic fungi Piriformospora indica, these As particles does not influence mycelial growth and plant beneficial parameters such as phosphate solubilizing enzyme rAPase secretion and plant root colonization. Similarly, it does not affect plant growth and chlorophyll content negatively in rice plant. However, these As particles showed a poor absorption and mobilization in plant. These As particle also does not affect attachment process and survival of amoeboid cells in slime mold, Dictyostelium discoideum. This study suggests that the process of conversion of physical and chemical properties of arsenic during transformation, decides the toxicity of arsenic particles in the rhizospheric environment. This phenomenon is of environmental significance, not only in reducing arsenic toxicity but also in the survival of healthy living organism in arsenic-contaminated rhizospheric environment.
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Affiliation(s)
- Shayan Mohd
- Environmental Toxicology Group, CSIR-Indian Institute of Toxicology Research (CSIR-IITR), Vishvigyan Bhavan, 31, Mahatma Gandhi Marg, Lucknow, 226 001, India; Department of Bioengineering, Faculty of Engineering, Integral University, Dasauli, Kursi Road, Lucknow, 226026, India
| | - Aparna Singh Kushwaha
- Environmental Toxicology Group, CSIR-Indian Institute of Toxicology Research (CSIR-IITR), Vishvigyan Bhavan, 31, Mahatma Gandhi Marg, Lucknow, 226 001, India; Academy of Scientific and Innovative Research (AcSIR), CSIR-IITR Campus, Vishvigyan Bhavan, 31, Mahatma Gandhi Marg, Lucknow, 226 001, Uttar Pradesh, India
| | - Jagriti Shukla
- Environmental Toxicology Group, CSIR-Indian Institute of Toxicology Research (CSIR-IITR), Vishvigyan Bhavan, 31, Mahatma Gandhi Marg, Lucknow, 226 001, India; Academy of Scientific and Innovative Research (AcSIR), CSIR-IITR Campus, Vishvigyan Bhavan, 31, Mahatma Gandhi Marg, Lucknow, 226 001, Uttar Pradesh, India
| | - Kapil Mandrah
- Regulatory Toxicology Group, CSIR-Indian Institute of Toxicology Research (CSIR-IITR), Vishvigyan Bhavan, 31, Mahatma Gandhi Marg, Lucknow, 226 001, India; Academy of Scientific and Innovative Research (AcSIR), CSIR-IITR Campus, Vishvigyan Bhavan, 31, Mahatma Gandhi Marg, Lucknow, 226 001, Uttar Pradesh, India
| | - Jai Shankar
- Electron Microscope Facility, CSIR-Indian Institute of Toxicology Research (CSIR-IITR), Vishvigyan Bhavan, 31, Mahatma Gandhi Marg, Lucknow, 226 001, India
| | - Nidhi Arjaria
- Electron Microscope Facility, CSIR-Indian Institute of Toxicology Research (CSIR-IITR), Vishvigyan Bhavan, 31, Mahatma Gandhi Marg, Lucknow, 226 001, India
| | - Prem Narain Saxena
- Electron Microscope Facility, CSIR-Indian Institute of Toxicology Research (CSIR-IITR), Vishvigyan Bhavan, 31, Mahatma Gandhi Marg, Lucknow, 226 001, India
| | - Puneet Khare
- Flow Cytometry Facility, CSIR-Indian Institute of Toxicology Research (CSIR-IITR), Vishvigyan Bhavan, 31, Mahatma Gandhi Marg, Lucknow, 226 001, India
| | - Ram Narayan
- Confocal Microscope Facility, CSIR-Indian Institute of Toxicology Research (CSIR-IITR), Vishvigyan Bhavan, 31, Mahatma Gandhi Marg, Lucknow, 226 001, India
| | - Sumita Dixit
- Food, Drug and Chemical Toxicology Group, CSIR-Indian Institute of Toxicology Research (CSIR-IITR), Vishvigyan Bhavan, 31, Mahatma Gandhi Marg, Lucknow, 226 001, India
| | - Mohd Haris Siddiqui
- Department of Bioengineering, Faculty of Engineering, Integral University, Dasauli, Kursi Road, Lucknow, 226026, India
| | - Narendra Tuteja
- International Centre of Genetic Engineering and Biotechnology, Aruna Asif Ali Road, New Delhi, 110067, India
| | - Mukul Das
- Food, Drug and Chemical Toxicology Group, CSIR-Indian Institute of Toxicology Research (CSIR-IITR), Vishvigyan Bhavan, 31, Mahatma Gandhi Marg, Lucknow, 226 001, India
| | - Somendu Kumar Roy
- Regulatory Toxicology Group, CSIR-Indian Institute of Toxicology Research (CSIR-IITR), Vishvigyan Bhavan, 31, Mahatma Gandhi Marg, Lucknow, 226 001, India; Academy of Scientific and Innovative Research (AcSIR), CSIR-IITR Campus, Vishvigyan Bhavan, 31, Mahatma Gandhi Marg, Lucknow, 226 001, Uttar Pradesh, India
| | - Manoj Kumar
- Environmental Toxicology Group, CSIR-Indian Institute of Toxicology Research (CSIR-IITR), Vishvigyan Bhavan, 31, Mahatma Gandhi Marg, Lucknow, 226 001, India; Academy of Scientific and Innovative Research (AcSIR), CSIR-IITR Campus, Vishvigyan Bhavan, 31, Mahatma Gandhi Marg, Lucknow, 226 001, Uttar Pradesh, India.
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An endophytic Kocuria palustris strain harboring multiple arsenate reductase genes. Arch Microbiol 2019; 201:1285-1293. [DOI: 10.1007/s00203-019-01692-2] [Citation(s) in RCA: 6] [Impact Index Per Article: 1.2] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 08/30/2018] [Revised: 05/13/2019] [Accepted: 06/13/2019] [Indexed: 11/25/2022]
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