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53. International Journal of Biological Macromolecul

Author

Monnens, Marlies, Thijs, Sofie, Brsicoe, Andrew G., Clark, Miriam, Frost, Emily Joy, Littlewood, D. Tim J., Sewell, Mary, Smeets, Karen, Artois, Tom, and Vanhove, Maarten P.M.

Abstract

International Journal of Biological Macromolecul

Published
2020
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54. Additional file 1 of Nanoparticle treatment of maize analyzed through the metatranscriptome: compromised nitrogen cycling, possible phytopathogen selection, and plant hormesis

Author

Sillen, Wouter M. A., Thijs, Sofie, Abbamondi, Gennaro Roberto, Roche, Roberto De La Torre, Weyens, Nele, White, Jason C., and Vangronsveld, Jaco

Abstract

Additional file 1. Transmission electron microscope image of the silver nanoparticles used in the study. Nanoparticles were obtained in solid form from US Research Nanomaterials, Inc. (Houston, TX, USA), and were applied to soil in this form.

Published
2020
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55. Enhancing the rice seedlings growth promotion abilities of Azoarcus sp. CIB by heterologous expression of ACC deaminase to improve performance of plants exposed to cadmium stress

Author

Ministerio de Economía y Competitividad (España), Fundación Ramón Areces, Consejo Superior de Investigaciones Científicas (España), Fernández-Llamosas, Helga, Ibero, Juan, Thijs, Sofie, Imperato, Valeria, Vangronsveld, Jaco, Díaz, Eduardo, Carmona, Manuel, Ministerio de Economía y Competitividad (España), Fundación Ramón Areces, Consejo Superior de Investigaciones Científicas (España), Fernández-Llamosas, Helga, Ibero, Juan, Thijs, Sofie, Imperato, Valeria, Vangronsveld, Jaco, Díaz, Eduardo, and Carmona, Manuel

Abstract

Environmental pollutants can generate stress in plants causing increased ethylene production that leads to the inhibition of plant growth. Ethylene production by the stressed plant may be lowered by Plant Growth-Promoting Bacteria (PGPB) that metabolizes the immediate precursor of ethylene 1-aminocyclopropane-1-carboxylate (ACC). Thus, engineering PGPB with ACC deaminase activity can be a promising alternative to mitigate the harmful effects of pollutants and thus enhance plant production. Here we show that the aromatics-degrading and metal-resistant Azoarcus sp. CIB behaves as a PGP-bacterium when colonizing rice as an endophyte, showing a 30% increment in plant weight compared to non-inoculated plants. The cloning and expression of an acdS gene led to a recombinant strain, Azoarcus sp. CIB (pSEVA237acdS), possessing significant ACC deaminase activity (6716 nmol mg−1 h−1), constituting the first PGPB of the Rhodocyclaceae family equipped with this PGP trait. The recombinant CIB strain acquired the ability to protect inoculated rice plants from the stress induced by cadmium (Cd) exposure and to increase the Cd concentration in rice seedlings. The observed decrease of the levels of reactive oxygen species levels in rice roots confirms such a protective effect. The broad-host-range pSEVA237acdS plasmid paves the way to engineer PGPB with ACC deaminase activity to improve the growth of plants that might face stress conditions.

Published
2020

56. Isolation, Biochemical and Genomic Characterization of Glyphosate Tolerant Bacteria to Perform Microbe-Assisted Phytoremediation

Author

Massot, Francisco, primary, Gkorezis, Panagiotis, additional, Van Hamme, Jonathan, additional, Marino, Damian, additional, Trifunovic, Bojana Spirovic, additional, Vukovic, Gorica, additional, d’Haen, Jan, additional, Pintelon, Isabel, additional, Giulietti, Ana María, additional, Merini, Luciano, additional, Vangronsveld, Jaco, additional, and Thijs, Sofie, additional

Published
2021
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64. Effects of winter and summer conditions on Cd fractionation and bioavailability, bacterial communities and Cd phytoextraction potential of Brachiaria decumbens and Panicum maximum grown in a tropical soil

Author

Rabêlo, Flávio Henrique Silveira, primary, Borgo, Lucélia, additional, Merloti, Luis Fernando, additional, Pylro, Victor Satler, additional, Navarrete, Acacio Aparecido, additional, Mano, Rodrigo Hideki, additional, Thijs, Sofie, additional, Vangronsveld, Jaco, additional, and Alleoni, Luís Reynaldo Ferracciú, additional

Published
2020
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66. Cable Bacteria as Long-Range Biological Semiconductors

Author

Bonné, Robin, primary, Hou, Ji-Ling, additional, Hustings, Jeroen, additional, Meert, Mathijs, additional, Hidalgo-Martinez, Silvia, additional, Cornelissen, Rob, additional, D'Haen, Jan, additional, Thijs, Sofie, additional, Vangronsveld, Jaco, additional, Valcke, Roland, additional, Cleuren, Bart, additional, Meysman, Filip R., additional, and Manca, Jean V., additional

Published
2020
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67. Hedera helix phyllobiome structure and (pan)genomic survey of bacterial isolates with regard to phytoremediation of airborne pollutants

Author

Stevens, Vincent, Thijs, Sofie, Weyens, Nele, and Vangronsveld, Jaco

Subjects
Air pollution, phytoremediation, phyllobiome, Hedera helix
Abstract

Air pollution, containing fossil fuel-related volatile organic compounds (VOCs), constitutes a major problem in most urban areas. Worldwide, more people die from exposure to air pollution than from malaria and HIV infection together. Many years of research show that plant–microbe interactions can be exploited to significantly enhance phytoremediation of contaminated environments. Microorganisms living on plant leaves constitute promising candidates to detoxify harmful VOCs and promote plant growth. Hedera helix, an evergreen plant known for its hardiness and climbing ability, proves to be an excellent host species in the context of phytoremediation of air pollution. We employed 16S rRNA gene amplicon-based metagenomics to characterize the taxonomic structure of phyllospheric microbial communities associated with H. helix. Further, we investigated 33 bacterial isolates from 8 different genera using culture-dependent approaches and whole genome sequencing. Our results indicate that the relative composition of the H. helix phyllobiome is similar to that of the model plant Arabidopsis thaliana. The presence of pathways related to detoxification of fossil fuel-related VOCs could be confirmed by genome-level analyses of bacterial isolates showing a high in vitro capacity to metabolize selected VOCs and promote plant growth. We provide an integrated description of the H. helix phyllobiome, including the identification of interesting bacteria with significant potential as inoculants in phytoremediation approaches. Het Fonds voor Wetenschappelijk Onderzoek – Vlaanderen (FWO)

Published
2018

72. Tobacco, Sunflower and High Biomass SRC Clones Show Potential for Trace Metal Phytoextraction on a Moderately Contaminated Field Site in Belgium

Author

Thijs, Sofie, primary, Witters, Nele, additional, Janssen, Jolien, additional, Ruttens, Ann, additional, Weyens, Nele, additional, Herzig, Rolf, additional, Mench, Michel, additional, Van Slycken, Stijn, additional, Meers, Erik, additional, Meiresonne, Linda, additional, and Vangronsveld, Jaco, additional

Published
2018
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73. Diversity of microorganisms in the Hedera helix phyllosphere and their role in phytoremediation of air pollution

Author

Stevens, Vincent, Thijs, Sofie, Weyens, Nele, and Vangronsveld, Jaco

Abstract

Air pollution, containing fossil fuel-related volatile organic compounds (VOCs), constitutes a major problem in most urban areas. According to recent data, more people die from exposure to air pollution than from malaria and HIV infection together. Many years of research show that plant–microbe interactions can be exploited to significantly enhance phytoremediation of contaminated environments. Microorganisms living on plant leaves constitute promising candidates to detoxify harmful VOCs and promote plant growth. Hedera helix, an evergreen plant known for its hardiness and climbing ability, proves to be an excellent host species in the context of phytoremediation of air pollution. We employed 16S rRNA gene amplicon-based metagenomics and real-time PCR to characterize the taxonomic structure of phyllospheric microbial communities associated with H. helix, and compared the communities present at polluted high-traffic locations with non-polluted sites. Further, we investigated bacterial isolates using culture-dependent approaches and sequenced the genomes of promising bacteria with regard to phytoremediation applications. Our results indicate that Actinobacteria, Firmicutes and Betaproteobacteria are more abundantly present on H. helix leaves in a polluted environment. Moreover, the relative composition of the H. helix phyllobiome appears to be similar to that of the model plant Arabidopsis thaliana. We further show that air pollution increases the prevalence of bacterial functional traits affiliated to plant growth and detoxification of fossil fuel-related VOCs. The presence of relevant pathways could be confirmed by genome-level analyses of bacterial isolates showing a high in vitro capacity to metabolize selected VOCs and promote plant growth. In conclusion, an integrated description of the H. helix phyllobiome is presented, including the identification of interesting bacteria with significant potential as inoculants in phytoremediation approaches. This work is supported by the Hasselt University Methusalem project 08M03VGRJ

Published
2017

78. MOESM1 of Plant growth-promoting effects of rhizospheric and endophytic bacteria associated with different tomato cultivars and new tomato hybrids

Author

Abbamondi, Gennaro, Tommonaro, Giuseppina, Weyens, Nele, Thijs, Sofie, Sillen, Wouter, Gkorezis, Panagiotis, Iodice, Carmine, Rangel, Wesley Melo, Nicolaus, Barbara, and Vangronsveld, Jaco

Abstract

Additional file 1. Soil characteristics analyzed in 2012 and 2013. a organic matter, b electrical conductivity of a saturated soil paste extract (ECe), c Total soil N by Kjeldahl method.

Published
2016
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79. Towards an Enhanced Understanding of Plant-Microbiome Interactions to Improve Phytoremediation: Engineering the Metaorganism

Author

Thijs, Sofie, Sillen, Wouter, Rineau, Francois, Weyens, Nele, and Vangronsveld, Jaco

Subjects
fungi, food and beverages, phytoremediation, metaorganism, contaminant biodegradation, plant growth promotion
Abstract

Phytoremediation is a promising technology to clean-up contaminated soils based on the synergistic actions of plants and microorganisms. However, to become a widely accepted, and predictable remediation alternative, a deeper understanding of the plant-microbe interactions is needed. A number of studies link the success of phytoremediation to the plant-associated microbiome functioning, though whether the microbiome can exist in alternative, functional states for soil remediation, is incompletely understood. Moreover, current approaches that target the plant host, and environment separately to improve phytoremediation, potentially overlook microbial functions and properties that are part of the multiscale complexity of the plant-environment wherein biodegradation takes place. In contrast, in situ studies of phytoremediation research at the metaorganism level (host and microbiome together) are lacking. Here, we discuss a competition-driven model, based on recent evidence from the metagenomics level, and hypotheses generated by microbial community ecology, to explain the establishment of a catabolic rhizosphere microbiome in a contaminated soil. There is evidence to ground that if the host provides the right level and mix of resources (exudates) over which the microbes can compete, then a competitive catabolic and plant-growth promoting (PGP) microbiome can be selected for as long as it provides a competitive superiority in the niche. The competition-driven model indicates four strategies to interfere with the microbiome. Specifically, the rhizosphere microbiome community can be shifted using treatments that alter the host, resources, environment, and that take advantage of prioritization in inoculation. Our model and suggestions, considering the metaorganism in its natural context, would allow to gain further knowledge on the plant-microbial functions, and facilitate translation to more effective, and predictable phytotechnologies. This work was supported by a PhD grant to ST and a post doc grant for NW from the Fund for Scientific Research Flanders, Belgium (FWO-Vlaanderen) and the Methusalem project 08M03VGRJ.

Published
2016

81. Leguminosae native nodulating bacteria from a gold mine As-contaminated soil: Multi-resistance to trace elements, and possible role in plant growth and mineral nutrition

Author

Rangel, Wesley de M., primary, de Oliveira Longatti, Silvia M., additional, Ferreira, Paulo A. A., additional, Bonaldi, Daiane S., additional, Guimarães, Amanda A., additional, Thijs, Sofie, additional, Weyens, Nele, additional, Vangronsveld, Jaco, additional, and Moreira, Fatima M. S., additional

Published
2017
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83. Diversity of Ligninolytic Enzymes and Their Genes in Strains of the Genus Ganoderma: Applicable for Biodegradation of Xenobiotic Compounds?

Author

Torres-Farradá, Giselle, primary, Manzano León, Ana M., additional, Rineau, François, additional, Ledo Alonso, Lucía L., additional, Sánchez-López, María I., additional, Thijs, Sofie, additional, Colpaert, Jan, additional, Ramos-Leal, Miguel, additional, Guerra, Gilda, additional, and Vangronsveld, Jaco, additional

Published
2017
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87. The Role of Plant-Microbe Interactions and Their Exploitation for Phytoremediation of Air Pollutants

Author

Weyens, Nele, Thijs, Sofie, Popek, Robert, Witters, Nele, Przybysz, Arkadiusz, Espenshade, Jordan, Gawronska, Helena, Vangronsveld, Jaco, and Gawronski, Stanislaw W.

Subjects
phytoremediation, air pollutants, phylloremediation, particulate matter, VOCs (volatile organic compounds), microbiome, fungi, food and beverages
Abstract

Since air pollution has been linked to a plethora of human health problems, strategies to improve air quality are indispensable. Despite the complexity in composition of air pollution, phytoremediation was shown to be effective in cleaning air. Plants are known to scavenge significant amounts of air pollutants on their aboveground plant parts. Leaf fall and runoff lead to transfer of (part of) the adsorbed pollutants to the soil and rhizosphere below. After uptake in the roots and leaves, plants can metabolize, sequestrate and/or excrete air pollutants. In addition, plant-associated microorganisms play an important role by degrading, detoxifying or sequestrating the pollutants and by promoting plant growth. In this review, an overview of the available knowledge about the role and potential of plant-microbe interactions to improve indoor and outdoor air quality is provided. Most importantly, common air pollutants (particulate matter, volatile organic compounds and inorganic air pollutants) and their toxicity are described. For each of these pollutant types, a concise overview of the specific contributions of the plant and its microbiome is presented. To conclude, the state of the art and its related future challenges are presented. This work has been financially supported by the UHasselt Methusalem project 08M03VGRJ

Published
2015

91. Draft Genome Sequence of Bacillus licheniformis Strain GB2, a Hydrocarbon-Degrading and Plant Growth-Promoting Soil Bacterium

Author

Gkorezis, Panagiotis, primary, Van Hamme, Jonathan, additional, Bottos, Eric, additional, Thijs, Sofie, additional, Balseiro-Romero, Maria, additional, Monterroso, Carmela, additional, Kidd, Petra Suzan, additional, Rineau, Francois, additional, Weyens, Nele, additional, Sillen, Wouter, additional, and Vangronsveld, Jaco, additional

Published
2016
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93. Draft Genome Sequence of Mesorhizobium sp. UFLA 01-765, a Multitolerant, Efficient Symbiont and Plant Growth-Promoting Strain Isolated from Zn-Mining Soil Using Leucaena leucocephala as a Trap Plant

Author

Rangel, Wesley Melo, primary, Thijs, Sofie, additional, Moreira, Fatima Maria de Souza, additional, Weyens, Nele, additional, Vangronsveld, Jaco, additional, Van Hamme, Jonathan D., additional, Bottos, Eric M., additional, and Rineau, Francois, additional

Published
2016
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95. Draft Genome Sequence of Pantoea ananatis GB1, a Plant-Growth-Promoting Hydrocarbonoclastic Root Endophyte, Isolated at a Diesel Fuel Phytoremediation Site Planted with Populus

Author

Gkorezis, Panagiotis, primary, Van Hamme, Jonathan D., additional, Bottos, Eric M., additional, Thijs, Sofie, additional, Balseiro-Romero, Maria, additional, Monterroso, Carmela, additional, Kidd, Petra Suzan, additional, Rineau, Francois, additional, Weyens, Nele, additional, and Vangronsveld, Jaco, additional

Published
2016
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99. Community structure and diversity of endophytic bacteria in seeds of three consecutive generations of <italic>Crotalaria pumila</italic> growing on metal mine residues.

Author

Sánchez-López, Ariadna S., Thijs, Sofie, Beckers, Bram, González-Chávez, Ma. Carmen, Weyens, Nele, Carrillo-González, Rogelio, and Vangronsveld, Jaco

Subjects
*ENDOPHYTIC bacteria, *BACTERIAL diversity, *SEED microbiology, *CROTALARIA, *TRACE metals, *PHYTOREMEDIATION, *PYROSEQUENCING
Abstract

Aims: We investigated the possible transgenerational transfer of bacterial seed endophytes across three consecutive seed generations of Crotalaria pumila growing on a metal mining site in Mexico.Methods: Seeds were collected during three successive years in the semi-arid region of Zimapan, Mexico. Total communities of seed endophytes were investigated using DNA extraction from surface sterilized seeds and 454 pyrosequencing of the V5-V7 hypervariable regions of the 16S rRNA gene.Results: The communities consisted of an average of 75 operational taxonomic units (OTUs); richness and diversity did not change across years. Methylobacterium, Staphylococcus, Corynebacterium, Propionibacterium and eight other OTUs constituted >60% of the community in each generation. The microbiome was dominated by Methylobacterium (present in >80% of samples). Functions associated with the microbiome were C and N fixation, oxidative phosphorylation and photosynthesis activity.Conclusions: The bacterial endophytic communities were similar across three consecutive seed generations. Among the core microbiome Methylobacterium strains were the most abundant and they can contribute to nutrient acquisition, plant growth promotion and stress resilience to their host in metal contaminated mine residues. Identification of the seed microbiome of C. pumila may lead to novel and more efficient inoculants for microbe-assisted phytoremediation. [ABSTRACT FROM AUTHOR]

Published
2018
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100. First high-quality draft genome of Ochrobactrum haematophilumP6BS-III, a highly glyphosate-tolerant strain isolated from agricultural soil in Argentina

Author

Massot, Francisco, Gkorezis, Panagiotis, McAmmond, Breanne, d’Haen, Jan, Hamme, Jonathan, Merini, Luciano, Vangronsveld, Jaco, and Thijs, Sofie

Abstract

We report here on a high-quality draft genome sequence of Ochrobactrum haematophilumstrain P6BS-III (DSM 106071), a Gram negative, non-sporulating bacterium isolated from a pastureland (Buenos Aires province, Argentina) which had been chronically exposed to the herbicide glyphosate. The genome of 5.25 Mb with a DNA G+C content of 56.63% size was estimated to contain 5,291 protein coding genes and 57 RNA genes. Genome analysis revealed the presence of the phn operon, which is involved in the phosphonate degradation pathway, and a class II 5-enolpyruvylshikimate-3-phosphate synthase (EPSP) that confers tolerance to glyphosate. Genes related to plant growth promotion traits are also present, and include genes for phosphorus metabolism, calcium phosphate and phytate solubilization, siderophore production, organic acid biosynthesis and indole acetic acid (IAA) production.

Published
2019
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