Search

Your search keyword '"Abrouk, Danis"' showing total 45 results
Start Over "Abrouk, Danis" Publication Year Range Last 10 years
45 results on '"Abrouk, Danis"'

17. Exploring the diversity of fungal DyPs in mangrove soils to produce and characterize novel biocatalysts

Author

Agence Nationale de la Recherche (France), European Commission, Ministerio de Ciencia e Innovación (España), Linde, Dolores [0000-0002-0359-0566], Haon, Mireille [0000-0002-5669-5177], Daou, Marianne [0000-0002-8651-965X], Bertrand, Emmanuel [0000-0001-5128-0119], Faulds, Craig B. [0000-0002-9512-4174], Sciara, Giuliano [0000-0002-3790-747X], Adamo, Martino [0000-0001-7571-3505], Marmeisse, Roland [0000-0003-1653-3517], Comtet-Marre, Sophie [0000-0001-9669-6150], Peyret, Pierre [0000-0003-3114-0586], Abrouk, Danis [0000-0002-7162-5388], Ruiz-Dueñas, F. J. [0000-0002-9837-5665], Marchand, Cyril [0000-0002-3991-9431 ], Hugoni, Mylène [0000-0002-2430-1057], Luis, Patricia [0000-0001-7002-6212], Mechichi, Tahar [0000-0001-5602-4528], Record, Éric [0000-0002-7545-9997], Ben Ayed, Amal, Saint-Genis, Geoffroy, Vallon, Laurent, Linde, Dolores, Turbé-Doan, Annick, Haon, Mireille, Daou, Marianne, Bertrand, Emmanuel, Faulds, Craig B., Sciara, Giuliano, Adamo, Martino, Marmeisse, Roland, Comtet-Marre, Sophie, Peyret, Pierre, Abrouk, Danis, Ruiz-Dueñas, F. J., Marchand, Cyril, Hugoni, Mylène, Luis, Patricia, Mechichi, Tahar, Record, Éric, Agence Nationale de la Recherche (France), European Commission, Ministerio de Ciencia e Innovación (España), Linde, Dolores [0000-0002-0359-0566], Haon, Mireille [0000-0002-5669-5177], Daou, Marianne [0000-0002-8651-965X], Bertrand, Emmanuel [0000-0001-5128-0119], Faulds, Craig B. [0000-0002-9512-4174], Sciara, Giuliano [0000-0002-3790-747X], Adamo, Martino [0000-0001-7571-3505], Marmeisse, Roland [0000-0003-1653-3517], Comtet-Marre, Sophie [0000-0001-9669-6150], Peyret, Pierre [0000-0003-3114-0586], Abrouk, Danis [0000-0002-7162-5388], Ruiz-Dueñas, F. J. [0000-0002-9837-5665], Marchand, Cyril [0000-0002-3991-9431 ], Hugoni, Mylène [0000-0002-2430-1057], Luis, Patricia [0000-0001-7002-6212], Mechichi, Tahar [0000-0001-5602-4528], Record, Éric [0000-0002-7545-9997], Ben Ayed, Amal, Saint-Genis, Geoffroy, Vallon, Laurent, Linde, Dolores, Turbé-Doan, Annick, Haon, Mireille, Daou, Marianne, Bertrand, Emmanuel, Faulds, Craig B., Sciara, Giuliano, Adamo, Martino, Marmeisse, Roland, Comtet-Marre, Sophie, Peyret, Pierre, Abrouk, Danis, Ruiz-Dueñas, F. J., Marchand, Cyril, Hugoni, Mylène, Luis, Patricia, Mechichi, Tahar, and Record, Éric

Abstract

The functional diversity of the New Caledonian mangrove sediments was examined,observing the distribution of fungal dye-decolorizing peroxidases (DyPs), together with the complete biochemical characterization of the main DyP. Using a functional metabarcoding approach, the diversity of expressed genes encoding fungal DyPs was investigated in surface and deeper sediments,collected beneath either Avicennia marina or Rhizophora stylosa trees, during either the wet or the dry seasons. The highest DyP diversity was observed in surface sediments beneath the R. stylosa area during the wet season, and one particular operational functional unit (OFU1) was detected as the most abundant DyP isoform. This OFU was found in all sediment samples, representing 51–100% of the total DyP-encoding sequences in 70% of the samples. The complete cDNA sequence corresponding to this abundant DyP (OFU 1) was retrieved by gene capture, cloned, and heterologously expressed in Pichia pastoris. The recombinant enzyme, called DyP1, was purified and characterized, leading to the description of its physical–chemical properties, its ability to oxidize diverse phenolic substrates,and its potential to decolorize textile dyes; DyP1 was more active at low pH, though moderately stable over a wide pH range. The enzyme was very stable at temperatures up to 50 ºC, retaining 60% activity after 180 min incubation. Its ability to decolorize industrial dyes was also tested on Reactive Blue 19, Acid Black, Disperse Blue 79, and Reactive Black 5. The effect of hydrogen peroxide and sea salt on DyP1 activity was studied and compared to what is reported for previously characterized enzymes from terrestrial and marine-derived fungi.

Published
2021

18. Exploring the diversity of fungal DyPs in mangrove soils to produce and characterize novel biocatalysts

Author

BEN AYED, Amal, SAINT-GENIS, Geoffroy, VALLON, Laurent, LINDE, Dolores, TURBÉ-DOAN, Annick, HAON, Mireille, DAOU, Marianne, BERTRAND, Emmanuel, FAULDS, Craig, SCIARA, Giuliano, ADAMO, Martino, MARMEISSE, Roland, COMTET-MARRE, Sophie, PEYRET, Pierre, ABROUK, Danis, RUIZ-DUEÑAS, Francisco, MARCHAND, Cyril, HUGONI, Mylène, LUIS, Patricia, MECHICHI, Tahar, RECORD, Eric, Agence Nationale de la Recherche (France), European Commission, Ministerio de Ciencia e Innovación (España), Linde, Dolores, Haon, Mireille, Daou, Marianne, Bertrand, Emmanuel, Faulds, Craig B., Sciara, Giuliano, Adamo, Martino, Marmeisse, Roland, Comtet-Marre, Sophie, Peyret, Pierre, Abrouk, Danis, Ruiz-Dueñas, F. J., Marchand, Cyril, Hugoni, Mylène, Luis, Patricia, Mechichi, Tahar, Record, Éric, Biodiversité et Biotechnologie Fongiques (BBF), Aix Marseille Université (AMU)-École Centrale de Marseille (ECM)-Institut National de Recherche pour l’Agriculture, l’Alimentation et l’Environnement (INRAE), Université de Sfax - University of Sfax, Laboratoire d'Ecologie Microbienne - UMR 5557 (LEM), Université Claude Bernard Lyon 1 (UCBL), Université de Lyon-Université de Lyon-Ecole Nationale Vétérinaire de Lyon (ENVL)-VetAgro Sup - Institut national d'enseignement supérieur et de recherche en alimentation, santé animale, sciences agronomiques et de l'environnement (VAS)-Centre National de la Recherche Scientifique (CNRS)-Institut National de Recherche pour l’Agriculture, l’Alimentation et l’Environnement (INRAE), Khalifa University, Università degli studi di Torino = University of Turin (UNITO), Microbiologie Environnement Digestif Santé (MEDIS), Institut National de Recherche pour l’Agriculture, l’Alimentation et l’Environnement (INRAE)-Université Clermont Auvergne (UCA), Institut de minéralogie, de physique des matériaux et de cosmochimie (IMPMC), Muséum national d'Histoire naturelle (MNHN)-Institut de recherche pour le développement [IRD] : UR206-Sorbonne Université (SU)-Centre National de la Recherche Scientifique (CNRS), ECosphere Continentale et Cotiere MicroBien program (EC2CO, 2017-2019) French National Research Agency (ANR)ANR-RF2015-01H2020 BBI-JU EnzOx2 H2020-BBI-PPP-2015-2-720297GENOBIOREF project of the Spanish Ministry of Science Innovation BIO2017-86559REuropean Commission, Università degli studi di Torino (UNITO), Consejo Superior de Investigaciones Científicas [Madrid] (CSIC), Centro de Investigaciones Biológicas (CSIC), Institut de sciences exactes et appliquées (ISEA), Université de la Nouvelle-Calédonie (UNC), Institut National de la Recherche Agronomique (INRA)-Université Claude Bernard Lyon 1 (UCBL), Université de Lyon-Université de Lyon-Ecole Nationale Vétérinaire de Lyon (ENVL)-VetAgro Sup - Institut national d'enseignement supérieur et de recherche en alimentation, santé animale, sciences agronomiques et de l'environnement (VAS)-Centre National de la Recherche Scientifique (CNRS), École Nationale d'Ingénieurs de Sfax | National School of Engineers of Sfax (ENIS), ANR-RF-2015-0012020 BBI-JU EnzOx2H2020-BBI-PPP-2015-2-720297GENOBIOREF project of the Spanish Ministry of Science Innovation BIO2017-86559R, Linde, Dolores [0000-0002-0359-0566], Haon, Mireille [0000-0002-5669-5177], Daou, Marianne [0000-0002-8651-965X], Bertrand, Emmanuel [0000-0001-5128-0119], Faulds, Craig B. [0000-0002-9512-4174], Sciara, Giuliano [0000-0002-3790-747X], Adamo, Martino [0000-0001-7571-3505], Marmeisse, Roland [0000-0003-1653-3517], Comtet-Marre, Sophie [0000-0001-9669-6150], Peyret, Pierre [0000-0003-3114-0586], Abrouk, Danis [0000-0002-7162-5388], Ruiz-Dueñas, F. J. [0000-0002-9837-5665], Marchand, Cyril [0000-0002-3991-9431 ], Hugoni, Mylène [0000-0002-2430-1057], Luis, Patricia [0000-0001-7002-6212], Mechichi, Tahar [0000-0001-5602-4528], and Record, Éric [0000-0002-7545-9997]

Subjects
Dye-decolorizing peroxidases, Dye decolorization, QH301-705.5, [SDV]Life Sciences [q-bio], Lignocellulose degrading enzymes, Salt adaptation, Biology (General), [SDE.BE]Environmental Sciences/Biodiversity and Ecology, Heterologous expression, Mangrove, Marine fungus, Article
Abstract

23 p.-6 fig.-5 tab., The functional diversity of the New Caledonian mangrove sediments was examined,observing the distribution of fungal dye-decolorizing peroxidases (DyPs), together with the complete biochemical characterization of the main DyP. Using a functional metabarcoding approach, the diversity of expressed genes encoding fungal DyPs was investigated in surface and deeper sediments,collected beneath either Avicennia marina or Rhizophora stylosa trees, during either the wet or the dry seasons. The highest DyP diversity was observed in surface sediments beneath the R. stylosa area during the wet season, and one particular operational functional unit (OFU1) was detected as the most abundant DyP isoform. This OFU was found in all sediment samples, representing 51–100% of the total DyP-encoding sequences in 70% of the samples. The complete cDNA sequence corresponding to this abundant DyP (OFU 1) was retrieved by gene capture, cloned, and heterologously expressed in Pichia pastoris. The recombinant enzyme, called DyP1, was purified and characterized, leading to the description of its physical–chemical properties, its ability to oxidize diverse phenolic substrates,and its potential to decolorize textile dyes; DyP1 was more active at low pH, though moderately stable over a wide pH range. The enzyme was very stable at temperatures up to 50 ºC, retaining 60% activity after 180 min incubation. Its ability to decolorize industrial dyes was also tested on Reactive Blue 19, Acid Black, Disperse Blue 79, and Reactive Black 5. The effect of hydrogen peroxide and sea salt on DyP1 activity was studied and compared to what is reported for previously characterized enzymes from terrestrial and marine-derived fungi., This research was funded by the ECosphère Continentale et Côtière MicroBien program (EC2CO, 2017–2019) and by the Agence Nationale de la Recherche (project PeroxiDiv ANR-RF- 2015-01). D.L. and F.J.R-D. were supported by H2020 BBI-JU (https://www.bbi-europe.eu) EnzOx2 (H2020-BBI-PPP-2015-2-720297; https://www.enzox2.eu) project and GENOBIOREF (BIO2017-86559- R) project of the Spanish Ministry of Science & Innovation (co-financed by FEDER funds).

Published
2021

21. Wheat genome architecture influences interactions with phytobeneficial microbial functional groups in the rhizosphere.

Author

Gruet, Cécile, Abrouk, Danis, Börner, Andreas, Muller, Daniel, and Moënne‐Loccoz, Yvan

Subjects
*FUNCTIONAL groups, *RHIZOSPHERE, *WHEAT, *BACTERIAL diversity, *PLANT-microbe relationships, *POLYMERASE chain reaction, WHEAT genetics
Abstract

Wheat has undergone a complex evolutionary history, which led to allopolyploidization and the hexaploid bread wheat Triticum aestivum. However, the significance of wheat genomic architecture for beneficial plant–microbe interactions is poorly understood, especially from a functional standpoint. In this study, we tested the hypothesis that wheat genomic architecture was an overriding factor determining root recruitment of microorganisms with particular plant‐beneficial traits. We chose five wheat species representing genomic profiles AA (Triticum urartu), BB {SS} (Aegilops speltoides), DD (Aegilops tauschii), AABB (Triticum dicoccon) and AABBDD (Triticum aestivum) and assessed by quantitative polymerase chain reaction their ability to interact with free‐nitrogen fixers, 1‐aminocyclopropane‐1‐carboxylate deaminase producers, 2,4‐diacetylphloroglucinol producers and auxin producers via the phenylpyruvate decarboxylase pathway, in combination with Illumina MiSeq metabarcoding analysis of N fixers (and of the total bacterial community). We found that the abundance of the microbial functional groups could fluctuate according to wheat genomic profile, as did the total bacterial abundance. N fixer diversity and total bacterial diversity were also influenced significantly by wheat genomic profile. Often, rather similar results were obtained for genomes DD (Ae. tauschii) and AABBDD (T. aestivum), pointing for the first time that the D genome could be particularly important for wheat–bacteria interactions. Summary statement: Genome D is important for rhizosphere interactions of wheat with phytobeneficial microbial functional groups. [ABSTRACT FROM AUTHOR]

Published
2023
Full Text
View/download PDF

29. Candidatus Frankia nodulisporulans sp. nov., an Alnus glutinosa-infective Frankia species unable to grow in pure culture and able to sporulate in-planta

Author

Herrera-Belaroussi, Aude, Normand, Philippe, Pawlowski, Katharina, Fernandez, Maria P., Wibberg, Daniel, Kalinowski, Joern, Brachmann, Andreas, Berckx, Fede, Lee, Natuschka, Blom, Jochen, Pozzi, Adrien C., Fournier, Pascale, Bethencourt, Lorine, Dubost, Audrey, Abrouk, Danis, Sellstedt, Anita, Herrera-Belaroussi, Aude, Normand, Philippe, Pawlowski, Katharina, Fernandez, Maria P., Wibberg, Daniel, Kalinowski, Joern, Brachmann, Andreas, Berckx, Fede, Lee, Natuschka, Blom, Jochen, Pozzi, Adrien C., Fournier, Pascale, Bethencourt, Lorine, Dubost, Audrey, Abrouk, Danis, and Sellstedt, Anita

Abstract

We describe a new Frankia species, for three non-isolated strains obtained from Alnus glutinosa in France and Sweden, respectively. These strains can nodulate several Alnus species (A. glutinosa, A. incana, A. alnobetula), they form hyphae, vesicles and sporangia in the root nodule cortex but have resisted all attempts at isolation in pure culture. Their genomes have been sequenced, they are significantly smaller than those of other Alnus-infective species (5 Mb instead of 7.5 Mb) and are very closely related to one another (ANI of 100%). The name Candidatus Frankia nodulisporulans is proposed.

Published
2020
Full Text
View/download PDF

30. Candidatus Frankia nodulisporulans sp. nov., an Alnus glutinosa-infective Frankia species unable to grow in pure culture and able to sporulate in-planta

Author

Herrera-Belaroussi, Aude, primary, Normand, Philippe, additional, Pawlowski, Katharina, additional, Fernandez, Maria P., additional, Wibberg, Daniel, additional, Kalinowski, Jörn, additional, Brachmann, Andreas, additional, Berckx, Fede, additional, Lee, Natuschka, additional, Blom, Jochen, additional, Pozzi, Adrien C., additional, Fournier, Pascale, additional, Bethencourt, Lorine, additional, Dubost, Audrey, additional, Abrouk, Danis, additional, and Sellstedt, Anita, additional

Published
2020
Full Text
View/download PDF

31. Proposal of 'Candidatus Frankia alpina', the uncultured symbiont of Alnus alnobetula and A. incana that forms spore-containing nitrogen-fixing root nodules

Author

Pozzi, Adrien C. Meynier, primary, Herrera-Belaroussi, Aude, additional, Schwob, Guillaume, additional, Bautista-Guerrero, Hector H., additional, Bethencourt, Lorine, additional, Fournier, Pascale, additional, Dubost, Audrey, additional, Abrouk, Danis, additional, Normand, Philippe, additional, and Fernandez, Maria P., additional

Published
2020
Full Text
View/download PDF

32. Diversifying anaerobic respiration strategies to compete in the rhizosphere

Author

Lecomte, Solène, Achouak, Wafa, ABROUK, Danis, Heulin, Thierry, Nesme, Xavier, Haichar, Feth El Zahar, Laboratoire d'Ecologie Microbienne - UMR 5557 (LEM), Institut National de la Recherche Agronomique (INRA)-Université Claude Bernard Lyon 1 (UCBL), Université de Lyon-Université de Lyon-Ecole Nationale Vétérinaire de Lyon (ENVL)-VetAgro Sup - Institut national d'enseignement supérieur et de recherche en alimentation, santé animale, sciences agronomiques et de l'environnement (VAS)-Centre National de la Recherche Scientifique (CNRS), Institut de Biosciences et Biotechnologies d'Aix-Marseille (ex-IBEB) (BIAM), Aix Marseille Université (AMU)-Centre National de la Recherche Scientifique (CNRS)-Direction de Recherche Fondamentale (CEA) (DRF (CEA)), Commissariat à l'énergie atomique et aux énergies alternatives (CEA)-Commissariat à l'énergie atomique et aux énergies alternatives (CEA), Laboratoire d'Ecologie Microbienne de la Rhizosphère et d'Environnements Extrêmes (LEMIRE), Commissariat à l'énergie atomique et aux énergies alternatives (CEA)-Commissariat à l'énergie atomique et aux énergies alternatives (CEA)-Aix Marseille Université (AMU)-Centre National de la Recherche Scientifique (CNRS)-Direction de Recherche Fondamentale (CEA) (DRF (CEA)), ANR [ANR-18-CE32-0005], ANR-18-CE32-0005,DIORE,Régulation de la dénitrification par la nature des exsudats racinaires(2018), Université de Lyon-Université de Lyon-Centre National de la Recherche Scientifique (CNRS)-VetAgro Sup - Institut national d'enseignement supérieur et de recherche en alimentation, santé animale, sciences agronomiques et de l'environnement (VAS)-Ecole Nationale Vétérinaire de Lyon (ENVL), Direction de Recherche Fondamentale (CEA) (DRF (CEA)), Commissariat à l'énergie atomique et aux énergies alternatives (CEA)-Commissariat à l'énergie atomique et aux énergies alternatives (CEA)-Aix Marseille Université (AMU)-Centre National de la Recherche Scientifique (CNRS), Centre National de la Recherche Scientifique (CNRS)-Ecole Nationale Vétérinaire de Lyon (ENVL)-Université Claude Bernard Lyon 1 (UCBL), Université de Lyon-Université de Lyon-Institut National de la Recherche Agronomique (INRA)-VetAgro Sup - Institut national d'enseignement supérieur et de recherche en alimentation, santé animale, sciences agronomiques et de l'environnement (VAS), Centre National de la Recherche Scientifique (CNRS)-Aix Marseille Université (AMU)-Direction de Recherche Fondamentale (CEA) (DRF (CEA)), Commissariat à l'énergie atomique et aux énergies alternatives (CEA)-Commissariat à l'énergie atomique et aux énergies alternatives (CEA)-Centre National de la Recherche Scientifique (CNRS)-Aix Marseille Université (AMU)-Direction de Recherche Fondamentale (CEA) (DRF (CEA)), and ANR-18-CE32-0005,DIORE,Régulation de la dénitrification par la nature des exsudats racinaires

Subjects
lcsh:GE1-350, rhizosphere competence, fungi, adaptation, respiration anaérobie, anaerobic respiration, terminal electron acceptors, colonisation racinaire, rhizobacteria, [SDE.BE]Environmental Sciences/Biodiversity and Ecology, root colonization, rhizosphère, rhizobactérie, lcsh:Environmental sciences, respiratory pathways
Abstract

The rhizosphere is the interface between plant roots and soil where intense, varied interactions between plants and microbes influence plants 'health and growth through their influence on biochemical cycles, such as the carbon, nitrogen, and iron cycles. The rhizosphere is also a changing environment where oxygen can be rapidly limited and anaerobic zones can be established. Microorganisms successfully colonize the rhizosphere when they possess specific traits referred to as rhizosphere competence. Anaerobic respiration flexibility contributes to the rhizosphere competence of microbes. Indeed, a wide range of compounds that are available in the rhizosphere can serve as alternative terminal electron acceptors during anaerobic respiration such as nitrates, iron, carbon compounds, sulfur, metalloids, and radionuclides. In the presence of multiple terminal electron acceptors in a complex environment such as the rhizosphere and in the absence of O-2, microorganisms will first use the most energetic option to sustain growth. Anaerobic respiration has been deeply studied, and the genes involved in anaerobic respiration have been identified. However, aqueous environment and paddy soils are the most studied environments for anaerobic respiration, even if we provide evidence in this review that anaerobic respiration also occurs in the plant rhizosphere. Indeed, we provide evidence by performing a BLAST analysis on metatranscriptomic data that genes involved in iron, sulfur, arsenate and selenate anaerobic respiration are expressed in the rhizosphere, underscoring that the rhizosphere environment is suitable for the establishment of anaerobic respiration. We thus focus this review on current research concerning the different types of anaerobic respiration that occur in the rhizosphere. We also discuss the flexibility of anaerobic respiration as a fundamental trait for the microbial colonization of roots, environmental and ecological adaptation, persistence and bioremediation in the rhizosphere. Anaerobic respiration appears to be a key process for the functioning of an ecosystem and interactions between plants and microbes.

Published
2018

33. Diversifying anaerobic respiration strategies to compete in the rhizosphere

Author

Lecomte, Solène M., Achouak, Wafa, Abrouk, Danis, Heulin, Thierry, Nesme, Xavier, and Haichar, Feth-El-Zahar

Subjects
Biodiversity and Ecology, Biodiversité et Ecologie, rhizosphere competence, anaerobic respiration, terminal electron acceptors, respiratory pathways, rhizobacteria, root colonization, adaptation, fungi, colonisation racinaire, respiration anaérobie, rhizosphère, rhizobactérie
Abstract

The rhizosphere is the interface between plant roots and soil where intense, varied interactions between plants and microbes influence plants 'health and growth through their influence on biochemical cycles, such as the carbon, nitrogen, and iron cycles. The rhizosphere is also a changing environment where oxygen can be rapidly limited and anaerobic zones can be established. Microorganisms successfully colonize the rhizosphere when they possess specific traits referred to as rhizosphere competence. Anaerobic respiration flexibility contributes to the rhizosphere competence of microbes. Indeed, a wide range of compounds that are available in the rhizosphere can serve as alternative terminal electron acceptors during anaerobic respiration such as nitrates, iron, carbon compounds, sulfur, metalloids, and radionuclides. In the presence of multiple terminal electron acceptors in a complex environment such as the rhizosphere and in the absence of O-2, microorganisms will first use the most energetic option to sustain growth. Anaerobic respiration has been deeply studied, and the genes involved in anaerobic respiration have been identified. However, aqueous environment and paddy soils are the most studied environments for anaerobic respiration, even if we provide evidence in this review that anaerobic respiration also occurs in the plant rhizosphere. Indeed, we provide evidence by performing a BLAST analysis on metatranscriptomic data that genes involved in iron, sulfur, arsenate and selenate anaerobic respiration are expressed in the rhizosphere, underscoring that the rhizosphere environment is suitable for the establishment of anaerobic respiration. We thus focus this review on current research concerning the different types of anaerobic respiration that occur in the rhizosphere. We also discuss the flexibility of anaerobic respiration as a fundamental trait for the microbial colonization of roots, environmental and ecological adaptation, persistence and bioremediation in the rhizosphere. Anaerobic respiration appears to be a key process for the functioning of an ecosystem and interactions between plants and microbes.

Published
2018

37. Plant hosts control microbial denitrification activity

Author

Achouak, Wafa, primary, Abrouk, Danis, additional, Guyonnet, Julien, additional, Barakat, Mohamed, additional, Ortet, Philippe, additional, Simon, Laurent, additional, Lerondelle, Catherine, additional, Heulin, Thierry, additional, and Haichar, Feth el Zahar, additional

Published
2019
Full Text
View/download PDF

38. Draft genome sequences for three unisolated Alnus-infective Frankia Sp+ strains, AgTrS, AiOr and AvVan, the first sequenced Frankia strains able to sporulate in-planta

Author

Bethencourt, Lorine, primary, Vautrin, Florian, additional, Taib, Najwa, additional, Dubost, Audrey, additional, Castro-Garcia, Lucia, additional, Imbaud, Olivier, additional, Abrouk, Danis, additional, Fournier, Pascale, additional, Briolay, Jérôme, additional, Nguyen, Agnès, additional, Normand, Philippe, additional, Fernandez, Maria P., additional, Brochier-Armanet, Céline, additional, and Herrera-Belaroussi, Aude, additional

Published
2019
Full Text
View/download PDF

39. Exploring the Diversity of Fungal DyPs in Mangrove Soils to Produce and Characterize Novel Biocatalysts.

Author

Ayed, Amal Ben, Saint-Genis, Geoffroy, Vallon, Laurent, Linde, Dolores, Turbé-Doan, Annick, Haon, Mireille, Daou, Marianne, Bertrand, Emmanuel, Faulds, Craig B., Sciara, Giuliano, Adamo, Martino, Marmeisse, Roland, Comtet-Marre, Sophie, Peyret, Pierre, Abrouk, Danis, Ruiz-Dueñas, Francisco J., Marchand, Cyril, Hugoni, Mylène, Luis, Patricia, and Mechichi, Tahar

Subjects
MANGROVE plants, GENE expression, ANTISENSE DNA, MARINE fungi, SEA salt
Abstract

The functional diversity of the New Caledonian mangrove sediments was examined, observing the distribution of fungal dye-decolorizing peroxidases (DyPs), together with the complete biochemical characterization of the main DyP. Using a functional metabarcoding approach, the diversity of expressed genes encoding fungal DyPs was investigated in surface and deeper sediments, collected beneath either Avicennia marina or Rhizophora stylosa trees, during either the wet or the dry seasons. The highest DyP diversity was observed in surface sediments beneath the R. stylosa area during the wet season, and one particular operational functional unit (OFU1) was detected as the most abundant DyP isoform. This OFU was found in all sediment samples, representing 51–100% of the total DyP-encoding sequences in 70% of the samples. The complete cDNA sequence corresponding to this abundant DyP (OFU 1) was retrieved by gene capture, cloned, and heterologously expressed in Pichia pastoris. The recombinant enzyme, called DyP1, was purified and characterized, leading to the description of its physical–chemical properties, its ability to oxidize diverse phenolic substrates, and its potential to decolorize textile dyes; DyP1 was more active at low pH, though moderately stable over a wide pH range. The enzyme was very stable at temperatures up to 50 °C, retaining 60% activity after 180 min incubation. Its ability to decolorize industrial dyes was also tested on Reactive Blue 19, Acid Black, Disperse Blue 79, and Reactive Black 5. The effect of hydrogen peroxide and sea salt on DyP1 activity was studied and compared to what is reported for previously characterized enzymes from terrestrial and marine-derived fungi. [ABSTRACT FROM AUTHOR]

Published
2021
Full Text
View/download PDF

40. Frankia canadensis sp. nov., isolated from root nodules of Alnus incana subspecies rugosa

Author

Normand, Philippe, Nouioui, Imen, Pujic, Petar, Fournier, Pascale, Dubost, Audrey, Schwob, Guillaume, Klenk, Hans-Peter, Nguyen, Agnès, Abrouk, Danis, Herrera-Belaroussi, Aude, Pothier, Joël F., Pflüger, Valentin, Fernandez, Maria P., Normand, Philippe, Nouioui, Imen, Pujic, Petar, Fournier, Pascale, Dubost, Audrey, Schwob, Guillaume, Klenk, Hans-Peter, Nguyen, Agnès, Abrouk, Danis, Herrera-Belaroussi, Aude, Pothier, Joël F., Pflüger, Valentin, and Fernandez, Maria P.

Abstract

Strain ARgP5T, an actinobacterium isolated from a root nodule present on an Alnus incana subspecies rugosa shrub growing in Quebec City, Canada, was the subject of polyphasic taxonomic studies to clarify its status within the genus Frankia. 16S rRNA gene sequence similarities and ANI values between ARgP5T and type strains of species of the genus Frankia with validly published names were 98.8 and 82 % or less, respectively. The in silico DNA G+C content was 72.4 mol%. ARgP5T is characterised by the presence of meso-A2pm, galactose, glucose, mannose, rhamnose (trace), ribose and xylose as whole-organism hydrolysates; MK-9(H8) as predominant menaquinone; diphosphatidylglycerol, phosphatidylinositol and phosphatidylglycerol as polar lipids and iso-C16 : 0 and C17 : 1ω8c as major fatty acids. The proteomic results confirmed the distinct position of ARgP5T from its closest neighbours in Frankia cluster 1. ARgP5T was found to be infective on two alder (Alnus glutinosa and Alnusalnobetula subsp. crispa) and on one bayberry (Morella pensylvanica) species and to fix nitrogen in symbiosis and in pure culture. On the basis of phylogenetic (16S rRNA gene sequence), genomic, proteomic and phenotypic results, strain ARgP5T (=DSM 45898=CECT 9033) is considered to represent a novel species within the genus Frankia for which the name Frankia canadensis sp. nov., is proposed.

Published
2018

41. Frankia canadensis sp. nov., isolated from root nodules of Alnus incana subspecies rugosa

Author

Normand, Philippe, primary, Nouioui, Imen, additional, Pujic, Petar, additional, Fournier, Pascale, additional, Dubost, Audrey, additional, Schwob, Guillaume, additional, Klenk, Hans-Peter, additional, Nguyen, Agnès, additional, Abrouk, Danis, additional, Herrera-Belaroussi, Aude, additional, Pothier, Joël F., additional, Pflüger, Valentin, additional, and Fernandez, Maria P., additional

Published
2018
Full Text
View/download PDF

42. Robust Frankia phylogeny, species delineation and intraspecies diversity based on Multi-Locus Sequence Analysis (MLSA) and Single-Locus Strain Typing (SLST) adapted to a large sample size

Author

Pozzi, Adrien C., primary, Bautista-Guerrero, Hector H., additional, Abby, Sophie S., additional, Herrera-Belaroussi, Aude, additional, Abrouk, Danis, additional, Normand, Philippe, additional, Menu, Frédéric, additional, and Fernandez, Maria P., additional

Published
2018
Full Text
View/download PDF

43. Phylogeny of the class Actinobacteria revisited in the light of complete genomes. The orders ‘Frankiales’ and Micrococcales should be split into coherent entities: proposal of Frankiales ord. nov., Geodermatophilales ord. nov., Acidothermales ord. nov. and Nakamurellales ord. nov.

Author

Sen, Arnab, primary, Daubin, Vincent, additional, Abrouk, Danis, additional, Gifford, Isaac, additional, Berry, Alison M., additional, and Normand, Philippe, additional

Published
2014
Full Text
View/download PDF

Catalog

Books, media, physical & digital resources
See catalog results