References of "Sare, Abdoul Razack"
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See detailExploring bacterial communities in aquaponic systems
Eck, Mathilde ULiege; Sare, Abdoul Razack ULiege; Massart, Sébastien ULiege et al

in Water (2019), 11(260),

Aquaponics is a production system based on the dynamic equilibrium between fish, plants, and microorganisms. In order to better understand the role of microorganisms in this tripartite relationship, we ... [more ▼]

Aquaponics is a production system based on the dynamic equilibrium between fish, plants, and microorganisms. In order to better understand the role of microorganisms in this tripartite relationship, we studied the bacterial communities hosted in eight aquaponic and aquaculture systems. The bacterial communities were analyzed by 16S rRNA gene deep sequencing. At the phylum level, the bacterial communities from all systems were relatively similar with a predominance of Proteobacteria and Bacteroidetes. At the genus level, however, the communities present in the sampled systems were more heterogeneous. The biofilter samples harbored more diverse communities than the corresponding sump samples. The core microbiomes from the coupled and decoupled systems shared more common operational taxonomic units than with the aquaculture systems. Eventually, some of the taxa identified in the systems could have beneficial functions for plant growth and health, but a deeper analysis would be required to identify the precise functions involved in aquaponics. [less ▲]

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See detailInsights gained from metagenomic shotgun sequencing of apple fruit epiphytic microbiota
Angeli, Dario; Sare, Abdoul Razack ULiege; Jijakli, Haissam ULiege et al

in Postharvest Biology and Technology (2019), 153

The epiphytic plant microbial communities living at the surface of fruit have been the source of most current biocontrol agents (BCAs) and can influence fruit quality during storage. Despite this interest ... [more ▼]

The epiphytic plant microbial communities living at the surface of fruit have been the source of most current biocontrol agents (BCAs) and can influence fruit quality during storage. Despite this interest, their taxonomical and functional composition has been poorly studied so far. This paper describes the use of high-throughput sequencing (HTS) technologies to characterise the microbial phytobiome residing on apple surface at the taxonomic and functional levels through shotgun metagenome sequencing. Apples from the Pinova cultivar bearing no symptom of disease development were sampled in an orchard at harvest, and their epiphytic microbiota was isolated. After DNA extraction, 14.1 Gbases of raw sequences were generated by HTS. These sequences were annotated following two pipelines in parallel: (i) they were individually analysed by the MG-RAST server, and (ii) they were de novo assembled into contigs and the contigs were annotated by the IMG server. Our results showed a very high fungal and bacterial diversity, with a higher proportion of fungal sequences (79.0%) than bacterial sequences (13.8%). Among fungi, the phylum Ascomycota prevailed, while Bacteroides were dominant in the bacterial population. Among them, 24 species corresponded to known apple pathogens like Aspergillus spp., Botrytis spp., Sclerotinia spp., and Penicillium spp. for fungi, and Erwinia spp. and Agrobacterium spp. for bacteria. Moreover, several contigs were assigned to species of known BCA strains belonging to the following genera: Filobasidiella spp., Talaromyces spp, Candida spp., Saccharomyces spp., Bacillus spp., and Enterobacter spp. The functional analysis showed similar patterns of abundance and function in all samples, identified genes potentially involved in biocontrol properties, but also underlined the complexity of datum interpretation and the incompleteness of current databases. [less ▲]

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See detailEcological relations inside plant microbiota can improve the efficacy of biocontrol agents: The case of Pichia anomala strain K against Botrytis cinerea on apple
Sare, Abdoul Razack ULiege; Ait-A, Nawel; Jijakli, Haissam ULiege et al

Conference (2018, May 22)

Pichia anomala strain K is a Biological Control Agents (BCA) against apple two postharvest pathogens (Penicillium spp. and Botrytis cinerea). Progress have been made during the past two decades to ... [more ▼]

Pichia anomala strain K is a Biological Control Agents (BCA) against apple two postharvest pathogens (Penicillium spp. and Botrytis cinerea). Progress have been made during the past two decades to understand its modes of action through various studies. To further improve and stabilize its efficacy, Massart et al. (2015) suggested to focus on benefic interactions inside host microbiota to favor BCAs. Indeed, once applied, BCAs will face a complex microbiota where ecological interactions such as competition, parasitism, mutualism and commensalism occur. In this study, we investigated the potential of apple microbiota to improve the efficacy of strain K against B. cinerea. Sampling were carried out in Belgium, by harvesting fruits of fifteen apple varieties grown in four disease management practices [no phytosanitary treatment (conservation orchard), light-organic, organic and conventional]. Epiphytic microbiota were collected by 15 min sonication and by washing apples with a phosphate buffer (pH=7.4). Apple washing solutions were stored at -80°C to generate a microbiota bank made up with eighteen different microbiota. The quantity of microorganisms (bacteria and fungi/yeast) in each microbiota type was first estimated by plating. Afterward, biological assays on wounded apple fruits have been carried out by co-inoculating each apple microbiota with the strain K, then with B. cinerea 24h later. The results show that apple skin harbors around 2 x104 ± 1,5 x104 microorganisms/cm2. The biological assays revealed that the apple microbiota can either raise till 100%, drop or have no effect on the efficacy of strain K. Thanks to next generation sequencing that makes the microbiota profiling possible, studies are ongoing to identify ecological strains/species or groups of taxa which are benefic to the strain K efficacy. [less ▲]

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See detailImproving biological control using microbiota: the case of apple for postharvest diseases
Sare, Abdoul Razack ULiege; Jijakli, Haissam ULiege; Massart, Sébastien ULiege

Conference (2018, April 26)

The use of Biological Control Agents (BCA) in commercial application has been hampered by low or non-reliable efficacies in comparison to fungicide treatments (Droby et al., 2016). To address this concern ... [more ▼]

The use of Biological Control Agents (BCA) in commercial application has been hampered by low or non-reliable efficacies in comparison to fungicide treatments (Droby et al., 2016). To address this concern, Massart et al. (2015) identified new alternatives to improve BCA efficacy using epiphytic microbial communities (microbiota) by the selection of helper strains and prebiotics of biocontrol. Helper strains are microorganisms that effectively enhance BCAs activities whereas prebiotics of biocontrol are molecules that modulate the microbiota composition to favor the biocontrol agent. The yeast Pichia anomala strain K is a BCA against apple two postharvest pathogens (Penicillium spp. and Botrytis cinerea). Progress have been made during the past two decades to understand the modes of action of the strain K through various studies (microbiology, enzymatic, genomic, transcriptomic and proteomic) and its ecological niche. However, the efficacy of strain K needs to be stabilized and improved. A good alternative is to focus on the interaction between strain K and the apple microbiota because once applied on the fruit surface, the strain K will face a complex microbiota where ecological interactions such as parasitism, mutualism and commensalism occur, thus affecting its efficacy and stability. In this study, we investigated the potential of apple microbiota to improve the efficacy of strain K against B. cinerea. Apple fruit samples were collected and their microbiota harvested to generate a diverse microbiota bank to be screened. The microbiota bank is made up of seventeen varieties grown in four disease management practices. Biological assays on wounded apple fruits have been carried out by co-inoculating each apple microbiota with the strain K and B. cinerea. The results of the biological assays revealed that the apple microbiota can either raise till 100%, drop or have no effect on the efficacy of strain K. Thanks to next generation sequencing that makes the microbiota profiling possible, studies are ongoing to identify ecological strains/species or groups of taxa which are benefic to the strain K efficacy. [less ▲]

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See detailExploring bacterial communities in diversified aquaponic systems
Eck, Mathilde ULiege; Sare, Abdoul Razack ULiege; Massart, Sébastien ULiege et al

Poster (2018, April 10)

In 2030, the world’s population should reach 8.3 billion people. It is thus necessary to find intensive yet sustainable food production methods to feed this growing population and aquaponics could ... [more ▼]

In 2030, the world’s population should reach 8.3 billion people. It is thus necessary to find intensive yet sustainable food production methods to feed this growing population and aquaponics could contribute to it.. Aquaponics is defined as a combination of hydroponic and aquaculture techniques and seems to be a promising technology to meet this resilience. It functions with plants, fish and microorganisms which play a key role in nitrification and mineralisation of fish wastes into nutrients absorbable by plants. Herein we aim at characterising the bacteria present in diversified systems to better understand the composition and role of their communities in aquaponics. To this end, nine diversified aquaponic systems were sampled. The DNA from each bacteria community was extracted and sequenced with Illumina MiSeq technology by targeting the V1-V3 16S rDNA region. The sequences were then analysed with the QIIME bioinformatic software. Results show that Proteobacteria and Bacteroidetes are the dominant phyla for all the aquaponic systems. Depending on each system, different proportions of other phyla are also present among the bacterial community. The genera which compose all the identified phyla are more diverse and an important proportion of them are usually found in soils and rhizosphere. One of the roles that could be linked to these genera is the breaking down of complex organic compounds which could be related to the mineralisation phenomenon observed in aquaponic systems. Further studies should be undertaken to identify the exact species present in aquaponic systems and to understand their specific functions. [less ▲]

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See detailCharacterization of apple metagenome in Belgium
Sare, Abdoul Razack ULiege; Jijakli, Haissam ULiege; Massart, Sébastien ULiege

Poster (2018, February 19)

Microbial communities (microbiota) living at the surface of fruit have been the source of most of biocontrol agents. Despite this interest, their role as a community has been poorly studied due to the ... [more ▼]

Microbial communities (microbiota) living at the surface of fruit have been the source of most of biocontrol agents. Despite this interest, their role as a community has been poorly studied due to the lack of techniques to survey the holistic microbiota and their evolution. Thanks to high-throughput sequencing, their holistic study is now possible. In this study, we characterized apple fruit surface bacterial microbiome in Belgium. Seventeen apple varieties grown in four disease management practices [no phytosanitary treatment (conservation orchard), light-organic, organic and conventional] were harvested and their microbiota collected for DNA extraction and Illumina sequencing. The sequencing (2x250 nucleotides) targeted the V3-V4 16s ribosomal DNA and bioinformatic analysis were carried out with QIIME1.9.0. A total of 3,302,088 filtered high-quality sequences were assigned into 13,507 Operational Taxonomic Units (OTUs). Proteobacteria (64%) and Bacteriodetes (22%) were by far the dominant phyla. A total of 60 OTUs were present in 90% of samples, and they can be considered as a bacterial core microbiota. No significant difference (Bonferroni probability > 0,05) of Kruskall-Wallis was identified between tested varieties of Golden, Jonagold and Elstar for conventional and organic treatment as well as varieties of conservation orchard. The overall analysis (without varieties) of alpha diversity (Observed-OTUs, Shannon, Simpson and phylogenetic diversity) and beta diversity show differences among not treated, organic and conventional apples. These results underline not only a diverse microbiota whose role needs to be characterized, but also a diversity of apple microbiota that was reduced across the time by modern agriculture. [less ▲]

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See detailImpact of apple microbiota on Pichia anomala strain K, a biocontrol yeast against apple major postharvest diseases
Sare, Abdoul Razack ULiege; Ait A., Nawel; Jijakli, Haissam ULiege et al

Poster (2017, December)

The yeast Pichia anomala strain K is a Biological Control Agent (BCA) against two postharvest apple pathogens (Penicillium spp. and Botrytis cinerea). Progress has been made during the past two decades to ... [more ▼]

The yeast Pichia anomala strain K is a Biological Control Agent (BCA) against two postharvest apple pathogens (Penicillium spp. and Botrytis cinerea). Progress has been made during the past two decades to understand the modes of action of the strain K through various studies (microbiology, enzymatic, genomic, transcriptomic and proteomic). Nevertheless, BCAs commercial application has been hampered by low or non-reliable efficacies in comparison to fungicide treatments (Droby et al., 2016) as it is the case of the strain K. Massart et al. (2015) identified new alternatives to improve BCA efficacy using microbiota. Once applied on the fruit surface, a BCA will face a complex microbiota where ecological interactions such as parasitism, mutualism and commensalism occur, thus affecting its efficacy. In this study, we evaluate the potential of apple microbiota to influence the efficacy of the strain K. Apple fruit samples of seventeen varieties grown in four disease management practices have been collected and their epiphytic microbiota harvested to create a bank of apple microbiota to be screened. Biological assays on apple fruits have been carried out by co-inoculating each apple microbiota with the strain K and B. cinerea. The results of the preliminary assays revealed that the apple microbiota can either raise, drop or have no effect on the efficacy of the strain K. Study is ongoing to identify ecological strains/species or groups of taxa which are benefic to the strain K efficacy. [less ▲]

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See detailTaxonomic characterisation of bacteria communities from water of diversified aquaponic systems
Eck, Mathilde ULiege; Sare, Abdoul Razack ULiege; Massart, Sébastien ULiege et al

Poster (2017, December)

In 2030, the world’s population should reach 8.3 billion people. It is thus necessary to find intensive yet sustainable food production methods to feed this growing population and aquaponics could ... [more ▼]

In 2030, the world’s population should reach 8.3 billion people. It is thus necessary to find intensive yet sustainable food production methods to feed this growing population and aquaponics could contribute to it.. Aquaponics is defined as a combination of hydroponic and aquaculture techniques and seems to be a promising technology to meet this resilience. It functions with plants, fish and microorganisms which play a key role in nitrification and mineralisation of fish wastes into nutrients absorbable by plants. Herein we aim at characterising the bacteria present in diversified systems to better understand the composition and role of their communities in aquaponics. To this end, nine diversified aquaponic systems were sampled. The DNA from each bacteria community was extracted and sequenced with Illumina MiSeq technology by targeting the V1-V3 16S rDNA region. The sequences were then analysed with the QIIME bioinformatic software. Results show that Proteobacteria and Bacteroidetes are the dominant phyla for all the aquaponic systems. Depending on each system, different proportions of other phyla are also present among the bacterial community. The genera which compose all the identified phyla are more diverse and an important proportion of them are usually found in soils and rhizosphere. One of the roles that could be linked to these genera is the breaking down of complex organic compounds which could be related to the mineralisation phenomenon observed in aquaponic systems. Further studies should be undertaken to identify the exact species present in aquaponic systems and to understand their specific functions. [less ▲]

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See detailNew insights into the microbiome of apple fruit surface “cv Pinova” through metagenomics
Dario, Angeli; Massart, Sébastien ULiege; Sare, Abdoul Razack ULiege et al

Conference (2017, June)

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See detailInsights gained from metagenomic sequencing of apple fruit surface (cv. Pinova)
Angeli, Dario; Massart, Sébastien ULiege; Sare, Abdoul Razack ULiege et al

Poster (2016, May 17)

Plant microbial communities (microbiota) living at the surface of fruit have been the source of the majority of biocontrol agents (BCAs). Despite this interest, their role as a community has been poorly ... [more ▼]

Plant microbial communities (microbiota) living at the surface of fruit have been the source of the majority of biocontrol agents (BCAs). Despite this interest, their role as a community has been poorly studied so far. They holistic study was an unattainable objective due to the absence of techniques to survey microbial communities and their evolution. The recent developments in high-throughput sequencing (HTS) have now enabled the holistic analysis of the microbiota genomes. A pioneering assay has been carried out to get insight into the microbiota of apple surface through metagenome sequencing. Apple from Pinova cultivar have been sampled in orchard and the microbiota isolated. After DNA extraction, the HTS assay generated 14.5 Gbases which were assembled in 133,888 contigs. These contigs provided useful information on taxonomic composition of the microbiota. A total of 1398 bacterial species and 397 fungal species have been identified. Among them, 22 species corresponded to known apple pathogens (Penicillium expansum, Penicillium spp, Botrytis cinerea, Monilinia fructicola, Nectria haematococca, Glomerella cingulate, G. graminicola, Alternaria alternate, Alternaria brassicicola, A. citri, A. longipes, A. solani, A. tenuissima, Fusarium solani, F. oxysporum, F. culmorum, F. lateritium, Mucor circinelloides, M. hiemalis, F. racemosus, Venturia inaequalis, Cladosporium cladosporioides). In addition, several contigs were assigned to species or genus of known BCA strains like Pichia canadensis, Bacillus sp., Debaryomyces hansenii, Aureobasidium pullulans and Pantoea vagans. These results will be discussed. In any case, these results underline a very diverse microbial community whose role needs to be characterized. In this line, the functional analysis (gene function determination) of the contigs is ongoing. [less ▲]

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See detailOccurrence and distribution of viruses infecting tomato and pepper in Alibori in northern Benin
Afouda, L. A. C.; Kotchofa, R.; Sare, Abdoul Razack ULiege et al

in Phytoparasitica (2013), 41(3), 271-276

In surveys conducted in 2011 and 2012 to identify the viruses causing diseases on pepper and tomato in the department of Alibori in northern Benin, 451 samples of pepper and tomato were analyzed by ELISA ... [more ▼]

In surveys conducted in 2011 and 2012 to identify the viruses causing diseases on pepper and tomato in the department of Alibori in northern Benin, 451 samples of pepper and tomato were analyzed by ELISA using 11 specific antibodies. The highest virus incidence among the surveyed districts was recorded on pepper in Malanville (56.18%), followed by Karimama (39.32%). The most frequently found viruses were Pepper veinal mottle virus (PVMV), Cucumber mosaic virus (CMV), and Potato virus Y-necrotic (PVY-n), accounting respectively for 22.39%, 21.73% and 15.96% of the collected samples. Tomato yellow leaf curl virus (TYLCV) was detected in only 2.43% of the samples, whereas Alfalfa mosaic virus (AMV), Chilli veinal mottle virus (ChiVMV), Tomato mosaic virus (ToMV) and Tomato spotted wilt virus (TSWV) were not detected in any of the samples tested. Double and triple infections involving different virus combinations were found, respectively, in 14.86% and 4% of the samples. Five plant species (Euphorbia hirta Linnaeus, Moringa oleifera Lam, Leucas martinicencis (Jacquin) R. Brown, Combretum micranthum G. Don, Abelmoschus esculentus L. Moench.) out of 30 samples belonging to 13 botanical families, collected within or nearby tomato and pepper fields, were found infected with PVMV, PVY-n, and CMV. Control measures to reduce the impact of viruses on pepper and tomato production are discussed. This is the first report of viruses infecting pepper and tomato in Benin. © 2013 Springer Science+Business Media Dordrecht. [less ▲]

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