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  • 1. Jiang, Rays H. Y.
    et al.
    de Bruijn, Irene
    Haas, Brian J.
    Belmonte, Rodrigo
    Loebach, Lars
    Christie, James
    van den Ackerveken, Guido
    Bottin, Arnaud
    Bulone, Vincent
    KTH, School of Biotechnology (BIO), Glycoscience.
    Diaz-Moreno, Sara M.
    KTH, School of Biotechnology (BIO), Glycoscience.
    Dumas, Bernard
    Fan, Lin
    Gaulin, Elodie
    Govers, Francine
    Grenville-Briggs, Laura J.
    KTH, School of Biotechnology (BIO), Glycoscience.
    Horner, Neil R.
    Levin, Joshua Z.
    Mammella, Marco
    Meijer, Harold J. G.
    Morris, Paul
    Nusbaum, Chad
    Oome, Stan
    Phillips, Andrew J.
    van Rooyen, David
    Rzeszutek, Elzbieta
    KTH, School of Biotechnology (BIO), Glycoscience.
    Saraiva, Marcia
    Secombes, Chris J.
    Seidl, Michael F.
    Snel, Berend
    Stassen, Joost H. M.
    Sykes, Sean
    Tripathy, Sucheta
    van den Berg, Herbert
    Vega-Arreguin, Julio C.
    Wawra, Stephan
    Young, Sarah K.
    Zeng, Qiandong
    Dieguez-Uribeondo, Javier
    Russ, Carsten
    Tyler, Brett M.
    van West, Pieter
    Distinctive Expansion of Potential Virulence Genes in the Genome of the Oomycete Fish Pathogen Saprolegnia parasitica2013In: PLOS Genetics, ISSN 1553-7390, E-ISSN 1553-7404, Vol. 9, no 6, p. e1003272-Article in journal (Refereed)
    Abstract [en]

    Oomycetes in the class Saprolegniomycetidae of the Eukaryotic kingdom Stramenopila have evolved as severe pathogens of amphibians, crustaceans, fish and insects, resulting in major losses in aquaculture and damage to aquatic ecosystems. We have sequenced the 63 Mb genome of the fresh water fish pathogen, Saprolegnia parasitica. Approximately 1/3 of the assembled genome exhibits loss of heterozygosity, indicating an efficient mechanism for revealing new variation. Comparison of S. parasitica with plant pathogenic oomycetes suggests that during evolution the host cellular environment has driven distinct patterns of gene expansion and loss in the genomes of plant and animal pathogens. S. parasitica possesses one of the largest repertoires of proteases (270) among eukaryotes that are deployed in waves at different points during infection as determined from RNA-Seq data. In contrast, despite being capable of living saprotrophically, parasitism has led to loss of inorganic nitrogen and sulfur assimilation pathways, strikingly similar to losses in obligate plant pathogenic oomycetes and fungi. The large gene families that are hallmarks of plant pathogenic oomycetes such as Phytophthora appear to be lacking in S. parasitica, including those encoding RXLR effectors, Crinkler's, and Necrosis Inducing-Like Proteins (NLP). S. parasitica also has a very large kinome of 543 kinases, 10% of which is induced upon infection. Moreover, S. parasitica encodes several genes typical of animals or animal-pathogens and lacking from other oomycetes, including disintegrins and galactose-binding lectins, whose expression and evolutionary origins implicate horizontal gene transfer in the evolution of animal pathogenesis in S. parasitica.

  • 2. Liu, Yiying
    et al.
    Rzeszutek, Elzbieta
    KTH, School of Biotechnology (BIO), Glycoscience.
    van der Voort, Menno
    Wu, Cheng-Hsuan
    Thoen, Even
    Skaar, Ida
    Bulone, Vincent
    KTH, School of Biotechnology (BIO), Glycoscience.
    Dorrestein, Pieter C.
    Raaijmakers, Jos M.
    de Bruijn, Irene
    Diversity of Aquatic Pseudomonas Species and Their Activity against the Fish Pathogenic Oomycete Saprolegnia2015In: PLoS ONE, ISSN 1932-6203, E-ISSN 1932-6203, Vol. 10, no 8, article id e0136241Article in journal (Refereed)
    Abstract [en]

    Emerging fungal and oomycete pathogens are increasingly threatening animals and plants globally. Amongst oomycetes, Saprolegnia species adversely affect wild and cultivated populations of amphibians and fish, leading to substantial reductions in biodiversity and food productivity. With the ban of several chemical control measures, new sustainable methods are needed to mitigate Saprolegnia infections in aquaculture. Here, PhyloChip-based community analyses showed that the Pseudomonadales, particularly Pseudomonas species, represent one of the largest bacterial orders associated with salmon eggs from a commercial hatchery. Among the Pseudomonas species isolated from salmon eggs, significantly more biosurfactant producers were retrieved from healthy salmon eggs than from Saprolegnia-infected eggs. Subsequent in vivo activity bioassays showed that Pseudomonas isolate H6 significantly reduced salmon egg mortality caused by Saprolegnia diclina. Live colony mass spectrometry showed that strain H6 produces a viscosin-like lipopeptide surfactant. This biosurfactant inhibited growth of Saprolegnia in vitro, but no significant protection of salmon eggs against Saprolegniosis was observed. These results indicate that live inocula of aquatic Pseudomonas strains, instead of their bioactive compound, can provide new (micro) biological and sustainable means to mitigate oomycete diseases in aquaculture.

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