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Is there foul play in the leaf pocket? The metagenome of floating fern Azolla reveals endophytes that do not fix N2 but may denitrify
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Zeitschriftentitel: | New Phytologist |
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Personen und Körperschaften: | , , , , , , , , , , , , , , |
In: | New Phytologist, 217, 2018, 1, S. 453-466 |
Format: | E-Article |
Sprache: | Englisch |
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Wiley
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Schlagwörter: |
author_facet |
Dijkhuizen, Laura W. Brouwer, Paul Bolhuis, Henk Reichart, Gert‐Jan Koppers, Nils Huettel, Bruno Bolger, Anthony M. Li, Fay‐Wei Cheng, Shifeng Liu, Xin Wong, Gane Ka‐Shu Pryer, Kathleen Weber, Andreas Bräutigam, Andrea Schluepmann, Henriette Dijkhuizen, Laura W. Brouwer, Paul Bolhuis, Henk Reichart, Gert‐Jan Koppers, Nils Huettel, Bruno Bolger, Anthony M. Li, Fay‐Wei Cheng, Shifeng Liu, Xin Wong, Gane Ka‐Shu Pryer, Kathleen Weber, Andreas Bräutigam, Andrea Schluepmann, Henriette |
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author |
Dijkhuizen, Laura W. Brouwer, Paul Bolhuis, Henk Reichart, Gert‐Jan Koppers, Nils Huettel, Bruno Bolger, Anthony M. Li, Fay‐Wei Cheng, Shifeng Liu, Xin Wong, Gane Ka‐Shu Pryer, Kathleen Weber, Andreas Bräutigam, Andrea Schluepmann, Henriette |
spellingShingle |
Dijkhuizen, Laura W. Brouwer, Paul Bolhuis, Henk Reichart, Gert‐Jan Koppers, Nils Huettel, Bruno Bolger, Anthony M. Li, Fay‐Wei Cheng, Shifeng Liu, Xin Wong, Gane Ka‐Shu Pryer, Kathleen Weber, Andreas Bräutigam, Andrea Schluepmann, Henriette New Phytologist Is there foul play in the leaf pocket? The metagenome of floating fern Azolla reveals endophytes that do not fix N2 but may denitrify Plant Science Physiology |
author_sort |
dijkhuizen, laura w. |
spelling |
Dijkhuizen, Laura W. Brouwer, Paul Bolhuis, Henk Reichart, Gert‐Jan Koppers, Nils Huettel, Bruno Bolger, Anthony M. Li, Fay‐Wei Cheng, Shifeng Liu, Xin Wong, Gane Ka‐Shu Pryer, Kathleen Weber, Andreas Bräutigam, Andrea Schluepmann, Henriette 0028-646X 1469-8137 Wiley Plant Science Physiology http://dx.doi.org/10.1111/nph.14843 <jats:title>Summary</jats:title><jats:p> <jats:list list-type="bullet"> <jats:list-item><jats:p>Dinitrogen fixation by <jats:italic>Nostoc azollae</jats:italic> residing in specialized leaf pockets supports prolific growth of the floating fern <jats:italic>Azolla filiculoides</jats:italic>. To evaluate contributions by further microorganisms, the <jats:italic>A. filiculoides</jats:italic> microbiome and nitrogen metabolism in bacteria persistently associated with <jats:italic>Azolla</jats:italic> ferns were characterized.</jats:p></jats:list-item> <jats:list-item><jats:p>A metagenomic approach was taken complemented by detection of N<jats:sub>2</jats:sub>O released and nitrogen isotope determinations of fern biomass. Ribosomal RNA genes in sequenced DNA of natural ferns, their enriched leaf pockets and water filtrate from the surrounding ditch established that bacteria of <jats:italic>A. filiculoides</jats:italic> differed entirely from surrounding water and revealed species of the order Rhizobiales. Analyses of seven cultivated <jats:italic>Azolla</jats:italic> species confirmed persistent association with Rhizobiales.</jats:p></jats:list-item> <jats:list-item><jats:p>Two distinct nearly full‐length Rhizobiales genomes were identified in leaf‐pocket‐enriched samples from ditch grown <jats:italic>A</jats:italic>. <jats:italic>filiculoides</jats:italic>. Their annotation revealed genes for denitrification but not N<jats:sub>2</jats:sub>‐fixation. <jats:sup>15</jats:sup>N<jats:sub>2</jats:sub> incorporation was active in ferns with <jats:italic>N. azollae</jats:italic> but not in ferns without. N<jats:sub>2</jats:sub>O was not detectably released from surface‐sterilized ferns with the Rhizobiales.</jats:p></jats:list-item> <jats:list-item><jats:p>N<jats:sub>2</jats:sub>‐fixing <jats:italic>N. azollae</jats:italic>, we conclude, dominated the microbiome of <jats:italic>Azolla</jats:italic> ferns. The persistent but less abundant heterotrophic Rhizobiales bacteria possibly contributed to lowering O<jats:sub>2</jats:sub> levels in leaf pockets but did not release detectable amounts of the strong greenhouse gas N<jats:sub>2</jats:sub>O.</jats:p></jats:list-item> </jats:list> </jats:p> Is there foul play in the leaf pocket? The metagenome of floating fern <i>Azolla</i> reveals endophytes that do not fix N<sub>2</sub> but may denitrify New Phytologist |
doi_str_mv |
10.1111/nph.14843 |
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Online Free |
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Biologie |
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Wiley, 2018 |
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dijkhuizen2018istherefoulplayintheleafpocketthemetagenomeoffloatingfernazollarevealsendophytesthatdonotfixn2butmaydenitrify |
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New Phytologist |
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title |
Is there foul play in the leaf pocket? The metagenome of floating fern Azolla reveals endophytes that do not fix N2 but may denitrify |
title_unstemmed |
Is there foul play in the leaf pocket? The metagenome of floating fern Azolla reveals endophytes that do not fix N2 but may denitrify |
title_full |
Is there foul play in the leaf pocket? The metagenome of floating fern Azolla reveals endophytes that do not fix N2 but may denitrify |
title_fullStr |
Is there foul play in the leaf pocket? The metagenome of floating fern Azolla reveals endophytes that do not fix N2 but may denitrify |
title_full_unstemmed |
Is there foul play in the leaf pocket? The metagenome of floating fern Azolla reveals endophytes that do not fix N2 but may denitrify |
title_short |
Is there foul play in the leaf pocket? The metagenome of floating fern Azolla reveals endophytes that do not fix N2 but may denitrify |
title_sort |
is there foul play in the leaf pocket? the metagenome of floating fern <i>azolla</i> reveals endophytes that do not fix n<sub>2</sub> but may denitrify |
topic |
Plant Science Physiology |
url |
http://dx.doi.org/10.1111/nph.14843 |
publishDate |
2018 |
physical |
453-466 |
description |
<jats:title>Summary</jats:title><jats:p>
<jats:list list-type="bullet">
<jats:list-item><jats:p>Dinitrogen fixation by <jats:italic>Nostoc azollae</jats:italic> residing in specialized leaf pockets supports prolific growth of the floating fern <jats:italic>Azolla filiculoides</jats:italic>. To evaluate contributions by further microorganisms, the <jats:italic>A. filiculoides</jats:italic> microbiome and nitrogen metabolism in bacteria persistently associated with <jats:italic>Azolla</jats:italic> ferns were characterized.</jats:p></jats:list-item>
<jats:list-item><jats:p>A metagenomic approach was taken complemented by detection of N<jats:sub>2</jats:sub>O released and nitrogen isotope determinations of fern biomass. Ribosomal RNA genes in sequenced DNA of natural ferns, their enriched leaf pockets and water filtrate from the surrounding ditch established that bacteria of <jats:italic>A. filiculoides</jats:italic> differed entirely from surrounding water and revealed species of the order Rhizobiales. Analyses of seven cultivated <jats:italic>Azolla</jats:italic> species confirmed persistent association with Rhizobiales.</jats:p></jats:list-item>
<jats:list-item><jats:p>Two distinct nearly full‐length Rhizobiales genomes were identified in leaf‐pocket‐enriched samples from ditch grown <jats:italic>A</jats:italic>. <jats:italic>filiculoides</jats:italic>. Their annotation revealed genes for denitrification but not N<jats:sub>2</jats:sub>‐fixation. <jats:sup>15</jats:sup>N<jats:sub>2</jats:sub> incorporation was active in ferns with <jats:italic>N. azollae</jats:italic> but not in ferns without. N<jats:sub>2</jats:sub>O was not detectably released from surface‐sterilized ferns with the Rhizobiales.</jats:p></jats:list-item>
<jats:list-item><jats:p>N<jats:sub>2</jats:sub>‐fixing <jats:italic>N. azollae</jats:italic>, we conclude, dominated the microbiome of <jats:italic>Azolla</jats:italic> ferns. The persistent but less abundant heterotrophic Rhizobiales bacteria possibly contributed to lowering O<jats:sub>2</jats:sub> levels in leaf pockets but did not release detectable amounts of the strong greenhouse gas N<jats:sub>2</jats:sub>O.</jats:p></jats:list-item>
</jats:list>
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author | Dijkhuizen, Laura W., Brouwer, Paul, Bolhuis, Henk, Reichart, Gert‐Jan, Koppers, Nils, Huettel, Bruno, Bolger, Anthony M., Li, Fay‐Wei, Cheng, Shifeng, Liu, Xin, Wong, Gane Ka‐Shu, Pryer, Kathleen, Weber, Andreas, Bräutigam, Andrea, Schluepmann, Henriette |
author_facet | Dijkhuizen, Laura W., Brouwer, Paul, Bolhuis, Henk, Reichart, Gert‐Jan, Koppers, Nils, Huettel, Bruno, Bolger, Anthony M., Li, Fay‐Wei, Cheng, Shifeng, Liu, Xin, Wong, Gane Ka‐Shu, Pryer, Kathleen, Weber, Andreas, Bräutigam, Andrea, Schluepmann, Henriette, Dijkhuizen, Laura W., Brouwer, Paul, Bolhuis, Henk, Reichart, Gert‐Jan, Koppers, Nils, Huettel, Bruno, Bolger, Anthony M., Li, Fay‐Wei, Cheng, Shifeng, Liu, Xin, Wong, Gane Ka‐Shu, Pryer, Kathleen, Weber, Andreas, Bräutigam, Andrea, Schluepmann, Henriette |
author_sort | dijkhuizen, laura w. |
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description | <jats:title>Summary</jats:title><jats:p> <jats:list list-type="bullet"> <jats:list-item><jats:p>Dinitrogen fixation by <jats:italic>Nostoc azollae</jats:italic> residing in specialized leaf pockets supports prolific growth of the floating fern <jats:italic>Azolla filiculoides</jats:italic>. To evaluate contributions by further microorganisms, the <jats:italic>A. filiculoides</jats:italic> microbiome and nitrogen metabolism in bacteria persistently associated with <jats:italic>Azolla</jats:italic> ferns were characterized.</jats:p></jats:list-item> <jats:list-item><jats:p>A metagenomic approach was taken complemented by detection of N<jats:sub>2</jats:sub>O released and nitrogen isotope determinations of fern biomass. Ribosomal RNA genes in sequenced DNA of natural ferns, their enriched leaf pockets and water filtrate from the surrounding ditch established that bacteria of <jats:italic>A. filiculoides</jats:italic> differed entirely from surrounding water and revealed species of the order Rhizobiales. Analyses of seven cultivated <jats:italic>Azolla</jats:italic> species confirmed persistent association with Rhizobiales.</jats:p></jats:list-item> <jats:list-item><jats:p>Two distinct nearly full‐length Rhizobiales genomes were identified in leaf‐pocket‐enriched samples from ditch grown <jats:italic>A</jats:italic>. <jats:italic>filiculoides</jats:italic>. Their annotation revealed genes for denitrification but not N<jats:sub>2</jats:sub>‐fixation. <jats:sup>15</jats:sup>N<jats:sub>2</jats:sub> incorporation was active in ferns with <jats:italic>N. azollae</jats:italic> but not in ferns without. N<jats:sub>2</jats:sub>O was not detectably released from surface‐sterilized ferns with the Rhizobiales.</jats:p></jats:list-item> <jats:list-item><jats:p>N<jats:sub>2</jats:sub>‐fixing <jats:italic>N. azollae</jats:italic>, we conclude, dominated the microbiome of <jats:italic>Azolla</jats:italic> ferns. The persistent but less abundant heterotrophic Rhizobiales bacteria possibly contributed to lowering O<jats:sub>2</jats:sub> levels in leaf pockets but did not release detectable amounts of the strong greenhouse gas N<jats:sub>2</jats:sub>O.</jats:p></jats:list-item> </jats:list> </jats:p> |
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spelling | Dijkhuizen, Laura W. Brouwer, Paul Bolhuis, Henk Reichart, Gert‐Jan Koppers, Nils Huettel, Bruno Bolger, Anthony M. Li, Fay‐Wei Cheng, Shifeng Liu, Xin Wong, Gane Ka‐Shu Pryer, Kathleen Weber, Andreas Bräutigam, Andrea Schluepmann, Henriette 0028-646X 1469-8137 Wiley Plant Science Physiology http://dx.doi.org/10.1111/nph.14843 <jats:title>Summary</jats:title><jats:p> <jats:list list-type="bullet"> <jats:list-item><jats:p>Dinitrogen fixation by <jats:italic>Nostoc azollae</jats:italic> residing in specialized leaf pockets supports prolific growth of the floating fern <jats:italic>Azolla filiculoides</jats:italic>. To evaluate contributions by further microorganisms, the <jats:italic>A. filiculoides</jats:italic> microbiome and nitrogen metabolism in bacteria persistently associated with <jats:italic>Azolla</jats:italic> ferns were characterized.</jats:p></jats:list-item> <jats:list-item><jats:p>A metagenomic approach was taken complemented by detection of N<jats:sub>2</jats:sub>O released and nitrogen isotope determinations of fern biomass. Ribosomal RNA genes in sequenced DNA of natural ferns, their enriched leaf pockets and water filtrate from the surrounding ditch established that bacteria of <jats:italic>A. filiculoides</jats:italic> differed entirely from surrounding water and revealed species of the order Rhizobiales. Analyses of seven cultivated <jats:italic>Azolla</jats:italic> species confirmed persistent association with Rhizobiales.</jats:p></jats:list-item> <jats:list-item><jats:p>Two distinct nearly full‐length Rhizobiales genomes were identified in leaf‐pocket‐enriched samples from ditch grown <jats:italic>A</jats:italic>. <jats:italic>filiculoides</jats:italic>. Their annotation revealed genes for denitrification but not N<jats:sub>2</jats:sub>‐fixation. <jats:sup>15</jats:sup>N<jats:sub>2</jats:sub> incorporation was active in ferns with <jats:italic>N. azollae</jats:italic> but not in ferns without. N<jats:sub>2</jats:sub>O was not detectably released from surface‐sterilized ferns with the Rhizobiales.</jats:p></jats:list-item> <jats:list-item><jats:p>N<jats:sub>2</jats:sub>‐fixing <jats:italic>N. azollae</jats:italic>, we conclude, dominated the microbiome of <jats:italic>Azolla</jats:italic> ferns. The persistent but less abundant heterotrophic Rhizobiales bacteria possibly contributed to lowering O<jats:sub>2</jats:sub> levels in leaf pockets but did not release detectable amounts of the strong greenhouse gas N<jats:sub>2</jats:sub>O.</jats:p></jats:list-item> </jats:list> </jats:p> Is there foul play in the leaf pocket? The metagenome of floating fern <i>Azolla</i> reveals endophytes that do not fix N<sub>2</sub> but may denitrify New Phytologist |
spellingShingle | Dijkhuizen, Laura W., Brouwer, Paul, Bolhuis, Henk, Reichart, Gert‐Jan, Koppers, Nils, Huettel, Bruno, Bolger, Anthony M., Li, Fay‐Wei, Cheng, Shifeng, Liu, Xin, Wong, Gane Ka‐Shu, Pryer, Kathleen, Weber, Andreas, Bräutigam, Andrea, Schluepmann, Henriette, New Phytologist, Is there foul play in the leaf pocket? The metagenome of floating fern Azolla reveals endophytes that do not fix N2 but may denitrify, Plant Science, Physiology |
title | Is there foul play in the leaf pocket? The metagenome of floating fern Azolla reveals endophytes that do not fix N2 but may denitrify |
title_full | Is there foul play in the leaf pocket? The metagenome of floating fern Azolla reveals endophytes that do not fix N2 but may denitrify |
title_fullStr | Is there foul play in the leaf pocket? The metagenome of floating fern Azolla reveals endophytes that do not fix N2 but may denitrify |
title_full_unstemmed | Is there foul play in the leaf pocket? The metagenome of floating fern Azolla reveals endophytes that do not fix N2 but may denitrify |
title_short | Is there foul play in the leaf pocket? The metagenome of floating fern Azolla reveals endophytes that do not fix N2 but may denitrify |
title_sort | is there foul play in the leaf pocket? the metagenome of floating fern <i>azolla</i> reveals endophytes that do not fix n<sub>2</sub> but may denitrify |
title_unstemmed | Is there foul play in the leaf pocket? The metagenome of floating fern Azolla reveals endophytes that do not fix N2 but may denitrify |
topic | Plant Science, Physiology |
url | http://dx.doi.org/10.1111/nph.14843 |