The Proteogenome of Symbiotic <em>Frankia alni</em> in <em>Alnus glutinosa</em> Nodules
Omics are the most promising approaches to investigate microbes for which no genetic tools exist such as the nitrogen-fixing symbiotic <i>Frankia.</i> A proteogenomic analysis of symbiotic <i>Frankia alni</i> was done by comparing those proteins more and less abundant in <...
| Main Authors: | , , , , , , |
|---|---|
| Format: | Article |
| Language: | English |
| Published: |
MDPI AG
2022-03-01
|
| Series: | Microorganisms |
| Subjects: | |
| Online Access: | https://www.mdpi.com/2076-2607/10/3/651 |
| _version_ | 1827627479555112960 |
|---|---|
| author | Petar Pujic Nicole Alloisio Guylaine Miotello Jean Armengaud Danis Abrouk Pascale Fournier Philippe Normand |
| author_facet | Petar Pujic Nicole Alloisio Guylaine Miotello Jean Armengaud Danis Abrouk Pascale Fournier Philippe Normand |
| author_sort | Petar Pujic |
| collection | DOAJ |
| description | Omics are the most promising approaches to investigate microbes for which no genetic tools exist such as the nitrogen-fixing symbiotic <i>Frankia.</i> A proteogenomic analysis of symbiotic <i>Frankia alni</i> was done by comparing those proteins more and less abundant in <i>Alnus glutinosa</i> nodules relative to N-replete pure cultures with propionate as the carbon source and ammonium as the nitrogen-source. There were 250 proteins that were significantly overabundant in nodules at a fold change (FC) ≥ 2 threshold, and 1429 with the same characteristics in in vitro nitrogen-replete pure culture. Nitrogenase, SuF (Fe–Su biogenesis) and hopanoid lipids synthesis determinants were the most overabundant proteins in symbiosis. Nitrogenase was found to constitute 3% of all <i>Frankia</i> proteins in nodules. Sod (superoxide dismutase) was overabundant, indicating a continued oxidative stress, while Kats (catalase) were not. Several transporters were overabundant including one for dicarboxylates and one for branched amino acids. The present results confirm the centrality of nitrogenase in the actinorhizal symbiosis. |
| first_indexed | 2024-03-09T13:14:46Z |
| format | Article |
| id | doaj.art-a02e772fb570472fb3c4ea255c137ed8 |
| institution | Directory Open Access Journal |
| issn | 2076-2607 |
| language | English |
| last_indexed | 2024-03-09T13:14:46Z |
| publishDate | 2022-03-01 |
| publisher | MDPI AG |
| record_format | Article |
| series | Microorganisms |
| spelling | doaj.art-a02e772fb570472fb3c4ea255c137ed82023-11-30T21:37:33ZengMDPI AGMicroorganisms2076-26072022-03-0110365110.3390/microorganisms10030651The Proteogenome of Symbiotic <em>Frankia alni</em> in <em>Alnus glutinosa</em> NodulesPetar Pujic0Nicole Alloisio1Guylaine Miotello2Jean Armengaud3Danis Abrouk4Pascale Fournier5Philippe Normand6Ecologie Microbienne, CNRS, UMR5557, Université Lyon 1, Université de Lyon; INRA, UMR1418, 7330 Villeurbanne, FranceEcologie Microbienne, CNRS, UMR5557, Université Lyon 1, Université de Lyon; INRA, UMR1418, 7330 Villeurbanne, FranceDépartement Médicaments et Technologies pour la Santé (DMTS), CEA, INRAE, Université Paris-Saclay, SPI, 30200 Bagnols sur Cèze, FranceDépartement Médicaments et Technologies pour la Santé (DMTS), CEA, INRAE, Université Paris-Saclay, SPI, 30200 Bagnols sur Cèze, FranceEcologie Microbienne, CNRS, UMR5557, Université Lyon 1, Université de Lyon; INRA, UMR1418, 7330 Villeurbanne, FranceEcologie Microbienne, CNRS, UMR5557, Université Lyon 1, Université de Lyon; INRA, UMR1418, 7330 Villeurbanne, FranceEcologie Microbienne, CNRS, UMR5557, Université Lyon 1, Université de Lyon; INRA, UMR1418, 7330 Villeurbanne, FranceOmics are the most promising approaches to investigate microbes for which no genetic tools exist such as the nitrogen-fixing symbiotic <i>Frankia.</i> A proteogenomic analysis of symbiotic <i>Frankia alni</i> was done by comparing those proteins more and less abundant in <i>Alnus glutinosa</i> nodules relative to N-replete pure cultures with propionate as the carbon source and ammonium as the nitrogen-source. There were 250 proteins that were significantly overabundant in nodules at a fold change (FC) ≥ 2 threshold, and 1429 with the same characteristics in in vitro nitrogen-replete pure culture. Nitrogenase, SuF (Fe–Su biogenesis) and hopanoid lipids synthesis determinants were the most overabundant proteins in symbiosis. Nitrogenase was found to constitute 3% of all <i>Frankia</i> proteins in nodules. Sod (superoxide dismutase) was overabundant, indicating a continued oxidative stress, while Kats (catalase) were not. Several transporters were overabundant including one for dicarboxylates and one for branched amino acids. The present results confirm the centrality of nitrogenase in the actinorhizal symbiosis.https://www.mdpi.com/2076-2607/10/3/651omicsnitrogenasehopanoidsactinorhizae |
| spellingShingle | Petar Pujic Nicole Alloisio Guylaine Miotello Jean Armengaud Danis Abrouk Pascale Fournier Philippe Normand The Proteogenome of Symbiotic <em>Frankia alni</em> in <em>Alnus glutinosa</em> Nodules Microorganisms omics nitrogenase hopanoids actinorhizae |
| title | The Proteogenome of Symbiotic <em>Frankia alni</em> in <em>Alnus glutinosa</em> Nodules |
| title_full | The Proteogenome of Symbiotic <em>Frankia alni</em> in <em>Alnus glutinosa</em> Nodules |
| title_fullStr | The Proteogenome of Symbiotic <em>Frankia alni</em> in <em>Alnus glutinosa</em> Nodules |
| title_full_unstemmed | The Proteogenome of Symbiotic <em>Frankia alni</em> in <em>Alnus glutinosa</em> Nodules |
| title_short | The Proteogenome of Symbiotic <em>Frankia alni</em> in <em>Alnus glutinosa</em> Nodules |
| title_sort | proteogenome of symbiotic em frankia alni em in em alnus glutinosa em nodules |
| topic | omics nitrogenase hopanoids actinorhizae |
| url | https://www.mdpi.com/2076-2607/10/3/651 |
| work_keys_str_mv | AT petarpujic theproteogenomeofsymbioticemfrankiaalnieminemalnusglutinosaemnodules AT nicolealloisio theproteogenomeofsymbioticemfrankiaalnieminemalnusglutinosaemnodules AT guylainemiotello theproteogenomeofsymbioticemfrankiaalnieminemalnusglutinosaemnodules AT jeanarmengaud theproteogenomeofsymbioticemfrankiaalnieminemalnusglutinosaemnodules AT danisabrouk theproteogenomeofsymbioticemfrankiaalnieminemalnusglutinosaemnodules AT pascalefournier theproteogenomeofsymbioticemfrankiaalnieminemalnusglutinosaemnodules AT philippenormand theproteogenomeofsymbioticemfrankiaalnieminemalnusglutinosaemnodules AT petarpujic proteogenomeofsymbioticemfrankiaalnieminemalnusglutinosaemnodules AT nicolealloisio proteogenomeofsymbioticemfrankiaalnieminemalnusglutinosaemnodules AT guylainemiotello proteogenomeofsymbioticemfrankiaalnieminemalnusglutinosaemnodules AT jeanarmengaud proteogenomeofsymbioticemfrankiaalnieminemalnusglutinosaemnodules AT danisabrouk proteogenomeofsymbioticemfrankiaalnieminemalnusglutinosaemnodules AT pascalefournier proteogenomeofsymbioticemfrankiaalnieminemalnusglutinosaemnodules AT philippenormand proteogenomeofsymbioticemfrankiaalnieminemalnusglutinosaemnodules |