Changes in the Substrate Source Reveal Novel Interactions in the Sediment-Derived Methanogenic Microbial Community
Methanogenesis occurs in many natural environments and is used in biotechnology for biogas production. The efficiency of methane production depends on the microbiome structure that determines interspecies electron transfer. In this research, the microbial community retrieved from mining subsidence r...
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| Format: | Article |
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MDPI AG
2019-09-01
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| Series: | International Journal of Molecular Sciences |
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| Online Access: | https://www.mdpi.com/1422-0067/20/18/4415 |
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| author | Anna Szafranek-Nakonieczna Anna Pytlak Jarosław Grządziel Adam Kubaczyński Artur Banach Andrzej Górski Weronika Goraj Agnieszka Kuźniar Anna Gałązka Zofia Stępniewska |
| author_facet | Anna Szafranek-Nakonieczna Anna Pytlak Jarosław Grządziel Adam Kubaczyński Artur Banach Andrzej Górski Weronika Goraj Agnieszka Kuźniar Anna Gałązka Zofia Stępniewska |
| author_sort | Anna Szafranek-Nakonieczna |
| collection | DOAJ |
| description | Methanogenesis occurs in many natural environments and is used in biotechnology for biogas production. The efficiency of methane production depends on the microbiome structure that determines interspecies electron transfer. In this research, the microbial community retrieved from mining subsidence reservoir sediment was used to establish enrichment cultures on media containing different carbon sources (tryptone, yeast extract, acetate, CO<sub>2</sub>/H<sub>2</sub>). The microbiome composition and methane production rate of the cultures were screened as a function of the substrate and transition stage. The relationships between the microorganisms involved in methane formation were the major focus of this study. Methanogenic consortia were identified by next generation sequencing (NGS) and functional genes connected with organic matter transformation were predicted using the PICRUSt approach and annotated in the KEGG. The methane production rate (exceeding 12.8 mg CH<sub>4</sub> L<sup>−1</sup> d<sup>−1</sup>) was highest in the culture grown with tryptone, yeast extract, and CO<sub>2</sub>/H<sub>2.</sub> The analysis of communities that developed on various carbon sources casts new light on the ecophysiology of the recently described bacterial phylum <i>Caldiserica</i> and methanogenic <i>Archaea</i> representing the genera <i>Methanomassiliicoccus</i> and <i>Methanothrix</i>. Furthermore, it is hypothesized that representatives of <i>Caldiserica</i> may support hydrogenotrophic methanogenesis. |
| first_indexed | 2024-04-12T01:28:40Z |
| format | Article |
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| institution | Directory Open Access Journal |
| issn | 1422-0067 |
| language | English |
| last_indexed | 2024-04-12T01:28:40Z |
| publishDate | 2019-09-01 |
| publisher | MDPI AG |
| record_format | Article |
| series | International Journal of Molecular Sciences |
| spelling | doaj.art-780cfc1476184621944d94553eb113f02022-12-22T03:53:34ZengMDPI AGInternational Journal of Molecular Sciences1422-00672019-09-012018441510.3390/ijms20184415ijms20184415Changes in the Substrate Source Reveal Novel Interactions in the Sediment-Derived Methanogenic Microbial CommunityAnna Szafranek-Nakonieczna0Anna Pytlak1Jarosław Grządziel2Adam Kubaczyński3Artur Banach4Andrzej Górski5Weronika Goraj6Agnieszka Kuźniar7Anna Gałązka8Zofia Stępniewska9Department of Biochemistry and Environmental Chemistry, Institute of Biotechnology, The John Paul II Catholic University of Lublin, Konstantynów Street 1 I, 20-708 Lublin, PolandDepartment of Biochemistry and Environmental Chemistry, Institute of Biotechnology, The John Paul II Catholic University of Lublin, Konstantynów Street 1 I, 20-708 Lublin, PolandDepartment of Agricultural Microbiology, Institute of Soil Science and Plant Cultivation–State Research Institute (IUNG-PIB), Czartoryskich Street 8, 24-100 Puławy, PolandInstitute of Agrophysics, Polish Academy of Sciences, Doświadczalna Street 4, 20-290 Lublin, PolandDepartment of Biochemistry and Environmental Chemistry, Institute of Biotechnology, The John Paul II Catholic University of Lublin, Konstantynów Street 1 I, 20-708 Lublin, PolandDepartment of Biochemistry and Environmental Chemistry, Institute of Biotechnology, The John Paul II Catholic University of Lublin, Konstantynów Street 1 I, 20-708 Lublin, PolandDepartment of Biochemistry and Environmental Chemistry, Institute of Biotechnology, The John Paul II Catholic University of Lublin, Konstantynów Street 1 I, 20-708 Lublin, PolandDepartment of Biochemistry and Environmental Chemistry, Institute of Biotechnology, The John Paul II Catholic University of Lublin, Konstantynów Street 1 I, 20-708 Lublin, PolandDepartment of Agricultural Microbiology, Institute of Soil Science and Plant Cultivation–State Research Institute (IUNG-PIB), Czartoryskich Street 8, 24-100 Puławy, PolandDepartment of Biochemistry and Environmental Chemistry, Institute of Biotechnology, The John Paul II Catholic University of Lublin, Konstantynów Street 1 I, 20-708 Lublin, PolandMethanogenesis occurs in many natural environments and is used in biotechnology for biogas production. The efficiency of methane production depends on the microbiome structure that determines interspecies electron transfer. In this research, the microbial community retrieved from mining subsidence reservoir sediment was used to establish enrichment cultures on media containing different carbon sources (tryptone, yeast extract, acetate, CO<sub>2</sub>/H<sub>2</sub>). The microbiome composition and methane production rate of the cultures were screened as a function of the substrate and transition stage. The relationships between the microorganisms involved in methane formation were the major focus of this study. Methanogenic consortia were identified by next generation sequencing (NGS) and functional genes connected with organic matter transformation were predicted using the PICRUSt approach and annotated in the KEGG. The methane production rate (exceeding 12.8 mg CH<sub>4</sub> L<sup>−1</sup> d<sup>−1</sup>) was highest in the culture grown with tryptone, yeast extract, and CO<sub>2</sub>/H<sub>2.</sub> The analysis of communities that developed on various carbon sources casts new light on the ecophysiology of the recently described bacterial phylum <i>Caldiserica</i> and methanogenic <i>Archaea</i> representing the genera <i>Methanomassiliicoccus</i> and <i>Methanothrix</i>. Furthermore, it is hypothesized that representatives of <i>Caldiserica</i> may support hydrogenotrophic methanogenesis.https://www.mdpi.com/1422-0067/20/18/4415methanogenesisbottom sedimentsenrichment culture<i>Caldiserica</i><em>Methanothrix</em><i>Methanomassiliicoccus</i> |
| spellingShingle | Anna Szafranek-Nakonieczna Anna Pytlak Jarosław Grządziel Adam Kubaczyński Artur Banach Andrzej Górski Weronika Goraj Agnieszka Kuźniar Anna Gałązka Zofia Stępniewska Changes in the Substrate Source Reveal Novel Interactions in the Sediment-Derived Methanogenic Microbial Community International Journal of Molecular Sciences methanogenesis bottom sediments enrichment culture <i>Caldiserica</i> <em>Methanothrix</em> <i>Methanomassiliicoccus</i> |
| title | Changes in the Substrate Source Reveal Novel Interactions in the Sediment-Derived Methanogenic Microbial Community |
| title_full | Changes in the Substrate Source Reveal Novel Interactions in the Sediment-Derived Methanogenic Microbial Community |
| title_fullStr | Changes in the Substrate Source Reveal Novel Interactions in the Sediment-Derived Methanogenic Microbial Community |
| title_full_unstemmed | Changes in the Substrate Source Reveal Novel Interactions in the Sediment-Derived Methanogenic Microbial Community |
| title_short | Changes in the Substrate Source Reveal Novel Interactions in the Sediment-Derived Methanogenic Microbial Community |
| title_sort | changes in the substrate source reveal novel interactions in the sediment derived methanogenic microbial community |
| topic | methanogenesis bottom sediments enrichment culture <i>Caldiserica</i> <em>Methanothrix</em> <i>Methanomassiliicoccus</i> |
| url | https://www.mdpi.com/1422-0067/20/18/4415 |
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