Fungal diversity within organic and conventional farming systems in Central Highlands of Kenya
Fungal diversity in agro-ecosystems is influenced by various factors related to soil and crop management practices. However, due to the complexity in fungal cultivation, only a limited number has been extensively studied. In this study, amplicon sequencing of the Internal Transcribed Spacer (ITS) re...
| Main Authors: | , , , , , , |
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| Format: | Journal Article |
| Language: | Inglés |
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Academic Journals
2020
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| Subjects: | |
| Online Access: | https://hdl.handle.net/10568/109656 |
| _version_ | 1855537492810268672 |
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| author | Karanja, E.N. Fliessbach, A. Adamtey, N. Kambura, A.K. Musyoka, M. Fiaboe, K. Mwirichia, R. |
| author_browse | Adamtey, N. Fiaboe, K. Fliessbach, A. Kambura, A.K. Karanja, E.N. Musyoka, M. Mwirichia, R. |
| author_facet | Karanja, E.N. Fliessbach, A. Adamtey, N. Kambura, A.K. Musyoka, M. Fiaboe, K. Mwirichia, R. |
| author_sort | Karanja, E.N. |
| collection | Repository of Agricultural Research Outputs (CGSpace) |
| description | Fungal diversity in agro-ecosystems is influenced by various factors related to soil and crop management practices. However, due to the complexity in fungal cultivation, only a limited number has been extensively studied. In this study, amplicon sequencing of the Internal Transcribed Spacer (ITS) region was used to explore their diversity and composition within long-term farming system comparison trials at Chuka and Thika in Kenya. Sequences were grouped into operational taxonomic units (OTUs) at 97% similarity and taxonomy assigned via BLASTn against UNITE ITS database and a curated database derived from GreenGenes, RDPII and NCBI. Statistical analyses were done using Vegan package in R. A total of 1,002,188 high quality sequences were obtained and assigned to 1,128 OTUs; they were further classified into eight phyla including Ascomycota, Basidiomycota, Chytridiomycota, Glomeromycota, Calcarisporiellomycota, Kickxellomycota, Mortierellomycota and unassigned fungal phyla. Ascomycota was abundant in conventional systems at Chuka site while Basidiomycota and Chytridiomycota were dominant in conventional systems in both sites. Kickxellomycota and Calcarisporiellomycota phyla were present in all organic systems in both sites. Conventional farming systems showed a higher species abundance and diversity compared to organic farming systems due to integration of organic and inorganic inputs. |
| format | Journal Article |
| id | CGSpace109656 |
| institution | CGIAR Consortium |
| language | Inglés |
| publishDate | 2020 |
| publishDateRange | 2020 |
| publishDateSort | 2020 |
| publisher | Academic Journals |
| publisherStr | Academic Journals |
| record_format | dspace |
| spelling | CGSpace1096562025-11-11T10:44:07Z Fungal diversity within organic and conventional farming systems in Central Highlands of Kenya Karanja, E.N. Fliessbach, A. Adamtey, N. Kambura, A.K. Musyoka, M. Fiaboe, K. Mwirichia, R. farming systems fungi sequence experiments kenya ascomycota basidiomycota chytridiomycota environmental control lighting Fungal diversity in agro-ecosystems is influenced by various factors related to soil and crop management practices. However, due to the complexity in fungal cultivation, only a limited number has been extensively studied. In this study, amplicon sequencing of the Internal Transcribed Spacer (ITS) region was used to explore their diversity and composition within long-term farming system comparison trials at Chuka and Thika in Kenya. Sequences were grouped into operational taxonomic units (OTUs) at 97% similarity and taxonomy assigned via BLASTn against UNITE ITS database and a curated database derived from GreenGenes, RDPII and NCBI. Statistical analyses were done using Vegan package in R. A total of 1,002,188 high quality sequences were obtained and assigned to 1,128 OTUs; they were further classified into eight phyla including Ascomycota, Basidiomycota, Chytridiomycota, Glomeromycota, Calcarisporiellomycota, Kickxellomycota, Mortierellomycota and unassigned fungal phyla. Ascomycota was abundant in conventional systems at Chuka site while Basidiomycota and Chytridiomycota were dominant in conventional systems in both sites. Kickxellomycota and Calcarisporiellomycota phyla were present in all organic systems in both sites. Conventional farming systems showed a higher species abundance and diversity compared to organic farming systems due to integration of organic and inorganic inputs. 2020-06-30 2020-09-25T10:05:37Z 2020-09-25T10:05:37Z Journal Article https://hdl.handle.net/10568/109656 en Open Access application/pdf Academic Journals Karanja, E.N., Fliessbach, A., Adamtey, N., Kambura, A.K., Musyoka, M., Fiaboe, K. & Mwirichia, R. (2020). Fungal diversity within organic and conventional farming systems in Central Highlands of Kenya. African Journal of Microbiology Research, 14(6), 242-258. |
| spellingShingle | farming systems fungi sequence experiments kenya ascomycota basidiomycota chytridiomycota environmental control lighting Karanja, E.N. Fliessbach, A. Adamtey, N. Kambura, A.K. Musyoka, M. Fiaboe, K. Mwirichia, R. Fungal diversity within organic and conventional farming systems in Central Highlands of Kenya |
| title | Fungal diversity within organic and conventional farming systems in Central Highlands of Kenya |
| title_full | Fungal diversity within organic and conventional farming systems in Central Highlands of Kenya |
| title_fullStr | Fungal diversity within organic and conventional farming systems in Central Highlands of Kenya |
| title_full_unstemmed | Fungal diversity within organic and conventional farming systems in Central Highlands of Kenya |
| title_short | Fungal diversity within organic and conventional farming systems in Central Highlands of Kenya |
| title_sort | fungal diversity within organic and conventional farming systems in central highlands of kenya |
| topic | farming systems fungi sequence experiments kenya ascomycota basidiomycota chytridiomycota environmental control lighting |
| url | https://hdl.handle.net/10568/109656 |
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