Prokaryotic diversity and composition within equatorial lakes Olbolosat and Oloiden in Kenya (Africa)
Total community 16S rDNA was used to determine the diversity and composition of bacteria and archaea within lakes Olbolosat and Oloiden in Kenya. The V3-V4 hypervariable region of the 16S rRNA gene was targeted since it's highly conserved and has a higher resolution for lower rank taxa. High th...
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| Format: | Article |
| Language: | English |
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Elsevier
2021-12-01
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| Series: | Current Research in Microbial Sciences |
| Subjects: | |
| Online Access: | http://www.sciencedirect.com/science/article/pii/S266651742100047X |
| _version_ | 1818976458822909952 |
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| author | Catherine Wachera Kiama Moses Mucugi Njire Anne Kelly Kambura Julius Ndirangu Mugweru Viviene Njeri Matiru Eliud Nalianya Wafula Robert Nesta Kagali Josiah Ochieng Kuja |
| author_facet | Catherine Wachera Kiama Moses Mucugi Njire Anne Kelly Kambura Julius Ndirangu Mugweru Viviene Njeri Matiru Eliud Nalianya Wafula Robert Nesta Kagali Josiah Ochieng Kuja |
| author_sort | Catherine Wachera Kiama |
| collection | DOAJ |
| description | Total community 16S rDNA was used to determine the diversity and composition of bacteria and archaea within lakes Olbolosat and Oloiden in Kenya. The V3-V4 hypervariable region of the 16S rRNA gene was targeted since it's highly conserved and has a higher resolution for lower rank taxa. High throughput sequencing was performed on 15 samples obtained from the two lakes using the Illumina Miseq platform. Lakes Olbolosat and Oloiden shared 280 of 10,523 Amplicon Sequence Variants (ASVs) recovered while the four sample types (water, microbial mats, dry and wet sediments) shared 4 ASVs. The composition of ASVs in lake Olbolosat was highly dependent on Cu+, Fe2+, NH4+, and Mn2+, while L. Oloiden was dependent on Mg2+, Na+, Ca2+, and K+. All the alpha diversity indices except Simpson were highest in the dry sediment sample (EC1 and 2) both from lake Oloiden. The abundant phyla included Proteobacteria (33.8%), Firmicutes (27.3%), Actinobacteriota (21.2%), Chloroflexi (6.8%), Cyanobacteria (3.8%), Acidobacteriota (2.8%), Planctomycetota (1.9%) and Bacteroidota (1.1%). Analysis of similarity (ANOSIM) revealed a significant difference in ASV composition between the two lakes (r = 0.191, p = 0.048), and between the sample types (r = 0.6667, p = 0.001). The interaction network for prokaryotic communities within the two lakes displayed Proteobacteria to be highly positively connected with other microbes. PERMANOVA results suggest that temperature controls the functioning of the two ecosystems. |
| first_indexed | 2024-12-20T16:12:10Z |
| format | Article |
| id | doaj.art-5dc35bbf6ddb400494c636bd73576dc1 |
| institution | Directory Open Access Journal |
| issn | 2666-5174 |
| language | English |
| last_indexed | 2024-12-20T16:12:10Z |
| publishDate | 2021-12-01 |
| publisher | Elsevier |
| record_format | Article |
| series | Current Research in Microbial Sciences |
| spelling | doaj.art-5dc35bbf6ddb400494c636bd73576dc12022-12-21T19:33:56ZengElsevierCurrent Research in Microbial Sciences2666-51742021-12-012100066Prokaryotic diversity and composition within equatorial lakes Olbolosat and Oloiden in Kenya (Africa)Catherine Wachera Kiama0Moses Mucugi Njire1Anne Kelly Kambura2Julius Ndirangu Mugweru3Viviene Njeri Matiru4Eliud Nalianya Wafula5Robert Nesta Kagali6Josiah Ochieng Kuja7Department of Botany, Jomo Kenyatta University of Agriculture and Technology, P. O. Box 62000-00200 Nairobi, KenyaDepartment of Botany, Jomo Kenyatta University of Agriculture and Technology, P. O. Box 62000-00200 Nairobi, KenyaSchool of Agriculture, Earth and Environmental Sciences, Taita Taveta University, P. O. Box 635-80300 Voi, KenyaSchool of Pure and Applied Sciences, University of Embu, P. O. Box 6 -60100, Embu, KenyaDepartment of Botany, Jomo Kenyatta University of Agriculture and Technology, P. O. Box 62000-00200 Nairobi, KenyaDepartment of Physical and Biological Sciences, Bomet University College, P.O Box 701-20400, Bomet KenyaDepartment of Zoology, Jomo Kenyatta University of Agriculture and Technology, P. O. Box 62000-00200 Nairobi, KenyaDepartment of Botany, Jomo Kenyatta University of Agriculture and Technology, P. O. Box 62000-00200 Nairobi, Kenya; Corresponding author.Total community 16S rDNA was used to determine the diversity and composition of bacteria and archaea within lakes Olbolosat and Oloiden in Kenya. The V3-V4 hypervariable region of the 16S rRNA gene was targeted since it's highly conserved and has a higher resolution for lower rank taxa. High throughput sequencing was performed on 15 samples obtained from the two lakes using the Illumina Miseq platform. Lakes Olbolosat and Oloiden shared 280 of 10,523 Amplicon Sequence Variants (ASVs) recovered while the four sample types (water, microbial mats, dry and wet sediments) shared 4 ASVs. The composition of ASVs in lake Olbolosat was highly dependent on Cu+, Fe2+, NH4+, and Mn2+, while L. Oloiden was dependent on Mg2+, Na+, Ca2+, and K+. All the alpha diversity indices except Simpson were highest in the dry sediment sample (EC1 and 2) both from lake Oloiden. The abundant phyla included Proteobacteria (33.8%), Firmicutes (27.3%), Actinobacteriota (21.2%), Chloroflexi (6.8%), Cyanobacteria (3.8%), Acidobacteriota (2.8%), Planctomycetota (1.9%) and Bacteroidota (1.1%). Analysis of similarity (ANOSIM) revealed a significant difference in ASV composition between the two lakes (r = 0.191, p = 0.048), and between the sample types (r = 0.6667, p = 0.001). The interaction network for prokaryotic communities within the two lakes displayed Proteobacteria to be highly positively connected with other microbes. PERMANOVA results suggest that temperature controls the functioning of the two ecosystems.http://www.sciencedirect.com/science/article/pii/S266651742100047XProkaryotic16S rRNA geneEnvironmental factorsIllumina sequencingEquatorial lakes |
| spellingShingle | Catherine Wachera Kiama Moses Mucugi Njire Anne Kelly Kambura Julius Ndirangu Mugweru Viviene Njeri Matiru Eliud Nalianya Wafula Robert Nesta Kagali Josiah Ochieng Kuja Prokaryotic diversity and composition within equatorial lakes Olbolosat and Oloiden in Kenya (Africa) Current Research in Microbial Sciences Prokaryotic 16S rRNA gene Environmental factors Illumina sequencing Equatorial lakes |
| title | Prokaryotic diversity and composition within equatorial lakes Olbolosat and Oloiden in Kenya (Africa) |
| title_full | Prokaryotic diversity and composition within equatorial lakes Olbolosat and Oloiden in Kenya (Africa) |
| title_fullStr | Prokaryotic diversity and composition within equatorial lakes Olbolosat and Oloiden in Kenya (Africa) |
| title_full_unstemmed | Prokaryotic diversity and composition within equatorial lakes Olbolosat and Oloiden in Kenya (Africa) |
| title_short | Prokaryotic diversity and composition within equatorial lakes Olbolosat and Oloiden in Kenya (Africa) |
| title_sort | prokaryotic diversity and composition within equatorial lakes olbolosat and oloiden in kenya africa |
| topic | Prokaryotic 16S rRNA gene Environmental factors Illumina sequencing Equatorial lakes |
| url | http://www.sciencedirect.com/science/article/pii/S266651742100047X |
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