The Microbiome of Suaeda monoica and Dipterygium glaucum From Southern Corniche (Saudi Arabia) Reveals Different Recruitment Patterns of Bacteria and Archaea
Soil and plant interact differently in response to the same stress (e.g., salinity) and recruit certain bacteria. The southern corniche (Saudi Arabia) has limited plant growth, which could be due to the high temperature and salinity. The study aimed to determine the soil microbiome of selected plant...
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| Format: | Article |
| Language: | English |
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Frontiers Media S.A.
2022-04-01
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| Series: | Frontiers in Marine Science |
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| Online Access: | https://www.frontiersin.org/articles/10.3389/fmars.2022.865834/full |
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| author | Rewaa S. Jalal Hassan I. Sheikh Mohammed T. Alotaibi Ashwag Y. Shami Ruba A. Ashy Naseebh N. Baeshen Aala A. Abulfaraj Lina Baz Mohammed Refai Nabih A. Baeshen Anis Fadhlina Mohammed Arifullah Mohammed N. Baeshen |
| author_facet | Rewaa S. Jalal Hassan I. Sheikh Mohammed T. Alotaibi Ashwag Y. Shami Ruba A. Ashy Naseebh N. Baeshen Aala A. Abulfaraj Lina Baz Mohammed Refai Nabih A. Baeshen Anis Fadhlina Mohammed Arifullah Mohammed N. Baeshen |
| author_sort | Rewaa S. Jalal |
| collection | DOAJ |
| description | Soil and plant interact differently in response to the same stress (e.g., salinity) and recruit certain bacteria. The southern corniche (Saudi Arabia) has limited plant growth, which could be due to the high temperature and salinity. The study aimed to determine the soil microbiome of selected plants and the interactions between soil and these plants. Suaeda monoica and Dipterygium glaucum soil samples were collected from the crust (surface) and rhizosphere, while soil with no plant growth from the nearby area was used as control. High-throughput hypervariable V3–V4 region of the 16S rRNA gene was used to evaluate the shifts in soil microbiome due to growth of plant growth. The analysis detected up to 16% archaeal strains in S. monoica-associated samples, while D. glaucum and control samples contained 100% bacterial strains. The top 10 phyla composition of the soil samples were Proteobacteria, Actinobacteria, Firmicutes, Gemmatimonadota, Bacteroidota, Halobacterota, Cyanobacteria, Cloroflexi, Planctomycetota, and Myxococcota. The V3–V4 region analysis successfully clustered the 5 samples into 3 clusters (control, D. glaucum, and S. monoica) at higher-order classification but not at the species level due to unidentified bacteria. The main differences between soil samples were due to halophyte S. monoica samples containing high amounts of halophilic archaea and halophilic bacteria. This showed that selected plants interacted differently with the soil. EC- and KO-based analyses of functional genes and pathways showed that 5 pathways were specific to control, 11 pathways were observed only in D. glaucum samples, 12 pathways were expressed in S. monoica samples only, and 9 pathways were common in all samples. The study also detected numerous relatively novel genera in high abundance such as Aliifodinibius, Pontibacter, and Lacunisphaera. This showed that the soil in the sampling area is not well explored and that novel species could be isolated from the soil samples and used for future research. |
| first_indexed | 2024-04-13T04:26:50Z |
| format | Article |
| id | doaj.art-6701afa638564cea9f53b2938a22bd80 |
| institution | Directory Open Access Journal |
| issn | 2296-7745 |
| language | English |
| last_indexed | 2024-04-13T04:26:50Z |
| publishDate | 2022-04-01 |
| publisher | Frontiers Media S.A. |
| record_format | Article |
| series | Frontiers in Marine Science |
| spelling | doaj.art-6701afa638564cea9f53b2938a22bd802022-12-22T03:02:28ZengFrontiers Media S.A.Frontiers in Marine Science2296-77452022-04-01910.3389/fmars.2022.865834865834The Microbiome of Suaeda monoica and Dipterygium glaucum From Southern Corniche (Saudi Arabia) Reveals Different Recruitment Patterns of Bacteria and ArchaeaRewaa S. Jalal0Hassan I. Sheikh1Mohammed T. Alotaibi2Ashwag Y. Shami3Ruba A. Ashy4Naseebh N. Baeshen5Aala A. Abulfaraj6Lina Baz7Mohammed Refai8Nabih A. Baeshen9Anis Fadhlina10Mohammed Arifullah11Mohammed N. Baeshen12College of Science, Department of Biology, University of Jeddah, Jeddah, Saudi ArabiaFaculty of Fisheries and Food Science, University Malaysia Terengganu, Kuala Nerus, MalaysiaFaculty of Science, Department of Biology, King Abdulaziz University, Jeddah, Saudi ArabiaDepartment of Biology, College of Sciences, Princess Nourah bint Abdulrahman University, Riyadh, Saudi ArabiaCollege of Science, Department of Biology, University of Jeddah, Jeddah, Saudi ArabiaCollege of Sciences and Arts, Department of Biology, University of Jeddah, Jeddah, Saudi ArabiaBiological Sciences Department, College of Science & Arts, King Abdulaziz University, Rabigh, Saudi ArabiaFaculty of Science, Department of Biochemistry, King Abdulaziz University, Jeddah, Saudi ArabiaDepartment of Biochemistry, College of Science, Jeddah, Saudi ArabiaDepartment of Biological Science, King Abdulaziz University, Jeddah, Saudi Arabia0Institute of Food Security and Sustainable Agriculture, Universiti Malaysia Kelantan, Jeli, Malaysia1Department of Agriculture Science, Faculty of Agro-Based Industry, Universiti Malaysia Kelantan, Jeli, MalaysiaCollege of Science, Department of Biology, University of Jeddah, Jeddah, Saudi ArabiaSoil and plant interact differently in response to the same stress (e.g., salinity) and recruit certain bacteria. The southern corniche (Saudi Arabia) has limited plant growth, which could be due to the high temperature and salinity. The study aimed to determine the soil microbiome of selected plants and the interactions between soil and these plants. Suaeda monoica and Dipterygium glaucum soil samples were collected from the crust (surface) and rhizosphere, while soil with no plant growth from the nearby area was used as control. High-throughput hypervariable V3–V4 region of the 16S rRNA gene was used to evaluate the shifts in soil microbiome due to growth of plant growth. The analysis detected up to 16% archaeal strains in S. monoica-associated samples, while D. glaucum and control samples contained 100% bacterial strains. The top 10 phyla composition of the soil samples were Proteobacteria, Actinobacteria, Firmicutes, Gemmatimonadota, Bacteroidota, Halobacterota, Cyanobacteria, Cloroflexi, Planctomycetota, and Myxococcota. The V3–V4 region analysis successfully clustered the 5 samples into 3 clusters (control, D. glaucum, and S. monoica) at higher-order classification but not at the species level due to unidentified bacteria. The main differences between soil samples were due to halophyte S. monoica samples containing high amounts of halophilic archaea and halophilic bacteria. This showed that selected plants interacted differently with the soil. EC- and KO-based analyses of functional genes and pathways showed that 5 pathways were specific to control, 11 pathways were observed only in D. glaucum samples, 12 pathways were expressed in S. monoica samples only, and 9 pathways were common in all samples. The study also detected numerous relatively novel genera in high abundance such as Aliifodinibius, Pontibacter, and Lacunisphaera. This showed that the soil in the sampling area is not well explored and that novel species could be isolated from the soil samples and used for future research.https://www.frontiersin.org/articles/10.3389/fmars.2022.865834/fullsoilmicrobiomeV3–V4Suaeda monoicaDipterygium glaucum |
| spellingShingle | Rewaa S. Jalal Hassan I. Sheikh Mohammed T. Alotaibi Ashwag Y. Shami Ruba A. Ashy Naseebh N. Baeshen Aala A. Abulfaraj Lina Baz Mohammed Refai Nabih A. Baeshen Anis Fadhlina Mohammed Arifullah Mohammed N. Baeshen The Microbiome of Suaeda monoica and Dipterygium glaucum From Southern Corniche (Saudi Arabia) Reveals Different Recruitment Patterns of Bacteria and Archaea Frontiers in Marine Science soil microbiome V3–V4 Suaeda monoica Dipterygium glaucum |
| title | The Microbiome of Suaeda monoica and Dipterygium glaucum From Southern Corniche (Saudi Arabia) Reveals Different Recruitment Patterns of Bacteria and Archaea |
| title_full | The Microbiome of Suaeda monoica and Dipterygium glaucum From Southern Corniche (Saudi Arabia) Reveals Different Recruitment Patterns of Bacteria and Archaea |
| title_fullStr | The Microbiome of Suaeda monoica and Dipterygium glaucum From Southern Corniche (Saudi Arabia) Reveals Different Recruitment Patterns of Bacteria and Archaea |
| title_full_unstemmed | The Microbiome of Suaeda monoica and Dipterygium glaucum From Southern Corniche (Saudi Arabia) Reveals Different Recruitment Patterns of Bacteria and Archaea |
| title_short | The Microbiome of Suaeda monoica and Dipterygium glaucum From Southern Corniche (Saudi Arabia) Reveals Different Recruitment Patterns of Bacteria and Archaea |
| title_sort | microbiome of suaeda monoica and dipterygium glaucum from southern corniche saudi arabia reveals different recruitment patterns of bacteria and archaea |
| topic | soil microbiome V3–V4 Suaeda monoica Dipterygium glaucum |
| url | https://www.frontiersin.org/articles/10.3389/fmars.2022.865834/full |
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