Unraveling nitrogen metabolism, cold and stress adaptation in polar Bosea sp. PAMC26642 through comparative genome analysis
Nitrogen metabolism, related genes, and other stress-resistance genes are poorly understood in Bosea strain. To date, most of the research work in Bosea strains has been focused on thiosulfate oxidation and arsenic reduction. This work aimed to better understand and identify genomic features that en...
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Frontiers Media S.A.
2025-01-01
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| Series: | Frontiers in Microbiology |
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| Online Access: | https://www.frontiersin.org/articles/10.3389/fmicb.2024.1505699/full |
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| author | Anamika Khanal Anamika Khanal So-Ra Han So-Ra Han So-Ra Han Jun Hyuck Lee Tae-Jin Oh Tae-Jin Oh Tae-Jin Oh Tae-Jin Oh |
| author_facet | Anamika Khanal Anamika Khanal So-Ra Han So-Ra Han So-Ra Han Jun Hyuck Lee Tae-Jin Oh Tae-Jin Oh Tae-Jin Oh Tae-Jin Oh |
| author_sort | Anamika Khanal |
| collection | DOAJ |
| description | Nitrogen metabolism, related genes, and other stress-resistance genes are poorly understood in Bosea strain. To date, most of the research work in Bosea strains has been focused on thiosulfate oxidation and arsenic reduction. This work aimed to better understand and identify genomic features that enable thiosulfate-oxidizing lichen-associated Bosea sp. PAMC26642 from the Arctic region of Svalbard, Norway, to withstand harsh environments. Comparative genomic analysis was performed using various bioinformatics tools to compare Bosea sp. PAMC26642 with other strains of the same genus, emphasizing nitrogen metabolism and stress adaptability. During genomic analysis of Bosea sp. PAMC26642, assimilatory nitrogen metabolic pathway and its associated enzymes such as nitrate reductase, NAD(P)H-nitrite reductase, ferredoxin-nitrite reductase, glutamine synthetase, glutamine synthase, and glutamate dehydrogenase were identified. In addition, carbonic anhydrase, cyanate lyase, and nitronate monooxygenase were also identified. Furthermore, the strain demonstrated nitrate reduction at two different temperatures (15°C and 25°C). Enzymes associated with various stress adaptation pathways, including oxidative stress (superoxide dismutase, catalase, and thiol peroxidase), osmotic stress (OmpR), temperature stress (Csp and Hsp), and heavy metal resistance, were also identified. The average Nucleotide Identity (ANI) value is found to be below the threshold of 94-95%, indicating this bacterium might be a potential new species. This study is very helpful in determining the diversity of thiosulfate-oxidizing nitrate-reducing bacteria, as well as their ability to adapt to extreme environments. These bacteria can be used in the future for environmental, biotechnological, and agricultural purposes, particularly in processes involving sulfur and nitrogen transformation. |
| format | Article |
| id | doaj-art-5da8a26d76354eca84e6e6647c6a1c75 |
| institution | Kabale University |
| issn | 1664-302X |
| language | English |
| publishDate | 2025-01-01 |
| publisher | Frontiers Media S.A. |
| record_format | Article |
| series | Frontiers in Microbiology |
| spelling | doaj-art-5da8a26d76354eca84e6e6647c6a1c752025-01-24T15:54:09ZengFrontiers Media S.A.Frontiers in Microbiology1664-302X2025-01-011510.3389/fmicb.2024.15056991505699Unraveling nitrogen metabolism, cold and stress adaptation in polar Bosea sp. PAMC26642 through comparative genome analysisAnamika Khanal0Anamika Khanal1So-Ra Han2So-Ra Han3So-Ra Han4Jun Hyuck Lee5Tae-Jin Oh6Tae-Jin Oh7Tae-Jin Oh8Tae-Jin Oh9Genome-Based Bio-IT Convergence Institute, Asan, Republic of KoreaBio Big Data-Based Chungnam Smart Clean Research Leader Training Program, SunMoon University, Asan, Republic of KoreaGenome-Based Bio-IT Convergence Institute, Asan, Republic of KoreaBio Big Data-Based Chungnam Smart Clean Research Leader Training Program, SunMoon University, Asan, Republic of KoreaDepartment of Life Science and Biochemical Engineering, Graduate School, SunMoon University, Asan, Republic of KoreaDivision of Life Sciences, Korea Polar Research Institute, Incheon, Republic of KoreaGenome-Based Bio-IT Convergence Institute, Asan, Republic of KoreaBio Big Data-Based Chungnam Smart Clean Research Leader Training Program, SunMoon University, Asan, Republic of KoreaDepartment of Life Science and Biochemical Engineering, Graduate School, SunMoon University, Asan, Republic of KoreaDepartment of Pharmaceutical Engineering and Biotechnology, SunMoon University, Asan, Republic of KoreaNitrogen metabolism, related genes, and other stress-resistance genes are poorly understood in Bosea strain. To date, most of the research work in Bosea strains has been focused on thiosulfate oxidation and arsenic reduction. This work aimed to better understand and identify genomic features that enable thiosulfate-oxidizing lichen-associated Bosea sp. PAMC26642 from the Arctic region of Svalbard, Norway, to withstand harsh environments. Comparative genomic analysis was performed using various bioinformatics tools to compare Bosea sp. PAMC26642 with other strains of the same genus, emphasizing nitrogen metabolism and stress adaptability. During genomic analysis of Bosea sp. PAMC26642, assimilatory nitrogen metabolic pathway and its associated enzymes such as nitrate reductase, NAD(P)H-nitrite reductase, ferredoxin-nitrite reductase, glutamine synthetase, glutamine synthase, and glutamate dehydrogenase were identified. In addition, carbonic anhydrase, cyanate lyase, and nitronate monooxygenase were also identified. Furthermore, the strain demonstrated nitrate reduction at two different temperatures (15°C and 25°C). Enzymes associated with various stress adaptation pathways, including oxidative stress (superoxide dismutase, catalase, and thiol peroxidase), osmotic stress (OmpR), temperature stress (Csp and Hsp), and heavy metal resistance, were also identified. The average Nucleotide Identity (ANI) value is found to be below the threshold of 94-95%, indicating this bacterium might be a potential new species. This study is very helpful in determining the diversity of thiosulfate-oxidizing nitrate-reducing bacteria, as well as their ability to adapt to extreme environments. These bacteria can be used in the future for environmental, biotechnological, and agricultural purposes, particularly in processes involving sulfur and nitrogen transformation.https://www.frontiersin.org/articles/10.3389/fmicb.2024.1505699/fullBosea sp.cold adaptationcomparative genomicsnitrogen metabolismGram-negative bacteria |
| spellingShingle | Anamika Khanal Anamika Khanal So-Ra Han So-Ra Han So-Ra Han Jun Hyuck Lee Tae-Jin Oh Tae-Jin Oh Tae-Jin Oh Tae-Jin Oh Unraveling nitrogen metabolism, cold and stress adaptation in polar Bosea sp. PAMC26642 through comparative genome analysis Frontiers in Microbiology Bosea sp. cold adaptation comparative genomics nitrogen metabolism Gram-negative bacteria |
| title | Unraveling nitrogen metabolism, cold and stress adaptation in polar Bosea sp. PAMC26642 through comparative genome analysis |
| title_full | Unraveling nitrogen metabolism, cold and stress adaptation in polar Bosea sp. PAMC26642 through comparative genome analysis |
| title_fullStr | Unraveling nitrogen metabolism, cold and stress adaptation in polar Bosea sp. PAMC26642 through comparative genome analysis |
| title_full_unstemmed | Unraveling nitrogen metabolism, cold and stress adaptation in polar Bosea sp. PAMC26642 through comparative genome analysis |
| title_short | Unraveling nitrogen metabolism, cold and stress adaptation in polar Bosea sp. PAMC26642 through comparative genome analysis |
| title_sort | unraveling nitrogen metabolism cold and stress adaptation in polar bosea sp pamc26642 through comparative genome analysis |
| topic | Bosea sp. cold adaptation comparative genomics nitrogen metabolism Gram-negative bacteria |
| url | https://www.frontiersin.org/articles/10.3389/fmicb.2024.1505699/full |
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