Genomic Functional Analysis of Novel Radiation-Resistant Species of Knollia sp. nov. S7-12T from the North Slope of Mount Everest
Abstract
:1. Introduction
2. Materials and Methods
2.1. Bacterial Isolation and Culture
2.2. Morphological, Physiological, and Biochemical Analysis
2.3. Chemotaxonomic Analysis
2.4. Phylogenetic Analysis
2.5. Genomic Analysis and Prediction
2.6. Radiation-Resistance Analysis
3. Results and Discussion
3.1. Phylogenetic Characterization Based on 16S rRNA Gene Sequencing
3.2. Phenotypic Characterization
3.3. Chemotaxonomic Characteristics
3.4. Radiation Resistance
3.5. Genomic Analysis
3.5.1. General Genome Features
3.5.2. COG Analysis
3.5.3. Pan-Genome Analysis
3.5.4. Horizontal Gene Transfer Analysis
4. Conclusions
Description of Knoellia glaciei sp. nov.
Supplementary Materials
Author Contributions
Funding
Data Availability Statement
Conflicts of Interest
References
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Characteristics | 1 | 2 | 3 | 4 | 5 | 6 | 7 |
---|---|---|---|---|---|---|---|
Isolation source | Moraine | Soil | Air | Soil | Pig manure | Air | Soil |
Colony Color | White | White | White | White | White | White | White |
Growth temperature (°C) range (optium) | 10–45 (30) | 28–37 (28) | 10–35 (30) | 10–35 (30) | 4–42 (28) | 15–45 (25) | 28–37 (28) |
pH range (optium) | 6–8 (7) | (5–9) | 5–9 (6–7) | 6–9 (7–8) | 4–10 | 6–8 (7) | (5–9) |
NaCl tolerance range (optium) (%, w/v) | 0–10 (1) | (4) | 0–2 (1) | 0–5 (1) | 0–5(0) | ND | (4) |
Oxidase activity | − | − | − | − | − | − | − |
Production of H2S | + | + | ND | ND | + | − | + |
Reduction of nitrate | + | + | + | ND | + | − | + |
Hydrolysis of: | |||||||
Urea | − | w | − | ND | − | − | W |
Tween 20 | + | ND | ND | ND | + | ND | ND |
Tween 80 | + | + | + | ND | + | + | + |
Gelatin | + | + | + | ND | + | + | + |
Starch | + | + | + | + | + | ND | + |
Utilization as carbon sources | |||||||
L-Arabinose | + | ND | − | ND | − | − | ND |
D-Fructose | + | + | + | + | ND | + | − |
D-Glucose | + | ND | + | + | + | − | ND |
D-Lactose | ND | ND | ND | ND | ND | − | ND |
D-Galactose | + | + | w | + | ND | + | W |
D-Mannitol | + | + | + | + | + | ND | − |
Sucrose | + | w | + | + | + | + | − |
D-xylose | W | − | w | w | ND | + | − |
Enzymatic activity | |||||||
Alkaline phosphatase | + | + | + | + | + | ND | + |
Esterase (C4) | + | + | + | + | + | ND | + |
Lip esterase (C8) | + | + | + | + | + | ND | + |
Lipase (C14) | − | w | − | + | w | ND | W |
Acid phosphatase | − | w | − | + | + | ND | W |
Naphthol-AS-BI-phosphate hydrolase | + | + | ND | + | + | ND | + |
N-acetyl-β-glucosaminase | − | − | − | − | − | − | − |
α-Mannosidase | ND | − | − | ND | ND | ND | − |
Motility | − | − | − | − | − | ND | − |
Spore formation | − | − | − | − | − | − | − |
Major fatty acids | iso-C16:0H, isoC16:0 and C17:1ω8c | i-C15:0, i-C17:0, i-C16:0 and ai-C17:0 | iso-C16:0, C17:1ω8c and iso-C15:0 | iso-C16:0, iso-C15:0 and iso-C14:0 | iso-C16:0, iso-C15:0 and C17:1ω8c | iso-C16:0, C18:0 and C18:1 | i-C15:0, i-C17:0, i-C16:0 and ai-C17:0 |
DNA G+C content (mol%) | 67.8 | 68.0–69.0 | 73.0 | 72.6 | 70.9 | 69.2 | 68.0–69.0 |
Fatty Acids (%) | 1 | 2 | 3 | 4 | 5 | 6 | 7 |
---|---|---|---|---|---|---|---|
iso-C13:0 | ND | ND | 0.6 | ND | ND | ND | ND |
C14:0 | 0.1 | ND | 0.6 | ND | 1.0 | 0.3 | 0.3 |
iso-C14:0 | 3.2 | 8.3 | 2.5 | 10.6 | 0.8 | 7.3 | 5.1 |
C15:0 | ND | 3.1 | ND | 3.9 | ND | ND | 1.7 |
iso-C15:0 | 3.3 | 15.9 | 15.5 | 12.6 | 9.0 | 11.0 | 6.4 |
anteiso-C15:0 | 0.3 | ND | 1.8 | ND | ND | 0.7 | 1.8 |
C16:0 | 0.9 | 1.2 | 1.8 | 1.4 | 5.8 | 1.3 | 2.1 |
iso-C16:0 | 26.3 | 33.6 | 20.7 | 32.6 | 13.7 | 46.6 | 37.2 |
iso-C16:1H | 17.1 | ND | 0.5 | 1.1 | ND | 1.0 | 1.6 |
C17:0 | 0.4 | 5.5 | 9.5 | 6.1 | 6.7 | 0.6 | 1.1 |
C17:0 10-methyl | ND | 3.7 | 1.0 | 9.8 | ND | 4.8 | 13.0 |
C17:1ω8c | 26.8 | 11.5 | 18.5 | 9.4 | ND | 0.6 | 6.6 |
iso-C17:0 | 0.2 | 2.1 | 4.4 | ND | 6.1 | 8.1 | 2.9 |
iso-C17:1ω9c | 0.5 | 1.7 | 2.5 | ND | ND | 11.4 | 6.2 |
anteiso-C17:0 | 0.5 | ND | 6.7 | ND | 1.8 | 1.7 | 3.2 |
anteiso-C17:1ω9c | 0.5 | ND | 1.9 | ND | ND | ND | ND |
C18:0 | 0.6 | ND | 1.1 | ND | 12.9 | ND | 2.1 |
C18:1ω5c | ND | ND | ND | ND | ND | ND | 0.8 |
C18:1ω7c | ND | ND | ND | ND | ND | ND | 1.2 |
C18:1ω9c | 9.6 | 2.1 | 5.2 | ND | ND | ND | 1.5 |
iso-C18:0 | 0.3 | 1.2 | 1.1 | ND | 2.4 | 2.1 | 2.0 |
C19:0 | ND | ND | ND | ND | ND | ND | ND |
TBSA | ND | ND | ND | ND | ND | ND | 0.7 |
C14:02-OH | ND | ND | ND | ND | ND | ND | ND |
C15:02-OH | ND | ND | ND | ND | ND | ND | ND |
C16:02-OH | ND | ND | ND | ND | ND | ND | 1.3 |
C17:03-OH | ND | ND | ND | 4.1 | ND | ND | ND |
iso-C17:03-OH | ND | ND | 3.4 | ND | ND | 1.9 | ND |
Summed Feature 3 | 5.2 | 1.6 | 1.6 | ND | ND | 1.3 | 2.1 |
Summed Feature 6 | 2.1 | 2.5 | 2.3 | ND | ND | ND | ND |
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Wang, X.; Liu, Y.; Chen, Z.; Wang, K.; Liu, G.; Chen, T.; Zhang, B. Genomic Functional Analysis of Novel Radiation-Resistant Species of Knollia sp. nov. S7-12T from the North Slope of Mount Everest. Microorganisms 2024, 12, 1748. https://doi.org/10.3390/microorganisms12091748
Wang X, Liu Y, Chen Z, Wang K, Liu G, Chen T, Zhang B. Genomic Functional Analysis of Novel Radiation-Resistant Species of Knollia sp. nov. S7-12T from the North Slope of Mount Everest. Microorganisms. 2024; 12(9):1748. https://doi.org/10.3390/microorganisms12091748
Chicago/Turabian StyleWang, Xinyue, Yang Liu, Zhiyuan Chen, Kexin Wang, Guangxiu Liu, Tuo Chen, and Binglin Zhang. 2024. "Genomic Functional Analysis of Novel Radiation-Resistant Species of Knollia sp. nov. S7-12T from the North Slope of Mount Everest" Microorganisms 12, no. 9: 1748. https://doi.org/10.3390/microorganisms12091748