Nitrate Respiration in Thermus thermophilus NAR1: from Horizontal Gene Transfer to Internal Evolution
Abstract
:1. Introduction
2. Materials and Methods
2.1. DNA Preparation and Sequencing
2.2. Genome Sequence Analysis and Assembly
2.3. Annotation of TthNAR1 Replicons
2.4. Phylogenomic Assessments
3. Results and Discussion
3.1. Sequence of the TthNAR1 Strain
3.2. The Nitrate Reductase Gene Cluster
3.3. The Respiratory Nitrate Reductase (NR) of TthNAR1 and Other Thermus spp.
3.4. A Putative Nitrate Respirasome in the NAR1 Strain
3.5. Regulation of Nitrate Respiration in TthNAR1
3.6. Genes for Nitrite Respiration in TthNAR1
3.7. Genes for NO Respiration
4. Conclusions
Supplementary Materials
Author Contributions
Funding
Acknowledgments
Conflicts of Interest
References
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Contig | Bases | Coverage | CDS | Rep. Region (CRISPR) | rRNA | tRNA | IS |
---|---|---|---|---|---|---|---|
Chromosome | 2,021,843 | 339.8 | 2220 | 0 | 6 | 51 | 70 |
pTTHNP2 | 9799 | 448.2 | 12 | 0 | 0 | 0 | 19 |
pTTHNP3 | 77,135 | 130.5 | 106 | 2 (questionable) | 0 | 0 | 102 |
pTTHNP4 | 370,865 | 464.9 | 429 | 4 | 0 | 0 | 100 |
Position | ORF | IS-Type |
---|---|---|
163912–162710 | TthNP4_176 + TthNP4_177 | ISTth4 |
167718–168215 | TthNP4_186 * | ISTth4 |
168356–168670 | TthNP4_187 * | ISTth4 |
168631–168915 | TthNP4_188 * | ISTth4 |
173562–174395 | TthNP4_192 | IS982-like |
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Sánchez-Costa, M.; Blesa, A.; Berenguer, J. Nitrate Respiration in Thermus thermophilus NAR1: from Horizontal Gene Transfer to Internal Evolution. Genes 2020, 11, 1308. https://doi.org/10.3390/genes11111308
Sánchez-Costa M, Blesa A, Berenguer J. Nitrate Respiration in Thermus thermophilus NAR1: from Horizontal Gene Transfer to Internal Evolution. Genes. 2020; 11(11):1308. https://doi.org/10.3390/genes11111308
Chicago/Turabian StyleSánchez-Costa, Mercedes, Alba Blesa, and José Berenguer. 2020. "Nitrate Respiration in Thermus thermophilus NAR1: from Horizontal Gene Transfer to Internal Evolution" Genes 11, no. 11: 1308. https://doi.org/10.3390/genes11111308