Analysis of the Type 4 Effectome across the Genus Rickettsia
Abstract
:1. Introduction
2. Results and Discussion
2.1. Effector Prediction Compared to Other Rickettsiales
2.2. Analysis of Sets of Homologous Effectors across Rickettsia
2.3. Gene Fragment Analysis
2.4. G+C Content Analysis
2.5. Effector Categorization
2.5.1. Core Effectors
2.5.2. Group Specific Effectors
2.5.3. Species Specific Effectors
2.5.4. Plasmid-Borne Effectors
2.5.5. Other Effectors
2.6. Effectors in Pathogenc and Non-Pathogec Rickettsia
2.7. Arthropod Host Associated Effectors
2.8. The Relationship between R. bellii and R. felis
3. Materials and Methods
3.1. Sequences
3.2. Phylogenetic Analysis
3.3. Effector Prediction
3.4. Homolog Identification
3.5. Protein Domain Identification
3.6. Domain of Interest Identification
3.7. Comparison of G+C Content
4. Conclusions
Supplementary Materials
Author Contributions
Funding
Institutional Review Board Statement
Informed Consent Statement
Data Availability Statement
Acknowledgments
Conflicts of Interest
References
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R. bellii | R. sp. MEAM1 | R. felis | R. akari | R. rickettsii | R. montanensis | R. prowazekii | R. typhi | Total | |
---|---|---|---|---|---|---|---|---|---|
Effectors | 345 (25%) | 203 (14%) | 291 (23%) | 171 (17%) | 186 (15%) | 196 (17%) | 101 (12%) | 84 (10%) | 1571 (17%) |
Coding Genes | 1400 | 1419 * | 1257 | 1034 | 1230 | 1178 | 839 | 815 | 9021 |
R. bellii | R. sp. MEAM1 | R. felis | R. akari | R. rickettsii | R. montanensis | R. prowazekii | R. typhi | |||||||||
---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
Gene Frg | Total | Gene Frg | Total | Gene Frg | Total | Gene Frg | Total | Gene Frg | Total | Gene Frg | Total | Gene Frg | Total | Gene Frg | Total | |
EHSs | 28 (9%) | 296 | 39 (25%) | 158 | 33 (13%) | 250 | 18 (15%) | 117 | 26 (19%) | 134 | 28 (19%) | 144 | 9 (12%) | 75 | 1 (2%) | 66 |
Non-EHSs | 47 (5%) | 897 | 52 (7%) | 786 | 58 (7%) | 891 | 43 (6%) | 745 | 49 (6%) | 770 | 45 (6%) | 791 | 19 (3%) | 701 | 6 (1%) | 685 |
>300 bp | 75 (6%) | 1193 | 91 (10%) | 944 | 91 (8%) | 1141 | 61 (7%) | 862 | 75 (8%) | 904 | 73 (8%) | 935 | 28 (4%) | 776 | 7 (1%) | 751 |
<300 bp | 33 (25%) | 134 | 68 (41%) | 165 | 43 (29%) | 151 | 170 (46%) | 370 | 210 (49%) | 425 | 96 (38%) | 252 | 25 (19%) | 131 | 4 (5%) | 73 |
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Aspinwall, J.A.; Brayton, K.A. Analysis of the Type 4 Effectome across the Genus Rickettsia. Int. J. Mol. Sci. 2022, 23, 15513. https://doi.org/10.3390/ijms232415513
Aspinwall JA, Brayton KA. Analysis of the Type 4 Effectome across the Genus Rickettsia. International Journal of Molecular Sciences. 2022; 23(24):15513. https://doi.org/10.3390/ijms232415513
Chicago/Turabian StyleAspinwall, Joseph A., and Kelly A. Brayton. 2022. "Analysis of the Type 4 Effectome across the Genus Rickettsia" International Journal of Molecular Sciences 23, no. 24: 15513. https://doi.org/10.3390/ijms232415513