Detection and Molecular Characterization of Picobirnaviruses (PBVs) in the Mongoose: Identification of a Novel PBV Using an Alternative Genetic Code
Abstract
:1. Introduction
2. Materials and Methods
2.1. Ethics Statement
2.2. Sampling
2.3. Screening for PBVs
2.4. Amplification of Complete/Nearly Complete Gene Segment-2 of Mongoose PBV GI Strains
2.5. Amplification of the Nearly Full-Length RdRp Genes of a Novel PBV-Like Strain and a PBV GI Strain from the Same Fecal Sample
2.6. Nucleotide Sequencing
2.7. Sequence Analysis
2.8. GenBank Accession Numbers
3. Results and Discussion
3.1. Detection of PBVs in Mongooses
3.2. Analysis of Partial Gene Segment-2 of Mongoose PBV GI Strains
3.3. Molecular Characterization of Complete/Nearly Complete Gene Segment-2 of Mongoose PBV GI Strains
3.4. Identification of a Novel PBV-Like RdRp Gene Sequence That Uses an Alternative Genetic Code for Translation
3.5. Conclusions
Supplementary Materials
Author Contributions
Funding
Acknowledgments
Conflicts of Interest
References
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Strain | Length of Nucleotide (nt) Sequence Obtained | Putative Open Reading Frame Encoding RdRp | Length of Putative RdRp | Maximum Deduced aa Identity (%) of Putative RdRp | |
---|---|---|---|---|---|
With Other Mongoose PBV Strains 1 | With PBV Strains from Other Host Species 2, (GenBank Accession Number) | ||||
PBV-like/Mongoose/KNA/M17A/2017 | 1662 nt 3 | nt 107-nt 1639 4 | 510 aa 4 | 48% with PBV/Mongoose/KNA/M33/2017 and PBV/Mongoose/KNA/M45/2017 | 51% with PBV/Marmot/CHN/c159756/2013, (AVX53249) |
PBV/Mongoose/KNA/M17B/2017 | 1715 nt 3 | nt 47-nt 1705 | 552 aa | 64% with PBV/Mongoose/KNA/M33/2017 | 69% with PBV/Marmot/CHN/c206099/2013, (AVX53281) |
PBV/Mongoose/KNA/M33/2017 | 1701 nt 3 | nt 105-nt 1691 | 528 aa | 68% with PBV/Mongoose/KNA/M45/2017, PBV/Mongoose/KNA/M58/2017 and PBV/Mongoose/KNA/M67/2017 | 71% with PBV/Cat/KNA/K40/2014, (ASK85695) |
PBV/Mongoose/KNA/M45/2017 | 1651 nt 3 | nt 47-nt 1639 | 530 aa | 99% with PBV/Mongoose/KNA/M58/2017 and PBV/Mongoose/KNA/M67/2017 | 78% with PBV/Gorilla/COG/141-RdRp1718/2015, (AVA30701) |
PBV/Mongoose/KNA/M46/2017 | 1650 nt 3 | nt 47-nt 1636 | 529 aa | 64% with PBV/Mongoose/KNA/M33/2017 | 72% with PBV/Simian/CHN/1R/2009, (ATY68945) |
PBV/Mongoose/KNA/M58/2017 | 1689 nt 5 | nt 47-nt 1639 | 530 aa | 99% with PBV/Mongoose/KNA/M45/2017 and PBV/Mongoose/KNA/M67/2017 | 77% with PBV/Gorilla/COG/141-RdRp1718/2015, (AVA30701) |
PBV/Mongoose/KNA/M67/2017 | 1654 nt 3 | nt 47-nt 1639 | 530 aa | 99% with PBV/Mongoose/KNA/M45/2017 and PBV/Mongoose/KNA/M58/2017 | 77% with PBV/Gorilla/COG/141-RdRp1718/2015, (AVA30701) |
PBV/Mongoose/KNA/M72/2017 | 1691 nt 3 | nt 75-nt 1679 | 534 aa | 65% with PBV/Mongoose/KNA/M33/2017 | 81% with PBV/Chicken/BRA/RS/BR/15/1S-1/2015, (AXL64617) |
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Kleymann, A.; Becker, A.A.M.J.; Malik, Y.S.; Kobayashi, N.; Ghosh, S. Detection and Molecular Characterization of Picobirnaviruses (PBVs) in the Mongoose: Identification of a Novel PBV Using an Alternative Genetic Code. Viruses 2020, 12, 99. https://doi.org/10.3390/v12010099
Kleymann A, Becker AAMJ, Malik YS, Kobayashi N, Ghosh S. Detection and Molecular Characterization of Picobirnaviruses (PBVs) in the Mongoose: Identification of a Novel PBV Using an Alternative Genetic Code. Viruses. 2020; 12(1):99. https://doi.org/10.3390/v12010099
Chicago/Turabian StyleKleymann, Alyssa, Anne A. M. J. Becker, Yashpal S. Malik, Nobumichi Kobayashi, and Souvik Ghosh. 2020. "Detection and Molecular Characterization of Picobirnaviruses (PBVs) in the Mongoose: Identification of a Novel PBV Using an Alternative Genetic Code" Viruses 12, no. 1: 99. https://doi.org/10.3390/v12010099
APA StyleKleymann, A., Becker, A. A. M. J., Malik, Y. S., Kobayashi, N., & Ghosh, S. (2020). Detection and Molecular Characterization of Picobirnaviruses (PBVs) in the Mongoose: Identification of a Novel PBV Using an Alternative Genetic Code. Viruses, 12(1), 99. https://doi.org/10.3390/v12010099