Tiled-ClickSeq for targeted sequencing of complete coronavirus genomes with simultaneous capture of RNA recombination and minority variants:

Jaworski et al. eLife 2021

Moore A.J., Van Rompay K.K.A., Louie W., Watanabe J.K., An S., Leung R., Usachenko J.L., Chu P.N., Olstad K.J., McCoy C.S., Campos R.K., Weaver S.C., Rossi S.L., Coffey L.L.

(Preprint)

Rhesus macaques model human Mayaro virus disease and transmit to Aedes aegypti mosquitoes

Zhou Y., Ahearn Y.P., Lokugamage K.G., Alvarado R.E., Estes L.K., Meyers W.M., McLeland A.M., Morgan A.L., Murray J.T., Walker D.H., Johnson B.A., Routh A.L., Menachery V.D.,

(Preprint)

SARS-CoV-2 EndoU-ribonuclease regulates RNA recombination and impacts viral fitness

Lokugamage K.G., Zhou Y., Alvarado R.E., Plante J.A., Ahearn Y., Chen J., Estes L., Meyers W., Nilsson J., Routh A.L., Walker D.H., Menachery V.D., Johnson B.A.,

Convergent evolution in nucleocapsid facilitated SARS-CoV-2 adaptation for human infection

Morgan A.L., Vu M.N., Zhou Y., Lokugamage K.G., Meyers W.M., Alvarado R.E., Ahearn Y., Estes L.K., Plante J.A., Johnson B.A., Suthar M.S., Walker D.H., Plante K.S., Menachery V.D.,

The furin cleavage site is required for pathogenesis, but not transmission, of SARS-CoV-2

Vu, M. N.;  Lokugamage, K. G.;  Plante, J. A.;  Scharton, D.;  Bailey, A. O.;  Sotcheff, S.;  Swetnam, D. M.;  Johnson, B. A.;  Schindewolf, C.; Alvarado, R. E., 

QTQTN motif upstream of the furin-cleavage site plays a key role in SARS-CoV-2 infection and pathogenesis. 

Johnson B.A., Zhou Y., Lokugamage K.G., Vu M.N., Bopp N., Crocquet-Valdes P.A., Kalveram B., Schindewolf C., Liu Y., Scharton D., Plante J.A., Xie X., Aguilar P., Weaver S.C., Shi P.-Y., Walker D.H., Routh A.L., Plante K.S., Menachery V.D. 

Nucleocapsid mutations in SARS-CoV-2 augment replication and pathogenesis. 

Muruato, A.;  Vu, M. N.;  Johnson, B. A.;  Davis-Gardner, M. E.;  Vanderheiden, A.;  Lokugamage, K.;  Schindewolf, C.;  Crocquet-Valdes, P. A.;  Langsjoen, R. M.; Plante, J. A., 

Mouse-adapted SARS-CoV-2 protects animals from lethal SARS-CoV challenge. 

Johnson, B. A.;  Xie, X.;  Bailey, A. L.;  Kalveram, B.;  Lokugamage, K. G.;  Muruato, A.;  Zou, J.;  Zhang, X.;  Juelich, T.; Smith, J. K., 

Loss of furin cleavage site attenuates SARS-CoV-2 pathogenesis. 

Jaworski, E.;  Langsjoen, R. M.;  Mitchell, B.;  Judy, B.;  Newman, P.;  Plante, J. A.;  Plante, K. S.;  Miller, A. L.;  Zhou, Y.; Swetnam, D., 

Tiled-ClickSeq for targeted sequencing of complete coronavirus genomes with simultaneous capture of RNA recombination and minority variants.