Jan T Kim

2024

Phylogenomics and the rise of the angiosperms

Zuntini, A. R., Carruthers, T., Maurin, O., Bailey, P. C., Leempoel, K., Brewer, G. E., Epitawalage, N., Françoso, E., Gallego-Paramo, B., McGinnie, C., Negrão, R., Roy, S. R., Simpson, L., Toledo Romero, E., Barber, V. M. A., Botigué, L., Clarkson, J. J., Cowan, R. S., Dodsworth, S. & Johnson, M. G. & 259 others, Kim, J. T., Pokorny, L., Wickett, N. J., Antar, G. M., DeBolt, L., Gutierrez, K., Hendriks, K. P., Hoewener, A., Hu, A.-Q., Joyce, E. M., Kikuchi, I. A. B. S., Larridon, I., Larson, D. A., de Lírio, E. J., Liu, J.-X., Malakasi, P., Przelomska, N. A. S., Shah, T., Viruel, J., Allnutt, T. R., Ameka, G. K., Andrew, R. L., Appelhans, M. S., Arista, M., Ariza, M. J., Arroyo, J., Arthan, W., Bachelier, J. B., Bailey, C. D., Barnes, H. F., Barrett, M. D., Barrett, R. L., Bayer, R. J., Bayly, M. J., Biffin, E., Biggs, N., Birch, J. L., Bogarín, D., Borosova, R., Bowles, A. M. C., Boyce, P. C., Bramley, G. L. C., Briggs, M., Broadhurst, L., Brown, G. K., Bruhl, J. J., Bruneau, A., Buerki, S., Burns, E., Byrne, M., Cable, S., Calladine, A., Callmander, M. W., Cano, Á., Cantrill, D. J., Cardinal-McTeague, W. M., Carlsen, M. M., Carruthers, A. J. A., de Castro Mateo, A., Chase, M. W., Chatrou, L. W., Cheek, M., Chen, S., Christenhusz, M. J. M., Christin, P.-A., Clements, M. A., Coffey, S. C., Conran, J. G., Cornejo, X., Couvreur, T. L. P., Cowie, I. D., Csiba, L., Darbyshire, I., Davidse, G., Davies, N. M. J., Davis, A. P., van Dijk, K.-J., Downie, S. R., Duretto, M. F., Duvall, M. R., Edwards, S. L., Eggli, U., Erkens, R. H. J., Escudero, M., de la Estrella, M., Fabriani, F., Fay, M. F., Ferreira, P. D. L., Ficinski, S. Z., Fowler, R. M., Frisby, S., Fu, L., Fulcher, T., Galbany-Casals, M., Gardner, E. M., German, D. A., Giaretta, A., Gibernau, M., Gillespie, L. J., González, C. C., Goyder, D. J., Graham, S. W., Grall, A., Green, L., Gunn, B. F., Gutiérrez, D. G., Hackel, J., Haevermans, T., Haigh, A., Hall, J. C., Hall, T., Harrison, M. J., Hatt, S. A., Hidalgo, O., Hodkinson, T. R., Holmes, G. D., Hopkins, H. C. F., Jackson, C. J., James, S. A., Jobson, R. W., Kadereit, G., Kahandawala, I. M., Kainulainen, K., Kato, M., Kellogg, E. A., King, G. J., Klejevskaja, B., Klitgaard, B. B., Klopper, R. R., Knapp, S., Koch, M. A., Leebens-Mack, J. H., Lens, F., Leon, C. J., Léveillé-Bourret, É., Lewis, G. P., Li, D.-Z., Li, L., Liede-Schumann, S., Livshultz, T., Lorence, D., Lu, M., Lu-Irving, P., Luber, J., Lucas, E. J., Luján, M., Lum, M., Macfarlane, T. D., Magdalena, C., Mansano, V. F., Masters, L. E., Mayo, S. J., McColl, K., McDonnell, A. J., McDougall, A. E., McLay, T. G. B., McPherson, H., Meneses, R. I., Merckx, V. S. F. T., Michelangeli, F. A., Mitchell, J. D., Monro, A. K., Moore, M. J., Mueller, T. L., Mummenhoff, K., Munzinger, J., Muriel, P., Murphy, D. J., Nargar, K., Nauheimer, L., Nge, F. J., Nyffeler, R., Orejuela, A., Ortiz, E. M., Palazzesi, L., Peixoto, A. L., Pell, S. K., Pellicer, J., Penneys, D. S., Perez-Escobar, O. A., Persson, C., Pignal, M., Pillon, Y., Pirani, J. R., Plunkett, G. M., Powell, R. F., Prance, G. T., Puglisi, C., Qin, M., Rabeler, R. K., Rees, P. E. J., Renner, M., Roalson, E. H., Rodda, M., Rogers, Z. S., Rokni, S., Rutishauser, R., de Salas, M. F., Schaefer, H., Schley, R. J., Schmidt-Lebuhn, A., Shapcott, A., Al-Shehbaz, I., Shepherd, K. A., Simmons, M. P., Simões, A. O., Simões, A. R. G., Siros, M., Smidt, E. C., Smith, J. F., Snow, N., Soltis, D. E., Soltis, P. S., Soreng, R. J., Sothers, C. A., Starr, J. R., Stevens, P. F., Straub, S. C. K., Struwe, L., Taylor, J. M., Telford, I. R. H., Thornhill, A. H., Tooth, I., Trias-Blasi, A., Udovicic, F., Utteridge, T. M. A., Del Valle, J. C., Verboom, G. A., Vonow, H. P., Vorontsova, M. S., de Vos, J. M., Al-Wattar, N., Waycott, M., Welker, C. A. D., White, A. J., Wieringa, J. J., Williamson, L. T., Wilson, T. C., Wong, S. Y., Woods, L. A., Woods, R., Worboys, S., Xanthos, M., Yang, Y., Zhang, Y.-X., Zhou, M.-Y., Zmarzty, S., Zuloaga, F. O., Antonelli, A., Bellot, S., Crayn, D. M., Grace, O. M., Kersey, P. J., Leitch, I. J., Sauquet, H., Smith, S. A., Eiserhardt, W. L., Forest, F. & Baker, W. J., 24 Apr 2024, (E-pub ahead of print) In: Nature. 629, p. 843-850 8 p.

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2022

A Comprehensive Phylogenomic Platform for Exploring the Angiosperm Tree of Life

Kim, J. T., Baker, W. J., Bailey, P., Barber, V., Barker, A., Bellot, S., Bishop, D., R Botigué, L., Brewer, G., Carruthers, T., Clarkson, J. J., Cook, J., Cowan, R. S., Dodsworth, S., Epitawalage, N., Françoso, E. & Gallego, B., 31 Mar 2022, In: Systematic Biology. 71, 2, p. 301-319 19 p., syab035.

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Open Access

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Taming the beast: a revised classification of Cortinariaceae based on genomic data

Liimatainen, K., Kim, J. T., Pokorny, L., Kirk, P. M., Dentinger, B. & Niskanen, T., 23 Feb 2022, (E-pub ahead of print) In: Fungal Diversity. 112, 1, p. 89-170 82 p.

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Open Access

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2021

GAMUT: A Genomics Big Data Management Tool

Ramakrishnan, E. P., Gupta, S., Gadhari, R., Bharti, N., Malviya, S., Manjari Kasibhatla, S., Kim, J. T. & Joshi, R., 8 Sept 2021, In: Journal do Biosciences. 46, 7 p., 89.

Research output: Contribution to journal › Article › peer-review

2018

A Universal Probe Set for Targeted Sequencing of 353 Nuclear Genes from Any Flowering Plant Designed Using k-medoids Clustering

Johnson, M. G., Pokorny, L., Dodsworth, S., Botigué, L. R., Cowan, R. S., Devault, A., Eiserhardt, W. L., Epitawalage, N., Forest, F., Kim, J. T., Leebens-Mack, J. H., Leitch, I. J., Maurin, O., Soltis, D. E., Soltis, P. S., Wong, G.K.-S., Baker, W. J. & Wickett, N. J., 10 Dec 2018, (E-pub ahead of print) In: Systematic Biology. 68, p. 594-606 13 p.

Research output: Contribution to journal › Article › peer-review

89 Citations (Scopus)

A Roadmap for Global Synthesis of the Plant Tree of Life

Eiserhardt, W. L., Antonelli, A., Bennett, D. J., Botigué, L. R., Burleigh, J. G., Dodsworth, S., Enquist, B. J., Forest, F., Kim, J. T., Kozlov, A. M., Leitch, I. J., Maitner, B. S., Mirarab, S., Piel, W. H., Pérez-Escobar, O. A., Pokorny, L., Rahbek, C., Sandel, B., Smith, S. A. & Stamatakis, A. & 3 others, Vos, R. A., Warnow, T. & Baker, W. J., 30 Mar 2018, In: American Journal of Botany (AJB). 105, p. 1-9 9 p.

Research output: Contribution to journal › Article › peer-review

18 Citations (Scopus)

2016

Inter-Segment Complementarity in Orbiviruses: A Driver for Co-Ordinated Genome Packaging in the Reoviridae?

Boyce, M., McCrae, M. A., Boyce, P. & Kim, J. T., 1 May 2016, In: Journal of General Virology. 97, p. 1145-1157 13 p.

Research output: Contribution to journal › Article › peer-review

16 Citations (Scopus)

Dosage Compensation in the African Malaria Mosquito Anopheles gambiae

Rose, G., Krzywinska, E., Kim, J. T., Revuelta, L. & Krzywinski, J., 18 Jan 2016, In: Genome Biology and Evolution (GBE). 8, p. 411\425

Research output: Contribution to journal › Article › peer-review

24 Citations (Scopus)

2015

The Impact of Within-Herd Genetic Variation Upon Inferred Transmission Trees for Foot-and-Mouth Disease Virus

Valdazo-González, B., Kim, J. T., Soubeyrand, S., Wadsworth, J., Knowles, N. J., Haydon, D. T. & King, D. P., 2015, In: Infection, Genetics and Evolution. 32, p. 440-448 9 p.

Research output: Contribution to journal › Article › peer-review

8 Citations (Scopus)

2014