Using Reference -assisted chromosome assemblies to study chromosome structures and evolution in vertebrates

  • Larkin, Denis Mikhailovich (PI)

Project: Externally funded research

Project Details

StatusFinished
Effective start/end date06 Sept 2012 → 05 Sept 2015

Funding

  • Biotechnology and Biological Sciences Research Council (Funder reference unknown): £241,531.72

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  • Evolution of gene regulation in ruminants differs between evolutionary breakpoint regions and homologous synteny blocks

    Farré, M., Kim, J., Proskuryakova, A. A., Zhang, Y., Kulemzina, A. I., Li, Q., Zhou, Y., Xiong, Y., Johnson, J. L., Perelman, P. L., Johnson, W. E., Warren, W. C., Kukekova, A. V., Zhang, G., O'Brien, S. J., Ryder, O. A., Graphodatsky, A. S., Ma, J., Lewin, H. A. & Larkin, D. M., 13 Feb 2019, (E-pub ahead of print) In: Genome Research. 29, 4, p. 576-589 14 p.

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    21 Citations (SciVal)
    118 Downloads (Pure)

  • Chromosome-level assembly reveals extensive rearrangement in sakar falcon and budgerigar, but not ostrich, genomes

    O'Connor, R. E., Farré, M., Joseph, S., Damas, J., Kiazim, L., Jennings, R., Bennett, S., Slack, E. A., Allanson, E., Larkin, D. M. & Griffin, D. K., 24 Oct 2018, In: Genome Biology. 19, 171.

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  • Construction of Red Fox Chromosomal Fragments from the Short-Read Genome Assembly

    Rando, H. M., Farré, M., Robson, M. P., Won, N. B., Johnson, J. L., Buch, R., Bastounes, E. R., Xiang, X., Feng, S., Liu, S., Xiong, Z., Kim, J., Zhang, G., Trut, L. N., Larkin, D. M. & Kukekova, A. V., 20 Jun 2018, In: Genes. 9, 6, 308.

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  • Reconstruction of avian ancestral karyotypes reveals differences in the evolutionary history of macro- and microchromosomes

    Damas, J., Kim, J., Farré, M., Griffin, D. K. & Larkin, D. M., 05 Oct 2018, In: Genome Biology. 19, 155.

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  • Reconstruction of the diapsid ancestral genome permits chromosome evolution tracing in avian and non-avian dinosaurs

    O'Connor, R. E., Romanov, M. N., Kiazim, L. G., Barrett, P. M., Farré, M., Damas, J., Ferguson-Smith, M., Valenzuela, N., Larkin, D. M. & Griffin, D. K., 21 May 2018, In: Nature Communications. 9, 1883.

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  • Upgrading short read animal genome assemblies to chromosome level using comparative genomics and a universal probe set

    Damas, J., O'Connor, R., Farré, M., Lenis, V., Martell, H., Mandawala, A., Fowler, K., Joseph, S., Swain, M., Griffin, D. & Larkin, D. M., 01 May 2017, In: Genome Research. 27, 5, p. 875-884 10 p.

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    62 Citations (SciVal)
    145 Downloads (Pure)

  • Novel insights into chromosome evolution in birds, archosaurs, and reptiles

    Farré, M., Narayan, J., Slavov, G., Damas, J., Auvil, L., Li, C., Jarvis, E. D., Burt, D. W., Griffin, D. K. & Larkin, D. M., 31 Aug 2016, In: Genome Biology and Evolution. 8, 8, p. 2442-2451 10 p.

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  • Population structure and history of the Welsh sheep breeds determined by whole genome genotyping

    Beynon, S. E., Slavov, G. T., Farré-Belmonte, M., Sunduimijid, B., Waddams, K., Davies, B., Haresign, W., Kijas, J., Macleod, I. M., Newbold, C. J., Davies, L. & Larkin, D. M., 01 Dec 2015, In: BMC Genetics. 16, 1, 65.

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  • Comparative genomics reveals insights into avian genome evolution and adaptation

    Zhang, G., Li, C., Li, Q., Li, B., Larkin, D. M., Lee, C., Storz, J. F., Antunes, A., Greenwold, M. J., Meredith, R. W., Ödeen, A., Cui, J., Zhou, Q., Xu, L., Pan, H., Wang, Z., Jin, L., Zhang, P., Hu, H., Yang, W., & 85 othersHu, J., Xiao, J., Yang, Z., Liu, Y., Xie, Q., Yu, H., Lian, J., Wen, P., Zhang, F., Li, H., Zeng, Y., Xiong, Z., Liu, S., Zhou, L., Huang, Z., An, N., Wang, J., Zheng, Q., Xiong, Y., Wang, G., Wang, B., Wang, J., Fan, Y., da Fonseca, R. R., Alfaro-Núñez, A., Schubert, M., Orlando, L., Mourier, T., Howard, J. T., Ganapathy, G., Pfenning, A., Whitney, O., Rivas, M. V., Hara, E., Smith, J., Farré-Belmonte, M., Narayan, J., Slavov, G., Romanov, M. N., Borges, R., Machado, J. P., Khan, I., Springer, M. S., Gatesy, J., Hoffmann, F. G., Opazo, J. C., Håstad, O., Sawyer, R. H., Kim, H., Kim, K-W., Kim, H. J., Cho, S., Li, N., Huang, Y., Bruford, M. W., Zhan, X., Dixon, A., Bertelsen, M. F., Derryberry, E., Warren, W., Wilson, R. K., Li, S., Ray, D. A., Green, R. E., O'Brien, S. J., Griffin, D., Johnson, W. E., Haussler, D., Ryder, O. A., Willerslev, E., Graves, G. R., Alstrom, P., Fjeldsa, J., Mindell, D. P., Edwards, S. V., Braun, E. L., Rahbek, C., Burt, D. W., Houde, P., Zhang, Y., Yang, H., Wang, J., Jarvis, E. D., Gilbert, M. T. P. & Wang, J., 12 Dec 2014, In: Science. 346, 6215, p. 1311-1320 10 p.

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  • Genome-wide adaptive complexes to underground stresses in blind mole rats Spalax

    Fang, X., Nevo, E., Han, L., Levanon, E. Y., Zhao, J., Avivi, A., Larkin, D., Jiang, X., Feranchuk, S., Zhu, Y., Fishman, A., Feng, Y., Sher, N., Xiong, Z., Hankeln, T., Huang, Z., Gorbunova, V., Zhang, L., Zhao, W., Wildman, D. E., & 33 othersXiong, Y., Gudkov, A., Zheng, Q., Rechavi, G., Liu, S., Bazak, L., Chen, J., Knisbacher, B. A., Lu, Y., Shams, I., Gajda, K. P., Farré-Belmonte, M., Kim, J., Lewin, H. A., Ma, J., Band, M., Bicker, A., Kranz, A., Mattheus, T., Schmidt, H., Seluanov, A., Azpurua, J., Mcgowen, M. R., Ben Jacob, E., Li, K., Peng, S., Zhu, X., Liao, X., Li, S., Krogh, A., Zhou, X., Brodsky, L. & Wang, J., 03 Jun 2014, In: Nature Communications. 5, 3966.

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