Dr Xuan Liu

Functional and Comparative Genomics

Publications

2018

Temperature Driven Changes in Benthic Bacterial Diversity Influences Biogeochemical Cycling in Coastal Sediments (Journal article)

Hicks, N., Liu, X., Gregory, R., Kenny, J., Lucaci, A., Lenzi, L., . . . Duncan, K. R. (2018). Temperature Driven Changes in Benthic Bacterial Diversity Influences Biogeochemical Cycling in Coastal Sediments. FRONTIERS IN MICROBIOLOGY, 9. doi:10.3389/fmicb.2018.01730

DOI: 10.3389/fmicb.2018.01730

Genomics of habitat choice and adaptive evolution in a deep-sea fish (Journal article)

Gaither, M. R., Gkafas, G. A., de Jong, M., Sarigol, F., Neat, F., Regnier, T., . . . Hoelzel, A. R. (2018). Genomics of habitat choice and adaptive evolution in a deep-sea fish. NATURE ECOLOGY & EVOLUTION, 2(4), 680-687. doi:10.1038/s41559-018-0482-x

DOI: 10.1038/s41559-018-0482-x

Zika Virus Infection Preferentially Counterbalances Human Peripheral Monocyte and/or NK Cell Activity (Journal article)

Lum, F. -M., Lee, D., Chua, T. -K., Tan, J. J. L., Lee, C. Y. P., Liu, X., . . . Ng, L. F. P. (2018). Zika Virus Infection Preferentially Counterbalances Human Peripheral Monocyte and/or NK Cell Activity. MSPHERE, 3(2). doi:10.1128/mSphereDirect.00120-18

DOI: 10.1128/mSphereDirect.00120-18

Increased socially mediated plasticity in gene expression accompanies rapid adaptive evolution (Journal article)

Pascoal, S., Liu, X., Fang, Y., Paterson, S., Ritchie, M. G., Rockliffe, N., . . . Bailey, N. W. (2018). Increased socially mediated plasticity in gene expression accompanies rapid adaptive evolution. ECOLOGY LETTERS, 21(4), 546-556. doi:10.1111/ele.12920

DOI: 10.1111/ele.12920

Oral iron exacerbates colitis and influences the intestinal microbiome (Journal article)

Mahalhal, A., Williams, J. M., Johnson, S., Ellaby, N., Duckworth, C. A., Burkitt, M. D., . . . Probert, C. S. (2018). Oral iron exacerbates colitis and influences the intestinal microbiome. PLOS ONE, 13(10). doi:10.1371/journal.pone.0202460

DOI: 10.1371/journal.pone.0202460

2017

Deep Sequencing of RNA from Blood and Oral Swab Samples Reveals the Presence of Nucleic Acid from a Number of Pathogens in Patients with Acute Ebola Virus Disease and Is Consistent with Bacterial Translocation across the Gut (Journal article)

Carroll, M. W., Haldenby, S., Rickett, N. Y., Palyi, B., Garcia-Dorival, I., Liu, X., . . . Hiscox, J. A. (2017). Deep Sequencing of RNA from Blood and Oral Swab Samples Reveals the Presence of Nucleic Acid from a Number of Pathogens in Patients with Acute Ebola Virus Disease and Is Consistent with Bacterial Translocation across the Gut. MSPHERE, 2(4). doi:10.1128/mSphereDirect.00325-17

DOI: 10.1128/mSphereDirect.00325-17

Transcriptomic signatures differentiate survival from fatal outcomes in humans infected with Ebola virus (Journal article)

Liu, X., Speranza, E., Munoz-Fontela, C., Haldenby, S., Rickett, N. Y., Garcia-Dorival, I., . . . Hiscox, J. A. (2017). Transcriptomic signatures differentiate survival from fatal outcomes in humans infected with Ebola virus. GENOME BIOLOGY, 18. doi:10.1186/s13059-016-1137-3

DOI: 10.1186/s13059-016-1137-3

2016

Analysis of transcriptional response to heat stress in Rhazya stricta (Journal article)

Obaid, A. Y., Sabir, J. S. M., Atef, A., Liu, X., Edris, S., El-Domyati, F. M., . . . Jansen, R. K. (2016). Analysis of transcriptional response to heat stress in Rhazya stricta. BMC PLANT BIOLOGY, 16. doi:10.1186/s12870-016-0938-6

DOI: 10.1186/s12870-016-0938-6

A barrier to homologous recombination between sympatric strains of the cooperative soil bacterium Myxococcus xanthus (Journal article)

Wielgoss, S., Didelot, X., Chaudhuri, R. R., Liu, X., Weedall, G. D., Velicer, G. J., & Vos, M. (2016). A barrier to homologous recombination between sympatric strains of the cooperative soil bacterium Myxococcus xanthus. ISME JOURNAL, 10(10), 2468-2477. doi:10.1038/ismej.2016.34

DOI: 10.1038/ismej.2016.34

Local adaptation of a bacterium is as important as its presence in structuring a natural microbial community (Journal article)

Gomez, P., Paterson, S., De Meester, L., Liu, X., Lenzi, L., Sharma, M. D., . . . Buckling, A. (2016). Local adaptation of a bacterium is as important as its presence in structuring a natural microbial community. NATURE COMMUNICATIONS, 7. doi:10.1038/ncomms12453

DOI: 10.1038/ncomms12453

Rapid evolution and gene expression: a rapidly evolving Mendelian trait that silences field crickets has widespread effects on mRNA and protein expression (Journal article)

Pascoal, S., Liu, X., Ly, T., Fang, Y., Rockliffe, N., Paterson, S., . . . Bailey, N. W. (2016). Rapid evolution and gene expression: a rapidly evolving Mendelian trait that silences field crickets has widespread effects on mRNA and protein expression. JOURNAL OF EVOLUTIONARY BIOLOGY, 29(6), 1234-1246. doi:10.1111/jeb.12865

DOI: 10.1111/jeb.12865

Copper toxicosis in non-COMMD1 Bedlington terriers is associated with metal transport gene ABCA12 (Journal article)

Haywood, S., Boursnell, M., Loughran, M. J., Trafford, J., Isherwood, D., Liu, X., . . . Carter, S. D. (2016). Copper toxicosis in non-COMMD1 Bedlington terriers is associated with metal transport gene ABCA12. JOURNAL OF TRACE ELEMENTS IN MEDICINE AND BIOLOGY, 35, 83-89. doi:10.1016/j.jtemb.2016.01.015

DOI: 10.1016/j.jtemb.2016.01.015

Revised Genome Sequence of the Purple Photosynthetic Bacterium Blastochloris viridis. (Journal article)

Liu, L. -N., Faulkner, M., Liu, X., Huang, F., Darby, A. C., & Hall, N. (2016). Revised Genome Sequence of the Purple Photosynthetic Bacterium Blastochloris viridis.. Genome announcements, 4(1). doi:10.1128/genomeA.01520-15

DOI: 10.1128/genomeA.01520-15

2015

Transcriptomic Analysis of Shiga-Toxigenic Bacteriophage Carriage Reveals a Profound Regulatory Effect on Acid Resistance in Escherichia coli (Journal article)

Veses-Garcia, M., Liu, X., Rigden, D. J., Kenny, J. G., McCarthy, A. J., & Allison, H. E. (2015). Transcriptomic Analysis of Shiga-Toxigenic Bacteriophage Carriage Reveals a Profound Regulatory Effect on Acid Resistance in Escherichia coli. APPLIED AND ENVIRONMENTAL MICROBIOLOGY, 81(23), 8118-8125. doi:10.1128/AEM.02034-15

DOI: 10.1128/AEM.02034-15

2014

Transcriptomic profiling of cartilage ageing. (Journal article)

Peffers, M. J., Liu, X., & Clegg, P. D. (2014). Transcriptomic profiling of cartilage ageing.. Genomics data, 2, 27-28. doi:10.1016/j.gdata.2014.03.001

DOI: 10.1016/j.gdata.2014.03.001

Speeding up systems biology simulations of biochemical pathways using condor (Journal article)

Liu, X., Taylor, S. J. E., Mustafee, N., Wang, J., Gao, Q., & Gilbert, D. (2014). Speeding up systems biology simulations of biochemical pathways using condor. CONCURRENCY AND COMPUTATION-PRACTICE & EXPERIENCE, 26(17), 2727-2742. doi:10.1002/cpe.3161

DOI: 10.1002/cpe.3161

2013

TRANSCRIPTOME-WIDE EXPRESSION VARIATION ASSOCIATED WITH ENVIRONMENTAL PLASTICITY AND MATING SUCCESS IN CACTOPHILICDROSOPHILA MOJAVENSIS (Journal article)

Smith, G., Fang, Y., Liu, X., Kenny, J., Cossins, A. R., de Oliveira, C. C., . . . Ritchie, M. G. (2013). TRANSCRIPTOME-WIDE EXPRESSION VARIATION ASSOCIATED WITH ENVIRONMENTAL PLASTICITY AND MATING SUCCESS IN CACTOPHILICDROSOPHILA MOJAVENSIS. Evolution, 67(7), 1950-1963. doi:10.1111/evo.12082

DOI: 10.1111/evo.12082

Transcriptomic signatures in cartilage ageing (Journal article)

Peffers, M., Liu, X., & Clegg, P. (2013). Transcriptomic signatures in cartilage ageing. Arthritis Research & Therapy, 15(4), R98. doi:10.1186/ar4278

DOI: 10.1186/ar4278

2012

From a single whole exome read to notions of clinical screening: primary ciliary dyskinesia and RSPH9 p.Lys268del in the Arabian Peninsula (Journal article)

Alsaadi, M. M., Gaunt, T. R., Boustred, C. R., Guthrie, P. A., Liu, X., Lenzi, L., . . . Day, I. N. (2012). From a single whole exome read to notions of clinical screening: primary ciliary dyskinesia and RSPH9 p.Lys268del in the Arabian Peninsula. Annals of Human Genetics, 76(3), 211-220.