Edinburgh Research Explorer

Mark Blaxter

(Former employee or visitor)

  1. 2020
  2. Infection by the castrating parasitic nematode Sphaerularia bombi changes gene expression in Bombus terrestris bumblebee queens

    Colgan, T. J., Carolan, J. C., Sumner, S., Blaxter, M. L. & Brown, M. J. F., 1 Apr 2020, In: Insect Molecular Biology. 29, 2, p. 170-182

    Research output: Contribution to journalArticlepeer-review

  3. The Genome of Caenorhabditis bovis

    Stevens, L., Rooke, S., Falzon, L. C., Machuka, E. M., Momanyi, K., Murungi, M. K., Njoroge, S. M., Odinga, C. O., Ogendo, A., Ogola, J., Fèvre, E. M. & Blaxter, M., 27 Feb 2020, In: Current Biology.

    Research output: Contribution to journalArticlepeer-review

  4. 2019
  5. Field cricket genome reveals the footprint of recent, abrupt adaptation in the wild

    Pascoal, S., Risse, J. E., Zhang, X., Blaxter, M., Cezard, T., Challis, R. J., Gharbi, K., Hunt, J., Kumar, S., Langan, E., Liu, X., Rayner, J. G., Ritchie, M. G., Snoek, B. L., Trivedi, U. & Bailey, N. W., 19 Dec 2019, In: Evolution Letters. 15 p.

    Research output: Contribution to journalArticlepeer-review

  6. Signatures of the evolution of parthenogenesis and cryptobiosis in the genomes of panagrolaimid nematodes

    Schiffer, P. H., Danchin, E. G. J., Burnell, A. M., Creevey, C. J., Wong, S., Dix, I., O'mahony, G., Culleton, B. A., Rancurel, C., Stier, G., Martínez-salazar, E. A., Marconi, A., Trivedi, U., Kroiher, M., Thorne, M. A. S., Schierenberg, E., Wiehe, T. & Blaxter, M., 22 Nov 2019, In: iScience. 21, p. 587-602

    Research output: Contribution to journalArticlepeer-review

  7. Genomic dissection of an extended phenotype: Oak galling by a cynipid gall wasp

    Hearn, J., Blaxter, M., Schönrogge, K., Nieves-aldrey, J., Pujade-villar, J., Huguet, E., Drezen, J., Shorthouse, J. D., Stone, G. N. & Copenhaver, G. P. (ed.), 4 Nov 2019, In: PLoS Genetics. 15, 11, e1008398.

    Research output: Contribution to journalArticlepeer-review

  8. Genomic architecture and introgression shape a butterfly radiation

    Edelman, N. B., Frandsen, P. B., Miyagi, M., Clavijo, B., Davey, J., Dikow, R. B., García-Accinelli, G., Van Belleghem, S. M., Patterson, N., Neafsey, D. E., Challis, R., Kumar, S., Moreira, G. R. P., Salazar, C., Chouteau, M., Counterman, B. A., Papa, R., Blaxter, M., Reed, R. D., Dasmahapatra, K. K. & 9 others, Kronforst, M., Joron, M., Jiggins, C. D., McMillan, W. O., Di Palma, F., Blumberg, A. J., Wakeley, J., Jaffe, D. & Mallet, J., 1 Nov 2019, In: Science (New York, N.Y.). 366, 6465, p. 594-599 6 p.

    Research output: Contribution to journalArticlepeer-review

  9. A chromosome-level genome assembly of Cydia pomonella provides insights into chemical ecology and insecticide resistance

    Wan, F., Yin, C., Tang, R., Chen, M., Wu, Q., Huang, C., Qian, W., Rota-stabelli, O., Yang, N., Wang, S., Wang, G., Zhang, G., Guo, J., Gu, L. ., Chen, L., Xing, L., Xi, Y., Liu, F., Lin, K., Guo, M. & 39 others, Liu, W., He, K., Tian, R., Jacquin-joly, E., Franck, P., Siegwart, M., Ometto, L., Anfora, G., Blaxter, M., Meslin, C., Nguyen, P., Dalíková, M., Marec, F., Olivares, J., Maugin, S., Shen, J., Liu, J., Guo, J., Luo, J., Liu, B., Fan, W., Feng, L., Zhao, X., Peng, X., Wang, K., Liu, L., Zhan, H., Liu, W., Shi, G., Jiang, C., Jin, J., Xian, X., Lu, S., Ye, M., Li, M., Yang, M., Xiong, R., Walters, J. R. & Li, F., 17 Sep 2019, In: Nature Communications. 10, 1

    Research output: Contribution to journalArticlepeer-review

  10. Comparative genomics of 10 new Caenorhabditis species

    Stevens, L., Félix, M., Beltran, T., Braendle, C., Caurcel, C., Fausett, S., Fitch, D., Frézal, L., Gosse, C., Kaur, T., Kiontke, K., Newton, M. D., Noble, L. M., Richaud, A., Rockman, M. V., Sudhaus, W. & Blaxter, M., 10 Apr 2019, In: Evolution Letters. 3, 2, p. 217-236

    Research output: Contribution to journalArticlepeer-review

  11. Chromosome-Wide Evolution and Sex Determination in the Three-Sexed Nematode Auanema rhodensis

    Tandonnet, S., Koutsovoulos, G. D., Adams, S., Cloarec, D., Parihar, M., Blaxter, M. L. & Pires-daSilva, A., 9 Apr 2019, In: G3: Genes | Genomes | Genetics. 9, 4, p. 1211-1230 20 p.

    Research output: Contribution to journalArticlepeer-review

  12. Genome-wide methylation is modified by caloric restriction in Daphnia magna

    Hearn, J., Pearson, M., Blaxter, M., Wilson, P. J. & Little, T. J., 8 Mar 2019, In: BMC Genomics. 20, 1, p. 197 11 p.

    Research output: Contribution to journalArticlepeer-review

  13. Secretion of an Argonaute protein by a parasitic nematode and the evolution of its siRNA guides

    Chow, F. W. N., Koutsovoulos, G., Ovando-Vázquez, C., Neophytou, K., Bermúdez-Barrientos, J. R., Laetsch, D. R., Robertson, E., Kumar, S., Claycomb, J., Blaxter, M., Abreu-Goodger, C. & Buck, A., 1 Mar 2019, In: Nucleic Acids Research. 13 p.

    Research output: Contribution to journalArticlepeer-review

  14. Dissection of ramularia leaf spot disease by integrated analysis of barley and ramularia collo-cygni transcriptome responses

    Sjokvist, E., Lemcke, R., Kamble, M., Turner, F., Blaxter, M., Havis, N. H. D., Lyngkjær, M. F. & Radutoiu, S., 1 Feb 2019, In: Molecular Plant-Microbe Interactions. 32, 2, p. 176-193 18 p.

    Research output: Contribution to journalArticlepeer-review

  15. Comparative Epigenomics Reveals that RNA Polymerase II Pausing and Chromatin Domain Organization Control Nematode piRNA Biogenesis

    Beltran, T., Barroso, C., Birkle, T. Y., Stevens, L., Schwartz, H. T., Sternberg, P. W., Fradin, H., Gunsalus, K., Piano, F., Sharma, G., Cerrato, C., Ahringer, J., Martínez-Pérez, E., Blaxter, M. & Sarkies, P., 31 Jan 2019, In: Developmental Cell. 48, 24 p.

    Research output: Contribution to journalArticlepeer-review

  16. Comparative genomics of the major parasitic worms

    International Helminth Genomes Consortium, 1 Jan 2019, In: Nature Genetics. 51, 1, p. 163-174 12 p.

    Research output: Contribution to journalArticlepeer-review

  17. 2018
  18. Molecular palaeontology illuminates the evolution of ecdysozoan vision

    Fleming, J. F., Kristensen, R. M., Sørensen, M. V., Park, T-Y. S., Arakawa, K., Blaxter, M., Rebecchi, L., Guidetti, R., Williams, T. A., Roberts, N. W., Vinther, J. & Pisani, D., 5 Dec 2018, In: Proceedings of the Royal Society B-Biological Sciences. 285, 1892

    Research output: Contribution to journalArticlepeer-review

  19. Characterisation of the British honey bee metagenome

    Regan, T., Barnett, M. W., Laetsch, D. R., Bush, S. J., Wragg, D., Budge, G. E., Highet, F., Dainat, B., De Miranda, J. R., Watson, M., Blaxter, M. & Freeman, T. C., 26 Nov 2018, In: Nature Communications. 9, 1, 13 p., 4995(2018).

    Research output: Contribution to journalArticlepeer-review

  20. Functional insights into the infective larval stage of Anisakis simplex s.s., Anisakis pegreffii and their hybrids based on gene expression patterns

    Llorens, C., Arcos, S. C., Robertson, L., Ramos, R., Futami, R., Soriano, B., Ciordia, S., Careche, M., González-Muñoz, M., Jiménez-Ruiz, Y., Carballeda-Sangiao, N., Moneo, I., Albar, J. P., Blaxter, M. & Navas, A., 7 Aug 2018, In: BMC Genomics. 19, 1, p. 592 21 p.

    Research output: Contribution to journalArticlepeer-review

  21. The ash dieback invasion of Europe was founded by two genetically divergent individuals

    McMullan, M., Rafiqi, M., Kaithakottil, G., Clavijo, B. J., Bilham, L., Orton, E., Percival-Alwyn, L., Ward, B. J., Edwards, A., Saunders, D. G. O., Garcia Accinelli, G., Wright, J., Verweij, W., Koutsovoulos, G., Yoshida, K., Hosoya, T., Williamson, L., Jennings, P., Ioos, R., Husson, C. & 11 others, Hietala, A. M., Vivian-Smith, A., Solheim, H., MaClean, D., Fosker, C., Hall, N., Brown, J. K. M., Swarbreck, D., Blaxter, M., Downie, J. A. & Clark, M. D., 23 Apr 2018, In: Nature Ecology & Evolution. 12 p.

    Research output: Contribution to journalArticlepeer-review

  22. Improving the annotation of the Heterorhabditis bacteriophora genome

    Mclean, F., Berger, D., Laetsch, D. R., Schwartz, H. T. & Blaxter, M., 2 Apr 2018, In: GigaScience. 7, 4

    Research output: Contribution to journalArticlepeer-review

  23. Daphnia magna microRNAs respond to nutritional stress and ageing but are not transgenerational

    Hearn, J., Chow, F. W. N., Barton, H., Tung, M., Wilson, P. J., Blaxter, M., Buck, A. & Little, T. J., 7 Mar 2018, In: Molecular Ecology. 27, 6, p. 1402-1412 11 p.

    Research output: Contribution to journalArticlepeer-review

  24. Sex- and Gamete-Specific Patterns of X Chromosome Segregation in a Trioecious Nematode

    Tandonnet, S., Farrell, M. C., Koutsovoulos, G. D., Blaxter, M. L., Parihar, M., Sadler, P. L., Shakes, D. C. & Pires-daSilva, A., 8 Jan 2018, In: Current biology : CB. 28, 1, p. 93-99.e3 11 p.

    Research output: Contribution to journalArticlepeer-review

  25. 2017
  26. Genome comparisons indicate recent transfer of wRi-like Wolbachia between sister species Drosophila suzukii and D. subpulchrella

    Conner, W. R., Blaxter, M. L., Anfora, G., Ometto, L., Rota-Stabelli, O. & Turelli, M., 8 Oct 2017, In: Ecology and Evolution. 7, 22, p. 9391-9404 14 p.

    Research output: Contribution to journalArticlepeer-review

  27. KinFin: Software for Taxon-Aware Analysis of Clustered Protein Sequences

    Laetsch, D. R. & Blaxter, M. L., 5 Oct 2017, In: G3: Genes | Genomes | Genetics. 7, 10, p. 3349-3357 9 p.

    Research output: Contribution to journalArticlepeer-review

  28. Comparative Genomics of Apomictic Root-Knot Nematodes: Hybridization, Ploidy, and Dynamic Genome Change

    Szitenberg, A., Salazar-Jaramillo, L., Blok, V. C., Laetsch, D. R., Joseph, S., Williamson, V. M., Blaxter, M. L. & Lunt, D. H., 1 Oct 2017, In: Genome Biology and Evolution. 9, 10, p. 2844-2861 18 p.

    Research output: Contribution to journalArticlepeer-review

  29. Toward universal forward genetics: Using a draft genome sequence of the nematode oscheius tipulae to identify mutations affecting vulva development

    Besnard, F., Koutsovoulos, G., Dieudonné, S., Blaxter, M. & Félix, M. A., 1 Aug 2017, In: Genetics. 206, 4, p. 1747-1761 15 p.

    Research output: Contribution to journalArticlepeer-review

  30. BlobTools: Interrogation of genome assemblies

    Laetsch, D. R. & Blaxter, M. L., 31 Jul 2017, In: F1000Research. 6, 16 p., 1287.

    Research output: Contribution to journalArticlepeer-review

  31. Comparative genomics of the tardigrades Hypsibius dujardini and Ramazzottius varieornatus

    Yoshida, Y., Koutsovoulos, G., Laetsch, D. R., Stevens, L., Kumar, S., Horikawa, D. D., Ishino, K., Komine, S., Kunieda, T., Tomita, M., Blaxter, M. & Arakawa, K., 27 Jul 2017, In: PLoS Biology. 15, 7, 39 p., e2002266.

    Research output: Contribution to journalArticlepeer-review

  32. A high-coverage draft genome of the mycalesine butterfly Bicyclus anynana

    Nowell, R. W., Elsworth, B., Oostra, V., Zwaan, B. J., Wheat, C. W., Saastamoinen, M., Saccheri, I. J., Van’t Hof, A. E., Wasik, B. R., Connahs, H., Aslam, M. L., Kumar, S., Challis, R. J., Monteiro, A., Brakefield, P. M. & Blaxter, M., 1 Jul 2017, In: GigaScience. 6, 7, p. 1-7 7 p.

    Research output: Contribution to journalArticlepeer-review

  33. GenomeHubs: simple containerized setup of a custom Ensembl database and web server for any species

    Challis, R. J., Kumar, S., Stevens, L. & Blaxter, M., 15 May 2017, In: Database: The Journal of Biological Databases and Curation. 2017, 9 p.

    Research output: Contribution to journalArticlepeer-review

  34. Caenorhabditis monodelphis sp. n.: defining 1 the stem morphology 2 and genomics of the genus Caenorhabditis

    Slos, D., Sudhaus, W., Stevens, L., Bert, W. & Blaxter, M., 23 Feb 2017, In: BMC Zoology. 2, 24

    Research output: Contribution to journalArticlepeer-review

  35. Annotated mitochondrial genome with Nanopore R9 signal for Nippostrongylus brasiliensis

    Chandler, J., Camberis, M., Bouchery, T., Blaxter, M., Le Gros, G. & Eccles, D. A., 19 Jan 2017, In: F1000Research. 6, p. 56

    Research output: Contribution to journalArticlepeer-review

  36. 2016
  37. Genetic drift, not life history or RNAi, determine long term evolution of transposable elements

    Blaxter, M., Szitenberg, A., Cha, S., Opperman, C. H., Bird, D. M. & Lunt, D. H., 26 Aug 2016, In: Genome Biology and Evolution.

    Research output: Contribution to journalArticlepeer-review

  38. The genome of the emerging barley pathogen Ramularia collo-cygni

    Mcgrann, G. R. D., Andongabo, A., Sjökvist, E., Trivedi, U., Dussart, F., Kaczmarek, M., Mackenzie, A., Fountaine, J. M., Taylor, J. M. G., Paterson, L. J., Gorniak, K., Burnett, F., Kanyuka, K., Hammond-kosack, K. E., Rudd, J. J., Blaxter, M. & Havis, N. D., 9 Aug 2016, In: BMC Genomics. 17, 1, 584.

    Research output: Contribution to journalArticlepeer-review

  39. Imagining Sisyphus happy: DNA barcoding and the unnamed majority

    Blaxter, M., 1 Aug 2016, In: Philosophical Transactions of the Royal Society B: Biological Sciences. 371, 1702, 9 p.

    Research output: Contribution to journalArticlepeer-review

  40. Stage-specific proteomes from Onchocerca ochengi, sister species of the human river blindness parasite, uncover adaptations to a nodular lifestyle

    Armstrong, S. D., Xia, D., Bah, G. S., Krishna, R., Ngangyung, H. F., LaCourse, E. J., McSorley, H. J., Kengne-Ouafo, J. A., Chounna-Ndongmo, P. W., Wanji, S., Enyong, P. A., Taylor, D. W., Blaxter, M. L., Wastling, J. M., Tanya, V. N. & Makepeace, B. L., Aug 2016, In: Molecular and Cellular Proteomics.

    Research output: Contribution to journalArticlepeer-review

  41. Para-allopatry in hybridizing fire-bellied toads (Bombina bombina and B. variegata): Inference from transcriptome-wide coalescence analyses

    Nürnberger, B., Lohse, K., Fijarczyk, A., Szymura, J. M. & Blaxter, M. L., 8 Jul 2016, In: Evolution. 57 p.

    Research output: Contribution to journalArticlepeer-review

  42. A molecular palaeobiological exploration of arthropod terrestrialization

    Lozano-Fernandez, J., Carton, R., Tanner, A. R., Puttick, M. N., Blaxter, M., Vinther, J., Olesen, J., Giribet, G., Edgecombe, G. D. & Pisani, D., 20 Jun 2016, In: Philosophical Transactions of the Royal Society B: Biological Sciences. 371, 1699

    Research output: Contribution to journalArticlepeer-review

  43. The genome of the yellow potato cyst nematode, Globodera rostochiensis, reveals insights into the bases of parasitism and virulence

    Eves-van den Akker, S., Laetsch, D. R. & Blaxter, M., 10 Jun 2016, In: Genome Biology. 17, 124, 23 p.

    Research output: Contribution to journalArticlepeer-review

  44. Characterization of the mantle transcriptome in bivalves: Pecten maximus, Mytilus edulis and Crassostrea gigas: Pecten maximus, Mytilus edulis and Crassostrea gigas

    Yarra, T., Gharbi, K., Blaxter, M., Peck, L. S. & Clark, M. S., 1 Jun 2016, In: Marine Genomics. 27, June 2016, p. 9-15 7 p.

    Research output: Contribution to journalArticlepeer-review

  45. How many biological replicates are needed in an RNA-seq experiment and which differential expression tool should you use?

    Schurch, N. J., Schofield, P., Gierliński, M., Cole, C., Sherstnev, A., Singh, V., Wrobel, N., Gharbi, K., Simpson, G. G., Owen-Hughes, T., Blaxter, M. & Barton, G. J., 1 Jun 2016, In: RNA. 22, 6, p. 839-851 13 p.

    Research output: Contribution to journalLetterpeer-review

  46. Reminder to deposit DNA sequences

    Blaxter, M., Danchin, A., Savakis, B., Fukami-Kobayashi, K., Kurokawa, K., Sugano, S., Roberts, R. J., Salzberg, S. L. & Wu, C. I., 13 May 2016, In: Science. 352, 6287, p. 780 1 p.

    Research output: Contribution to journalLetterpeer-review

  47. No evidence for extensive horizontal gene transfer in the genome of the tardigrade Hypsibius dujardini

    Koutsovoulos, G., Kumar, S., Laetsch, D. R., Stevens, L., Daub, J., Conlon, C., Maroon, H., Thomas, F., Aboobaker, A. A. & Blaxter, M., 3 May 2016, In: Proceedings of the National Academy of Sciences. 113, 18, p. 5053-5058 6 p.

    Research output: Contribution to journalArticlepeer-review

  48. Formin is Associated with Left-Right Asymmetry in the Pond Snail and the Frog

    Davison, A., McDowell, G. S., Holden, J. M., Johnson, H. F., Koutsovoulos, G. D., Liu, M. M., Hulpiau, P., Van Roy, F., Wade, C. M., Banerjee, R., Yang, F., Chiba, S., Davey, J. W., Jackson, D. J., Levin, M. & Blaxter, M. L., 7 Mar 2016, In: Current biology : CB. 26, 5, p. 654-660 7 p.

    Research output: Contribution to journalArticlepeer-review

  49. A supergene determines highly divergent male reproductive morphs in the ruff

    Küpper, C., Stocks, M., Risse, J. E., Dos Remedios, N., Farrell, L. L., McRae, S. B., Morgan, T. C., Karlionova, N., Pinchuk, P., Verkuil, Y. I., Kitaysky, A. S., Wingfield, J. C., Piersma, T., Zeng, K., Slate, J., Blaxter, M., Lank, D. B. & Burke, T., 1 Jan 2016, In: Nature Genetics. 48, p. 79-83 5 p.

    Research output: Contribution to journalArticlepeer-review

  50. 2015
  51. A single chromosome assembly of Bacteroides fragilis strain BE1 from Illumina and MinION nanopore sequencing data

    Risse, J., Thomson, M., Patrick, S., Blakely, G., Koutsovoulos, G., Blaxter, M. & Watson, M., 4 Dec 2015, In: GigaScience. 4, 1, p. 60

    Research output: Contribution to journalArticlepeer-review

  52. Supergroup C Wolbachia, mutualist symbionts of filarial nematodes, have a distinct genome structure

    Comandatore, F., Cordaux, R., Bandi, C., Blaxter, M., Darby, A., Makepeace, B. L., Montagna, M. & Sassera, D., 1 Dec 2015, In: Open Biology. 5, 12, 150099.

    Research output: Contribution to journalArticlepeer-review

  53. A metagenetic approach to determine the diversity and distribution of cyst nematodes at the level of the country, the field and the individual

    Eves-van den Akker, S., Lilley, C. J., Reid, A., Pickup, J., Anderson, E., Cock, P. J. A., Blaxter, M., Urwin, P. E., Jones, J. T. & Blok, V. C., Dec 2015, In: Molecular Ecology. 24, 23, p. 5842-5851 10 p.

    Research output: Contribution to journalArticlepeer-review

  54. Oviposition but not sex allocation is associated with transcriptomic changes in females of the parasitoid wasp Nasonia vitripennis

    Cook, N., Trivedi, U., Pannebakker, B. A., Blaxter, M., Ritchie, M. G., Tauber, E., Sneddon, T. & Shuker, D. M., Dec 2015, In: G3: Genes | Genomes | Genetics. 5, 12, p. 2885-2892 8 p.

    Research output: Contribution to journalArticlepeer-review

  55. ReproPhylo: An environment for reproducible Phylogenomics

    Szitenberg, A., John, M., Blaxter, M. L. & Lunt, D. H., 3 Sep 2015, In: PLoS Computational Biology. 11, 9, 13 p., 1004447.

    Research output: Contribution to journalArticlepeer-review

  56. Statistical models for RNA-seq data derived from a two-condition 48-replicate experiment

    Gierliński, M., Cole, C., Schofield, P., Schurch, N. J., Sherstnev, A., Singh, V., Wrobel, N., Gharbi, K., Simpson, G., Owen-Hughes, T., Blaxter, M. & Barton, G. J., 23 Jul 2015, In: Bioinformatics.

    Research output: Contribution to journalArticlepeer-review

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