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Dr John Mulley

Senior Lecturer in Zoology (Molecular Ecology)

j.mulley@bangor.ac.uk

+44 1248 383492

0000-0002-1537-7316

Dr John Mulley

View Dr John Mulley’s profile on the Bangor Research Portal

Overview

Evo-Devo@Bangor

My main research interest is in the way that genomic changes have influenced animal evolution and development. Current research projects focus on the GC-biased mutation in desert rodents, snake venom evolution, and the mechanisms by which the uterine environment can change gene expression in the embryo.

Additional Contact Information

Location: Room E1, 4th floor Brambell Building

Telephone: +44 (0)1248 383492

Personal webpage: www.johnmulley.com

Twitter: @JohnMulley

Qualifications

  • DPhil: The Evolution of Vertebrate ParaHox Genes
    Oxford University, 2007
  • MSc: Biosystematics
    Imperial College London, 2003
  • BSc: Genetics
    University of Liverpool, 2002

Postgraduate Project Opportunities

Comparative genomics

I have a long-standing interest in vertebrate genome evolution, especially as it relates to gene and genome duplication, and/or the evolution of novelty. Whole genome duplications look likely to have played a significant role in the evolution of vertebrates, and particularly the development of vertebrate innovations, and gene duplication has been an important factor in the origin and diversification of snake venom.

Postgraduate opportunities in this area relate to the evolution of vertebrate homeobox genes; GC-biased mutation in desert rodents; and snake venom evolution, taking advantage of recent advances in long-read sequencing and techniques for the assembly of chromosome-scale genome assemblies such as Hi-C.

Evolution and Development (Evo-Devo)

Changes to embryonic development can have major effects on adult morphology, and the evolution of developmental processes has been a major driver of animal evolution.

Postgraduate opportunities in this area relate to my current research into vertebrate axial patterning, and particularly how the uterine environment might influence numbers and types of vertebrae in mouse models. These projects would require management of rodent breeding programs; collection of embryos; antibody-based hormones assays, and gene/protein expression studies. There is scope for expansion of this research into studies of human and non-human primate vertebral variation.  

Snake venom evolution

The availability of whole genome sequences for multiple snake species is providing unprecedented insight into the processes underlying the origin and diversification of snake venom. Bangor University is one of the few Universities in the UK that maintains a collection of venomous snakes, and this invaluable resource facilitates research into the genetic factors responsible for inter- and intra-species variation in snake venom composition.

Postgraduate opportunities in this area relate to the determination of the gene and genome level mechanisms that drive variation in venom composition within and between species.

Publications

2025

  • PublishedA reliance on human habitats is key to the success of an introduced predatory reptile
    Major, T., Jeffrey, L., Limia Russel, G., Bracegirdle, R., Gandini, A., Morgan, R., Marshall, B., Mulley, J. & Wüster, W., 5 Feb 2025, In: PLoS ONE. 20, 2, p. e0310352 22 p.
    Research output: Contribution to journal › Article › peer-review
  • PublishedThe genome sequence of the common adder, Vipera berus (Linnaeus, 1758): [version 1; peer review: awaiting peer review]
    Owens, J. B., Wüster, W., Mulley, J., Graham, S., Morgan, R. & Barlow, A., 14 Jan 2025, In: Wellcome Open Research . 10, 11, 13 p.
    Research output: Contribution to journal › Article

2024

  • PublishedA reliance on human habitats is key to the success of an introduced predatory reptile
    Major, T., Jeffrey, L., Limia Russel, G., Bracegirdle, R., Gandini, A., Morgan, R., Marshall, B. M., Mulley, J. & Wüster, W., 3 Sept 2024, BioRxiv, 29 p.
    Research output: Working paper › Preprint
  • PublishedThe sensory shark: high-quality morphological, genomic and transcriptomic data for the small-spotted catshark Scyliorhinus canicula reveal the molecular bases of sensory organ evolution in jawed vertebrates
    Mayeur, H., Leyhr, J., Mulley, J., Leurs, N., Michel, L., Sharma, K., Lagadec, R., Aury, J.-M., Osborne, O. G., Mulhair, P., Poulain, J., Mangenot, S., Mead, D., Smith, M., Corton, C., Olive, K., Skelton, J., Betteridge, E., Dolucan, J. & Dudchenko, O. & 17 others, Omer, A. D., Weisz, D., Aiden, E. L., McCarthy, S., Sims, Y., Torrance, J., Tracey, A., Howe, K., Baril, T., Hayward, A., Martinand-Mari, C., Sanchez, S., Haitina, T., Martin, K., Korsching, S. I., Mazan, S. & Debiais-Thibaud, M., 6 Dec 2024, In: Molecular Biology and Evolution. 41, 12
    Research output: Contribution to journal › Article › peer-review

2023

  • PublishedA new chromosome-assigned Mongolian gerbil genome allows characterization of complete centromeres and a fully heterochromatic chromosome
    Brekke, T. D., Papadopulos, A. S. T., Julia, E., Fornas, O., Fu, B., Yang, F., de la Fuente, R., Page, J., Baril, T., Hayward, A. & Mulley, J., May 2023, In: Molecular Biology and Evolution. 40, 5, msad115.
    Research output: Contribution to journal › Article › peer-review
  • PublishedIncubation temperature alters stripe formation and head colouration in American alligator hatchlings and is unaffected by estradiol-induced sex reversal
    Rogerson, G., Bock, S., Loera, Y., Parrott, B. & Mulley, J., 31 Mar 2023, In: Journal of Experimental Biology. 226, 6, jeb245219.
    Research output: Contribution to journal › Article › peer-review
  • PublishedMate today, gone tomorrow: male-on-female cannibalism in Zamenis longissimus (Laurenti, 1768) in North Wales
    Major, T., Bracegirdle, R., Gandini, A., Limia Russel, G., Pozzi, A., Morgan, R., Mulley, J. & Wüster, W., 17 Jan 2023, In: Herpetology Notes. 16, p. 51-54 4 p.
    Research output: Contribution to journal › Article › peer-review
  • PublishedShed skin as a source of DNA for genotyping-by-sequencing (GBS) in reptiles
    Brekke, T. D., Shier, L., Hegarty, M. J. & Mulley, J., Sept 2023, In: Conservation Genetics Resources. 15, 3, p. 117-124 8 p.
    Research output: Contribution to journal › Article › peer-review
  • PublishedThe genome of Roselle's flesh fly Sarcophaga (Helicophagella) rosellei (Böttcher, 1912)
    Falk, S. & Mulley, J., 31 Jan 2023, In: Wellcome Open Research . 8, 43, p. 43
    Research output: Contribution to journal › Article › peer-review
  • PublishedThe genome sequence of Ashworth’s Rustic, Xestia ashworthii (Doubleday, 1855)
    Mulley, J., Lees, D., programme, W. S. I. T. O. L. & Consortium, D. T. O. L., 20 Dec 2023, In: Wellcome Open Research . 8, 578
    Research output: Contribution to journal › Article › peer-review
  • PublishedThe genome sequence of Philonthus cognatus (Stephens, 1832) (Coleoptera, Staphylinidae), a rove beetle.
    Crowley, L. M., Telfer, M., Geiser, M. & Mulley, J., 13 Apr 2023, Wellcome Open research, p. 169, (Wellcome open research).
    Research output: Working paper › Preprint
  • PublishedThe genome sequence of the Birch Marble, Apotomis betuletana (Haworth, 1811)
    Mulley, J. & Boyes, D., 9 Feb 2023, In: Wellcome Open Research . 8, p. 66
    Research output: Contribution to journal › Article › peer-review
  • PublishedThe genome sequence of the bluish flesh fly, Sarcophaga (Robineauella) caerulescens (Zetterstedt, 1838)
    Falk, S. & Mulley, J., 12 Jan 2023, In: Wellcome Open Research . 8, 17
    Research output: Contribution to journal › Article › peer-review
  • PublishedThe genome sequence of the Common Pug, Eupithecia vulgata (Haworth, 1809)
    Boyes, D., Mulley, J. F. & Consortium, D. T. O. L., 23 Mar 2023, In: Wellcome Open Research. 8, 129, p. 129 1 p.
    Research output: Contribution to journal › Article › peer-review
  • PublishedThe genome sequence of the Dark Arches Apamea monoglypha (Hufnagel, 1766)
    Boyes, D. & Mulley, J., 8 Feb 2023, In: Wellcome Open Research . 8, 63.
    Research output: Contribution to journal › Article › peer-review
  • PublishedThe genome sequence of the lesser worm flesh fly, Sarcophaga ( Sarcophaga) subvicina (Baranov, 1937).
    Falk, S. & Mulley, J., 8 Feb 2023, In: Wellcome Open Research . 8, 65, p. 65
    Research output: Contribution to journal › Article › peer-review
  • PublishedThe genome sequence of the Riband Wave, Idaea aversata (Linnaeus, 1758)
    Boyes, D. & Mulley, J., 31 Jan 2023, In: Wellcome Open Research . 8, 45
    Research output: Contribution to journal › Article › peer-review
  • PublishedThe genome sequence of the short-fringed mining bee, Andrena dorsata (Kirby, 1802)
    Falk, S., Mulley, J. F. & Consortium, D. T. O. L., 30 Aug 2023, In: Wellcome Open Research. 8, 373
    Research output: Contribution to journal › Article › peer-review
  • PublishedThe genome sequence of the Six-striped Rustic, Xestia sexstrigata (Haworth, 1809)
    Boyes, D., Mulley, J., collective, D. T. O. L. B. & programme, W. S. I. T. O. L., 8 Sept 2023, In: Wellcome Open Research . 8, 399
    Research output: Contribution to journal › Article › peer-review
  • PublishedThe genome sequence of the Small Emerald, Hemistola chrysoprasaria (Esper, 1795)’
    Boyes, D., Mulley, J., collective, D. T. O. L. B. & programme, W. S. I. T. O. L., 12 Oct 2023, In: Wellcome Open Research . 8, 441
    Research output: Contribution to journal › Article › peer-review
  • PublishedThe genome sequence of the Tawny Mining Bee, Andrena fulva (Müller, 1766)
    Crowley, L. M., Mulley, J. F., Lab, U. O. O. A. W. W. G. A., collective, D. T. O. L. B., programme, W. S. I. T. O. L., collective, W. S. I. S. O. D. P., collective, T. O. L. C. I. & Consortium, D. T. O. L., 21 Jun 2023, In: Wellcome Open Research. 8, 258
    Research output: Contribution to journal › Article › peer-review
  • PublishedThe genome sequence of the variegated flesh fly, Sarcophaga variegata (Scopoli, 1763)
    Falk, S. & Mulley, J., 2 Jun 2023, Wellcome Open research, p. 234, (Wellcome open research).
    Research output: Working paper › Preprint

2022

  • PublishedRegulation of posterior Hox genes by sex steroids explains vertebral variation in inbred mouse strains
    Mulley, J., Apr 2022, In: Journal of Anatomy. 240, 4, p. 735-745 11 p.
    Research output: Contribution to journal › Review article › peer-review
  • PublishedThe genome sequence of the hawthorn shieldbug, Acanthosoma haemorrhoidale (Linnaeus, 1758)
    Crowley, L. M. & Mulley, J., 5 Jul 2022, Wellcome Open Research , 7, 178, p. 178 1 p.
    Research output: Contribution to specialist publication › Article

2020

  • PublishedHow and why do primate vertebral columns vary? An investigation of intra- and interspecific variation and how it links to locomotor behaviour
    Payne, M., Mulley, J. & Winder, I. C., Apr 2020.
    Research output: Contribution to conference › Abstract › peer-review
  • PublishedRunaway GC evolution in gerbil genomes
    Parcana, R., Hargreaves, A. D., Mulley, J. & Holland, P. W. H., 1 Aug 2020, In: Molecular Biology and Evolution. 37, 8, p. 2197-2210 msaa072.
    Research output: Contribution to journal › Article › peer-review

2019

  • PublishedA high-density genetic map and molecular sex-typing assay for gerbils
    Brekke, T., Mulley, J., Steele, K., Denver, M., Thom, A. & Supriya, S., Apr 2019, In: Mammalian Genome. 30, 3-4, p. 63-70 8 p.
    Research output: Contribution to journal › Article › peer-review
  • PublishedAre locomotive styles in primates a driving force behind intra- and interspecies variation in the vertebral column?
    Payne, M., Winder, I. C. & Mulley, J., 18 Dec 2019.
    Research output: Contribution to conference › Poster › peer-review
  • PublishedGreater Loss of Female Embryos During Human Pregnancy: A Novel Mechanism
    Mulley, J. F., Nov 2019, In: BioEssays : news and reviews in molecular, cellular and developmental biology. 41, 11
    Research output: Contribution to journal › Article › peer-review
  • PublishedWhen one phenotype is not enough: divergent evolutionary trajectories govern venom variation in a widespread rattlesnake species
    Zancolli, G., Calvete, J. J., Cardwell, M. D., Greene, H. W., Hayes, W. K., Hegarty, M. J., Herrmann, H.-W., Holycross, A. T., Lannutti, D. I., Mulley, J. F., Sanz, L., Travis, Z. D., Whorley, J. R., Wuster, C. E. & Wuster, W., 13 Mar 2019, In: Proceedings of the Royal Society B: Biological Sciences. 286, 1898, p. 20182735
    Research output: Contribution to journal › Article › peer-review

2018

  • PublishedInbred or Outbred? Genetic Diversity in Laboratory Rodent Colonies
    Brekke, T., Steele, K. & Mulley, J., 1 Feb 2018, In: G3: Genes, Genomes, Genetics. 8, 2, p. 679-686
    Research output: Contribution to journal › Article › peer-review
  • PublishedReport of the 2017 RSPCA/UFAW Rodent and Rabbit Welfare Group meeting
    Hawkins, P., McBride, A., Paiba, G., Rose, R., Prescott, M. J., Mulley, J., Izzard, S., Ridley, D., Kappel, S., Melotti, L. & Hubrecht, R., Oct 2018, In: Animal Technology and Welfare. 17, 2, p. 75-42
    Research output: Contribution to journal › Article › peer-review

2017

  • PublishedGenome sequence of a diabetes-prone rodent reveals a mutation hotspot around the ParaHox gene cluster
    Hargreaves, A. D., Zhou, L., Christensen, J., Marletaz, F., Liu, S., Li, F., Jansen, P. G., Spiga, E., Hansen, M. T., Pedersen, S. V. H., Biswas, S., Seriwaka, K., Fox, B. A., Taylor, W. R., Mulley, J., Zhang, G., Heller, R. S. & Holland, P. W. H., 18 Jul 2017, In: Proceedings of the National Academy of Sciences of the United States of America: PNAS. 114, 29, p. 7677–7682
    Research output: Contribution to journal › Article › peer-review

2016

  • PublishedThe spotted gar genome illuminates vertebrate evolution and facilitates human-teleost comparisons
    Braasch, I., Gehrke, A. R., Smith, J. J., Kawasaki, K., Manousaki, T., Pasquier, J., Amores, A., Desvignes, T., Batzel, P., Catchen, J., Berlin, A. M., Campbell, M. S., Barrell, D., Martin, K. J., Mulley, J. F., Ravi, V., Lee, A. P., Nakamura, T., Chalopin, D. & Fan, S. & 41 others, Wcisel, D., Cañestro, C., Sydes, J., Beaudry, F. E., Sun, Y., Hertel, J., Beam, M. J., Fasold, M., Ishiyama, M., Johnson, J., Kehr, S., Lara, M., Letaw, J. H., Litman, G. W., Litman, R. T., Mikami, M., Ota, T., Saha, N. R., Williams, L., Stadler, P. F., Wang, H., Taylor, J. S., Fontenot, Q., Ferrara, A., Searle, S. M., Aken, B., Yandell, M., Schneider, I., Yoder, J. A., Volff, J., Meyer, A., Amemiya, C. T., Venkatesh, B., Holland, P. W., Guiguen, Y., Bobe, J., Shubin, N. H., Di Palma, F., Alföldi, J., Lindblad-Toh, K. & Postlethwait, J. H., 7 Mar 2016, In: Nature Genetics.
    Research output: Contribution to journal › Article › peer-review

2015

  • PublishedA critique of the toxicoferan hypothesis
    Hargreaves, A. D., Tucker, A. S., Mulley, J. F., Gopalakrishnakone, P. (Editor) & Malhotra, M. (Editor), 8 Aug 2015, Evolution of Venomous Animals and Their Toxins: Toxicology. Springer Netherlands, p. 1-15
    Research output: Chapter in Book/Report/Conference proceeding › Chapter
  • PublishedAssessing the utility of the Oxford Nanopore MinION for snake venom gland cDNA sequencing
    Hargreaves, A. D. & Mulley, J. F., 24 Nov 2015, In: PeerJ. p. e1441
    Research output: Contribution to journal › Article › peer-review

2014

  • PublishedA plea for standardized nomenclature of snake venom toxins
    Hargreaves, A. D. & Mulley, J. F., 27 Aug 2014, In: Toxicon. 90, p. 351-353
    Research output: Contribution to journal › Article › peer-review
  • PublishedGenomic organisation of the seven ParaHox genes of coelacanths
    Mulley, J. F. & Holland, P. W., 1 Sept 2014, In: Journal of Experimental Zoology Part B: Molecular and Developmental Evolution. 322, 6, p. 352-358
    Research output: Contribution to journal › Article › peer-review
  • PublishedRestriction and Recruitment—Gene Duplication and the Origin and Evolution of Snake Venom Toxins
    Hargreaves, A. D., Swain, M. T., Hegarty, M. J., Logan, D. W. & Mulley, J. F., 30 Jul 2014, In: Genome Biology and Evolution. 6, 8, p. 2088-2095
    Research output: Contribution to journal › Article › peer-review
  • PublishedTesting the Toxicofera: comparative reptile transcriptomics casts doubt on the single, early evolution of the reptile venom system
    Hargreaves, A. D., Swain, M. T., Logan, D. W. & Mulley, J. F., 17 Oct 2014, In: Toxicon. 92, p. 140-156
    Research output: Contribution to journal › Article › peer-review
  • PublishedTranscriptomic analysis of the lesser spotted catshark (Scyliorhinus canicula) pancreas, liver and brain reveals molecular level conservation of vertebrate pancreas function
    Mulley, J. F., Hargreaves, A. D., Hegarty, M. J., Heller, R. S. & Swain, M. T., 6 Dec 2014, In: BMC Genomics. 15, 1074
    Research output: Contribution to journal › Article › peer-review

2010

  • PublishedParallel retention of Pdx2 genes in cartilaginous fish and coelcanths.
    Mulley, J. F. & Holland, P. W., 12 May 2010, In: Molecular Biology and Evolution. 27, 10, p. 2386-2391
    Research output: Contribution to journal › Article › peer-review

2009

  • PublishedComparative genomics of chondrichthyan Hoxa clusters.
    Mulley, J. F., Zhong, Y. F. & Holland, P. W., 2 Sept 2009, In: BMC Evolutionary Biology. 9, p. 218
    Research output: Contribution to journal › Article › peer-review

2008

  • PublishedParaHox cluster evolution--hagfish and beyond
    Furlong, R. F. & Mulley, J. F., 25 Oct 2008, In: Zoological Science. 25, 10, p. 955-9 5 p.
    Research output: Contribution to journal › Review article › peer-review

2006

  • PublishedBreakup of a homeobox cluster after genome duplication in teleosts
    Mulley, J. F., Chiu, C.-H. & Holland, P. W. H., 5 Jul 2006, In: Proceedings of the National Academy of Sciences of the United States of America. 103, 27, p. 10369-72 4 p.
    Research output: Contribution to journal › Article › peer-review

2004

  • PublishedComparative genomics: small genome, big insights
    Mulley, J. & Holland, P., 21 Oct 2004, In: Nature. 431, 7011, p. 916-7 2 p.
    Research output: Contribution to journal › Article › peer-review
  • PublishedTrinucleotide microsatellite loci for the peppered moth (Biston betularia)
    Daly, D., Waltham, K., Mulley, J., Watts, P., Rosin, A., Kemp, S. & Saccheri, I., Jun 2004, In: Molecular Ecology Notes. 4, 2, p. 179-181
    Research output: Contribution to journal › Article › peer-review

Activities

2023

  • Dynamic Anatomy: Evolutionary and Developmental Change through Time

    25 Jul 2023 – 27 Jul 2023

    Activity: Participation in Academic conference (Organiser)

Projects

  • Decoding dark DNA

    01/06/2019 – 30/09/2023 (Finished)

  • Differential responses of X and Y chromosome-bearing sperm to follicular fluid from the right and left ovaries

    01/02/2019 – 30/06/2020 (Finished)

  • Support for attendance at UFAW conference

    01/11/2017 – 31/12/2017 (Finished)

  • Support for attendance at UFAW conference

    01/11/2017 – 15/03/2018 (Finished)

  • Refining husbandry and welfare of desert rodents

    01/02/2017 – 30/05/2018 (Finished)

  • Mapping the gerbil genome

    01/06/2016 – 01/08/2019 (Finished)

  • Gene duplication & regulation & evolution & development of snake venom

    01/04/2011 – 31/08/2012 (Finished)

  • The role of Pdx2 in pancreas development and function

    01/02/2011 – 31/03/2013 (Finished)

  • Resources for the study of shark populations around North-West Wales

    01/08/2010 – 31/08/2014 (Finished)

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