ZFIN Lab: Elgar Lab - Fugu Comparative Genomics Group

ZFIN ID: ZDB-LAB-040810-4

Elgar Lab - Fugu Comparative Genomics Group

PI/Director:	Elgar, Greg
Contact Person:	Elgar, Greg
Email:	gelgar@rfcgr.mrc.ac.uk
URL:
Address:	Division of Systems Biology MRC National Institute for Medical Research The Ridgeway Mill Hill London NW7 1AA UK
Country:	United Kingdom
Phone:
Fax:
Line Designation:	nim

GENOMIC FEATURES ORIGINATING FROM THIS LAB

Show all 20 genomic features

STATEMENT OF RESEARCH INTERESTS

LAB MEMBERS

Smith, Sarah Post-Doc	Woolfe, Adam Graduate Student	Snell, Philip Research Staff
Doglio, Laura	Grice, Joseph	Kenyon, Emma
Pauls, Stefan

ZEBRAFISH PUBLICATIONS OF LAB MEMBERS

O'Reilly, M., Kirkwood, N.K., Kenyon, E.J., Huckvale, R., Cantillon, D.M., Waddell, S.J., Ward, S.E., Richardson, G.P., Kros, C.J., Derudas, M. (2019) Design, synthesis and biological evaluation of a new series of carvedilol derivatives that protect sensory hair cells from aminoglycoside-induced damage by blocking the mechano-electrical transducer channel. Journal of medicinal chemistry. 62(11):5312-5329

Kenyon, E.J., Kirkwood, N.K., Kitcher, S.R., O'Reilly, M., Derudas, M., Cantillon, D.M., Goodyear, R.J., Secker, A., Baxendale, S., Bull, J.C., Waddell, S.J., Whitfield, T.T., Ward, S.E., Kros, C.J., Richardson, G.P. (2017) Identification of ion-channel modulators that protect against aminoglycoside-induced hair cell death. JCI insight. 2(24)

Kirkwood, N.K., O'Reilly, M., Derudas, M., Kenyon, E.J., Huckvale, R., van Netten, S.M., Ward, S.E., Richardson, G.P., Kros, C.J. (2017) d-Tubocurarine and Berbamine: Alkaloids That Are Permeant Blockers of the Hair Cell's Mechano-Electrical Transducer Channel and Protect from Aminoglycoside Toxicity. Frontiers in Cellular Neuroscience. 11:262

Kenyon, E.J., Luijten, M.N., Gill, H., Li, N., Rawlings, M., Bull, J.C., Hadzhiev, Y., van Steensel, M.A., Maher, E., Mueller, F. (2016) Expression and knockdown of zebrafish folliculin suggests requirement for embryonic brain morphogenesis. BMC Developmental Biology. 16:23

Pauls, S., Goode, D.K., Petrone, L., Oliveri, P., Elgar, G. (2015) Evolution of lineage-specific functions in ancient cis-regulatory modules. Open Biology. 5(11)

Anwar, S., Minhas, R., Ali, S., Lambert, N., Kawakami, Y., Elgar, G., Azam, S.S., Abbasi, A.A. (2015) Identification and functional characterization of novel transcriptional enhancers involved in regulating human GLI3 expression during early development. Development, growth & differentiation. 57(8):570-80

Grice, J., Noyvert, B., Doglio, L., Elgar, G. (2015) A Simple Predictive Enhancer Syntax for Hindbrain Patterning Is Conserved in Vertebrate Genomes. PLoS One. 10:e0130413

Minhas, R., Pauls, S., Ali, S., Doglio, L., Khan, M.R., Elgar, G., Abbasi, A.A. (2015) Cis-regulatory control of human GLI2 expression in the developing neural tube and limb bud. Developmental Dynamics : an official publication of the American Association of Anatomists. 244(5):681-92

Kenyon, E.J., Campos, I., Bull, J.C., Williams, P.H., Stemple, D.L., Clark, M.D. (2015) Zebrafish Rab5 Proteins and a role for Rab5ab in nodal signalling. Developmental Biology. 397(2):212-24

Chen, W.C., Pauls, S., Bacha, J., Elgar, G., Loose, M., Shimeld, S.M. (2014) Dissection of a Ciona regulatory element reveals complexity of cross-species enhancer activity. Developmental Biology. 390:261-72

Doglio, L., Goode, D.K., Pelleri, M.C., Pauls, S., Frabetti, F., Shimeld, S.M., Vavouri, T., and Elgar, G. (2013) Parallel evolution of chordate cis-regulatory code for development. PLoS Genetics. 9(11):e1003904

Howe, K., Clark, M.D., Torroja, C.F., Torrance, J., Berthelot, C., Muffato, M., Collins, J.E., Humphray, S., McLaren, K., Matthews, L., McLaren, S., Sealy, I., Caccamo, M., Churcher, C., Scott, C., Barrett, J.C., Koch, R., Rauch, G.J., White, S., Chow, W., Kilian, B., Quintais, L.T., Guerra-Assunção, J.A., Zhou, Y., Gu, Y., Yen, J., Vogel, J.H., Eyre, T., Redmond, S., Banerjee, R., Chi, J., Fu, B., Langley, E., Maguire, S.F., Laird, G.K., Lloyd, D., Kenyon, E., Donaldson, S., Sehra, H., Almeida-King, J., Loveland, J., Trevanion, S., Jones, M., Quail, M., Willey, D., Hunt, A., Burton, J., Sims, S., McLay, K., Plumb, B., Davis, J., Clee, C., Oliver, K., Clark, R., Riddle, C., Eliott, D., Threadgold, G., Harden, G., Ware, D., Mortimer, B., Kerry, G., Heath, P., Phillimore, B., Tracey, A., Corby, N., Dunn, M., Johnson, C., Wood, J., Clark, S., Pelan, S., Griffiths, G., Smith, M., Glithero, R., Howden, P., Barker, N., Stevens, C., Harley, J., Holt, K., Panagiotidis, G., Lovell, J., Beasley, H., Henderson, C., Gordon, D., Auger, K., Wright, D., Collins, J., Raisen, C., Dyer, L., Leung, K., Robertson, L., Ambridge, K., Leongamornlert, D., McGuire, S., Gilderthorp, R., Griffiths, C., Manthravadi, D., Nichol, S., Barker, G., Whitehead, S., Kay, M., Brown, J., Murnane, C., Gray, E., Humphries, M., Sycamore, N., Barker, D., Saunders, D., Wallis, J., Babbage, A., Hammond, S., Mashreghi-Mohammadi, M., Barr, L., Martin, S., Wray, P., Ellington, A., Matthews, N., Ellwood, M., Woodmansey, R., Clark, G., Cooper, J., Tromans, A., Grafham, D., Skuce, C., Pandian, R., Andrews, R., Harrison, E., Kimberley, A., Garnett, J., Fosker, N., Hall, R., Garner, P., Kelly, D., Bird, C., Palmer, S., Gehring, I., Berger, A., Dooley, C.M., Ersan-Ürün, Z., Eser, C., Geiger, H., Geisler, M., Karotki, L., Kirn, A., Konantz, J., Konantz, M., Oberländer, M., Rudolph-Geiger, S., Teucke, M., Osoegawa, K., Zhu, B., Rapp, A., Widaa, S., Langford, C., Yang, F., Carter, N.P., Harrow, J., Ning, Z., Herrero, J., Searle, S.M., Enright, A., Geisler, R., Plasterk, R.H., Lee, C., Westerfield, M., de Jong, P.J., Zon, L.I., Postlethwait, J.H., Nüsslein-Volhard, C., Hubbard, T.J., Crollius, H.R., Rogers, J., and Stemple, D.L. (2013) The zebrafish reference genome sequence and its relationship to the human genome. Nature. 496:498-503

Wiles, T.J., Norton, J.P., Smith, S.N., Lewis, A.J., Mobley, H.L., Casjens, S.R., and Mulvey, M.A. (2013) A Phyletically Rare Gene Promotes the Niche-specific Fitness of an E. coli Pathogen during Bacteremia. PLoS pathogens. 9(2):e1003175

Pauls, S., Smith, S.F., and Elgar, G. (2012) Lens development depends on a pair of highly conserved Sox21 regulatory elements. Developmental Biology. 365(1):310-318

Parker, H.J., Piccinelli, P., Sauka-Spengler, T., Bronner, M., and Elgar, G. (2011) Ancient Pbx-Hox Signatures Define Hundreds of Vertebrate Developmental Enhancers. BMC Genomics. 12(1):637

Goode, D.K., Callaway, H.A., Cerda, G.A., Lewis, K.E., and Elgar, G. (2011) Minor change, major difference: divergent functions of highly conserved cis-regulatory elements subsequent to whole genome duplication events. Development (Cambridge, England). 138(5):879-884

Kenyon, E.J., McEwen, G.K., Callaway, H., and Elgar, G. (2011) Functional Analysis of Conserved Non-Coding Regions Around the Short Stature hox Gene (shox) in Whole Zebrafish Embryos. PLoS One. 6(6):e21498

Vaccari, E., Deflorian, G., Bernardi, E., Pauls, S., Tiso, N., Bortolussi, M., and Argenton, F. (2010) prep1.2 and aldh1a2 participate to a positive loop required for branchial arches development in zebrafish. Developmental Biology. 343(1-2):94-103

McEwen, G.K., Goode, D.K., Parker, H.J., Woolfe, A., Callaway, H., and Elgar, G. (2009) Early evolution of conserved regulatory sequences associated with development in vertebrates. PLoS Genetics. 5(12):e1000762

Elgar, G., and Vavouri, T. (2008) Tuning in to the signals: noncoding sequence conservation in vertebrate genomes. Trends in genetics : TIG. 24(7):344-352

Ikeda, D., Ono, Y., Snell, P., Edwards, Y.J., Elgar, G., and Watabe, S. (2007) Divergent evolution of the myosin heavy chain gene family in fish and tetrapods: evidence from comparative genomic analysis. Physiological Genomics. 32(1):1-15

Woolfe, A., Goode, D.K., Cooke, J., Callaway, H., Smith, S., Snell, P., McEwen, G.K., and Elgar, G. (2007) CONDOR: a database resource of developmentally associated conserved non-coding elements. BMC Developmental Biology. 7(1):100

Paparidis, Z., Abbasi, A.A., Malik, S., Goode, D.K., Callaway, H., Elgar, G., Degraaff, E., Lopez-Rios, J., Zeller, R., and Grzeschik, K.H. (2007) Ultraconserved non-coding sequence element controls a subset of spatiotemporal GLI3 expression. Development, growth & differentiation. 49(6):543-553

Pauls, S., Zecchin, E., Tiso, N., Bortolussi, M., and Argenton, F. (2007) Function and regulation of zebrafish nkx2.2a during development of pancreatic islet and ducts. Developmental Biology. 304(2):875-890

Abbasi, A.A., Paparidis, Z., Malik, S., Goode, D.K., Callaway, H., Elgar, G., and Grzeschik, K.H. (2007) Human GLI3 Intragenic Conserved Non-Coding Sequences Are Tissue-Specific Enhancers. PLoS One. 2(1):e366

Woolfe, A., and Elgar, G. (2007) Comparative genomics using Fugu reveals insights into regulatory subfunctionalization. Genome biology. 8(4):R53

Zecchin, E., Filippi, A., Biemar, F., Tiso, N., Pauls, S., Ellertsdottir, E., Gnugge, L., Bortolussi, M., Driever, W., and Argenton, F. (2007) Distinct delta and jagged genes control sequential segregation of pancreatic cell types from precursor pools in zebrafish. Developmental Biology. 301(1):192-204

Elgar, G. (2006) Different words, same meaning: understanding the languages of the genome. Trends in genetics : TIG. 22(12):639-641

McEwen, G.K., Woolfe, A., Goode, D., Vavouri, T., Callaway, H., and Elgar, G. (2006) Ancient duplicated conserved noncoding elements in vertebrates: a genomic and functional analysis. Genome research. 16(4):451-465

Goode, D.K., Snell, P., Smith, S.F., Cooke, J.E., and Elgar, G. (2005) Highly conserved regulatory elements around the SHH gene may contribute to the maintenance of conserved synteny across human chromosome 7q36.3. Genomics. 86(2):172-181

Kopeika, J., Zhang, T., Rawson, D.M., and Elgar, G. (2005) Effect of cryopreservation on mitochondrial DNA of zebrafish (Danio rerio) blastomere cells. Mutation research. 570(1):49-61

Woolfe, A., Goodson, M., Goode, D.K., Snell, P., McEwen, G.K., Vavouri, T., Smith, S.F., North, P., Callaway, H., Kelly, K., Walter, K., Abnizova, I., Gilks, W., Edwards, Y.J., Cooke, J.E., and Elgar, G. (2005) Highly conserved non-coding sequences are associated with vertebrate development. PLoS Biology. 3(1):e7

Geldmacher-Voss, B., Reugels, A.M., Pauls, S., and Campos-Ortega, J.A. (2003) A 90° rotation of the mitotic spindle changes the orientation of mitoses of zebrafish neuroepithelial cells. Development (Cambridge, England). 130(16):3767-3780

Miles, C.G., Rankin, L., Smith, S.I., Niksic, M., Elgar, G., and Hastie, N.D. (2003) Faithful expression of a tagged Fugu WT1 protein from a genomic transgene in zebrafish: efficient splicing of pufferfish genes in zebrafish but not mice. Nucleic acids research. 31(11):2795-2802

Tiso, N., Filippi, A., Pauls, S., Bortolussi, M., and Argenton, F. (2002) BMP signalling regulates anteroposterior endoderm patterning in zebrafish. Mechanisms of Development. 118(1-2):29-37

Sambrook, J.G., Russell, R., Umrania, Y., Edwards, Y.J., Campbell, R.D., Elgar, G., and Clark, M.S. (2002) Fugu orthologues of human major histocompatibility complex genes: a genome survey. Immunogenetics. 54(6):367-380

Smith, S.F., Snell, P., Gruetzner, F., Bench, A.J., Haaf, T., Metcalfe, J.A., Green, A.R., and Elgar, G. (2002) Analyses of the extent of shared synteny and conserved gene orders between the genome of Fugu rubripes and human 20q. Genome research. 12(5):776-784

Pauls, S., Geldmacher-Voss, B., and Campos-Ortega, J.A. (2001) A zebrafish histone variant H2A.F/Z and a transgenic H2A.F/Z:GFP fusion protein for in vivo studies of embryonic development. Development genes and evolution. 211(12):603-610

Clark, M.S., Shaw, L., Kelly, A., Snell, P., and Elgar, G. (2001) Characterization of the MHC class I region of the Japanese pufferfish (Fugu rubripes). Immunogenetics. 52(3-4):174-185