ZFIN ID: ZDB-LAB-110408-1
Venkatesh Lab
PI/Director: Venkatesh, Byrappa
Contact Person: Venkatesh, Byrappa
Email: mcbbv@imcb.a-star.edu.sg
URL:
Address: Comparative Genomics Lab Institute of Molecular and Cell Biology (IMCB) 61 Biopolis Drive 138673 Singapore
Country: Singapore
Phone: 65 - 6586 9571
Fax: 65 - 6779 1117
Line Designation: sq


GENOMIC FEATURES ORIGINATING FROM THIS LAB
Show all 24 genomic features


STATEMENT OF RESEARCH INTERESTS


LAB MEMBERS


ZEBRAFISH PUBLICATIONS OF LAB MEMBERS
Derrick, C.J., Szenker-Ravi, E., Santos-Ledo, A., Alqahtani, A., Yusof, A., Eley, L., Coleman, A.H.L., Tohari, S., Ng, A.Y., Venkatesh, B., Alharby, E., Mansard, L., Bonnet-Dupeyron, M.N., Roux, A.F., Vaché, C., Roume, J., Bouvagnet, P., Almontashiri, N.A.M., Henderson, D.J., Reversade, B., Chaudhry, B. (2023) Functional analysis of germline VANGL2 variants using rescue assays of vangl2 knockout zebrafish. Human molecular genetics. 33(2):150-169
Liu, Y., Qu, M., Jiang, H., Schneider, R., Qin, G., Luo, W., Yu, H., Zhang, B., Wang, X., Zhang, Y., Zhang, H., Zhang, Z., Wu, Y., Zhang, Y., Yin, J., Zhang, S., Venkatesh, B., Roth, O., Meyer, A., Lin, Q. (2022) Immunogenetic losses co-occurred with seahorse male pregnancy and mutation in tlx1 accompanied functional asplenia. Nature communications. 13:76107610
Szenker-Ravi, E., Ott, T., Khatoo, M., de Bellaing, A.M., Goh, W.X., Chong, Y.L., Beckers, A., Kannesan, D., Louvel, G., Anujan, P., Ravi, V., Bonnard, C., Moutton, S., Schoen, P., Fradin, M., Colin, E., Megarbane, A., Daou, L., Chehab, G., Di Filippo, S., Rooryck, C., Deleuze, J.F., Boland, A., Arribard, N., Eker, R., Tohari, S., Ng, A.Y., Rio, M., Lim, C.T., Eisenhaber, B., Eisenhaber, F., Venkatesh, B., Amiel, J., Crollius, H.R., Gordon, C.T., Gossler, A., Roy, S., Attie-Bitach, T., Blum, M., Bouvagnet, P., Reversade, B. (2021) Discovery of a genetic module essential for assigning left-right asymmetry in humans and ancestral vertebrates. Nature Genetics. 54(1):62-72
Qu, M., Liu, Y., Zhang, Y., Wan, S., Ravi, V., Qin, G., Jiang, H., Wang, X., Zhang, H., Zhang, B., Gao, Z., Huysseune, A., Zhang, Z., Zhang, H., Chen, Z., Yu, H., Wu, Y., Tang, L., Li, C., Zhong, J., Ma, L., Wang, F., Zheng, H., Yin, J., Witten, P.E., Meyer, A., Venkatesh, B., Lin, Q. (2021) Seadragon genome analysis provides insights into its phenotype and sex determination locus. Science advances. 7(34)
Venkatesh, B., Lee, A.P., Ravi, V., Maurya, A.K., Lian, M.M., Swann, J.B., Ohta, Y., Flajnik, M.F., Sutoh, Y., Kasahara, M., Hoon, S., Gangu, V., Roy, S.W., Irimia, M., Korzh, V., Kondrychyn, I., Lim, Z.W., Tay, B.H., Tohari, S., Kong, K.W., Ho, S., Lorente-Galdos, B., Quilez, J., Marques-Bonet, T., Raney, B.J., Ingham, P.W., Tay, A., Hillier, L.W., Minx, P., Boehm, T., Wilson, R.K., Brenner, S., Warren, W.C. (2020) Author Correction: Elephant shark genome provides unique insights into gnathostome evolution. Nature. 588:E15
Zhou, F., Rayamajhi, D., Ravi, V., Narasimhan, V., Chong, Y.L., Lu, H., Venkatesh, B., Roy, S. (2020) Conservation as well as divergence in Mcidas function underlies the differentiation of multiciliated cells in vertebrates. Developmental Biology. 465(2):168-177
Hengel, H., Bosso-Lefèvre, C., Grady, G., Szenker-Ravi, E., Li, H., Pierce, S., Lebigot, É., Tan, T.T., Eio, M.Y., Narayanan, G., Utami, K.H., Yau, M., Handal, N., Deigendesch, W., Keimer, R., Marzouqa, H.M., Gunay-Aygun, M., Muriello, M.J., Verhelst, H., Weckhuysen, S., Mahida, S., Naidu, S., Thomas, T.G., Lim, J.Y., Tan, E.S., Haye, D., Willemsen, M.A.A.P., Oegema, R., Mitchell, W.G., Pierson, T.M., Andrews, M.V., Willing, M.C., Rodan, L.H., Barakat, T.S., van Slegtenhorst, M., Gavrilova, R.H., Martinelli, D., Gilboa, T., Tamim, A.M., Hashem, M.O., AlSayed, M.D., Abdulrahim, M.M., Al-Owain, M., Awaji, A., Mahmoud, A.A.H., Faqeih, E.A., Asmari, A.A., Algain, S.M., Jad, L.A., Aldhalaan, H.M., Helbig, I., Koolen, D.A., Riess, A., Kraegeloh-Mann, I., Bauer, P., Gulsuner, S., Stamberger, H., Ng, A.Y.J., Tang, S., Tohari, S., Keren, B., Schultz-Rogers, L.E., Klee, E.W., Barresi, S., Tartaglia, M., Mor-Shaked, H., Maddirevula, S., Begtrup, A., Telegrafi, A., Pfundt, R., Schüle, R., Ciruna, B., Bonnard, C., Pouladi, M.A., Stewart, J.C., Claridge-Chang, A., Lefeber, D.J., Alkuraya, F.S., Mathuru, A.S., Venkatesh, B., Barycki, J.J., Simpson, M.A., Jamuar, S.S., Schöls, L., Reversade, B. (2020) Loss-of-function mutations in UDP-Glucose 6-Dehydrogenase cause recessive developmental epileptic encephalopathy. Nature communications. 11:595
Ravi, V., Bhatia, S., Shingate, P., Tay, B.H., Venkatesh, B., Kleinjan, D.A. (2019) Lampreys, the jawless vertebrates, contain three Pax6 genes with distinct expression in eye, brain and pancreas. Scientific Reports. 9:19559
Bevan, L., Lim, Z.W., Venkatesh, B., Riley, P.R., Martin, P., Richardson, R.J. (2019) Specific macrophage populations promote both cardiac scar deposition and subsequent resolution in adult zebrafish. Cardiovascular research. 116(7):1357-1371
Jung, H., Baek, M., D'Elia, K.P., Boisvert, C., Currie, P.D., Tay, B.H., Venkatesh, B., Brown, S.M., Heguy, A., Schoppik, D., Dasen, J.S. (2018) The Ancient Origins of Neural Substrates for Land Walking. Cell. 172:667-682.e15
Lin, Q., Fan, S., Zhang, Y., Xu, M., Zhang, H., Yang, Y., Lee, A.P., Woltering, J.M., Ravi, V., Gunter, H.M., Luo, W., Gao, Z., Lim, Z.W., Qin, G., Schneider, R.F., Wang, X., Xiong, P., Li, G., Wang, K., Min, J., Zhang, C., Qiu, Y., Bai, J., He, W., Bian, C., Zhang, X., Shan, D., Qu, H., Sun, Y., Gao, Q., Huang, L., Shi, Q., Meyer, A., Venkatesh, B. (2016) The seahorse genome and the evolution of its specialized morphology. Nature. 540:395-399
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., 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.N., 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. (2016) The spotted gar genome illuminates vertebrate evolution and facilitates human-teleost comparisons. Nature Genetics. 48(4):427-37
Nah, G.S., Lim, Z.W., Tay, B.H., Osato, M., Venkatesh, B. (2014) Runx family genes in a cartilaginous fish, the elephant shark (Callorhinchus milii). PLoS One. 9:e93816
Bhatia, S., Monahan, J., Ravi, V., Gautier, P., Murdoch, E., Brenner, S., van Heyningen, V., Venkatesh, B., and Kleinjan, D.A. (2014) A survey of ancient conserved non-coding elements in the PAX6 locus reveals a landscape of interdigitated cis-regulatory archipelagos. Developmental Biology. 387(2):214-228
Venkatesh, B., Lee, A.P., Ravi, V., Maurya, A.K., Lian, M.M., Swann, J.B., Ohta, Y., Flajnik, M.F., Sutoh, Y., Kasahara, M., Hoon, S., Gangu, V., Roy, S.W., Irimia, M., Korzh, V., Kondrychyn, I., Lim, Z.W., Tay, B.H., Tohari, S., Kong, K.W., Ho, S., Lorente-Galdos, B., Quilez, J., Marques-Bonet, T., Raney, B.J., Ingham, P.W., Tay, A., Hillier, L.W., Minx, P., Boehm, T., Wilson, R.K., Brenner, S., and Warren, W.C. (2014) Elephant shark genome provides unique insights into gnathostome evolution. Nature. 505(7482):174-179
Castro, L.F., Gonçalves, O., Mazan, S., Tay, B.H., Venkatesh, B., Wilson, J.M. (2013) Recurrent gene loss correlates with the evolution of stomach phenotypes in gnathostome history. Proceedings. Biological sciences. 281:20132669
Mehta, T.K., Ravi, V., Yamasaki, S., Lee, A.P., Lian, M.M., Tay, B.H., Tohari, S., Yanai, S., Tay, A., Brenner, S., and Venkatesh, B. (2013) Evidence for at least six Hox clusters in the Japanese lamprey (Lethenteron japonicum). Proceedings of the National Academy of Sciences of the United States of America. 110(40):16044-16049
Amemiya, C.T., Alfoldi, J., Lee, A.P., Fan, S., Philippe, H., MacCallum, I., Braasch, I., Manousaki, T., Schneider, I., Rohner, N., Organ, C., Chalopin, D., Smith, J.J., Robinson, M., Dorrington, R.A., Gerdol, M., Aken, B., Biscotti, M.A., Barucca, M., Baurain, D., Berlin, A.M., Blatch, G.L., Buonocore, F., Burmester, T., Campbell, M.S., Canapa, A., Cannon, J.P., Christoffels, A., de Moro, G., Edkins, A.L., Fan, L., Fausto, A.M., Feiner, N., Forconi, M., Gamieldien, J., Gnerre, S., Gnirke, A., Goldstone, J.V., Haerty, W., Hahn, M.E., Hesse, U., Hoffmann, S., Johnson, J., Karchner, S.I., Karaku, S., Lara, M., Levin, J.Z., Litman, G.W., Mauceli, E., Miyake, T., Mueller, M.G., Nelson, D.R., Nitsche, A., Olmo, E., Ota, T., Pallavicini, A., Panji, S., Picone, B., Ponting, C.P., Prohaska, S.J., Przybylski, D., Saha, N.R., Ravi, V., Ribeiro, F.J., Sauka-Spengler, T., Scapigliati, G., Searle, S.M.J., Sharpe, T., Simakov, O., Stadler, P.F., Stegeman, J.J., Sumiyama, K., Tabbaa, D., Tafer, H., Turner-Maier, J., van Heusden, P., White, S., Williams, L., Yandell, M., Brinkmann, H., Volff, J.N., Tabin, C.J., Shubin, N., Schartl, M., Jaffe, D.B., Postlethwait, J.H., Venkatesh, B., Palma, F.D., Lander, E.S., Meyer, A., and Lindblad-Toh, K. (2013) The African coelacanth genome provides insights into tetrapod evolution. Nature. 496:311-316
Ravi, V., Bhatia, S., Gautier, P., Loosli, F., Tay, B.H., Tay, A., Murdoch, E., Coutinho, P., van Heyningen, V., Brenner, S., Venkatesh, B., and Kleinjan, D.A. (2013) Sequencing of pax6 Loci from the elephant shark reveals a family of pax6 genes in vertebrate genomes, forged by ancient duplications and divergences. PLoS Genetics. 9(1):e1003177
Venkatesh, B., Ravi, V., Lee, A.P., Warren, W.C., and Brenner, S. (2013) Basal vertebrates clarify the evolutionary history of ciliopathy-associated genes Tmem138 and Tmem216. Mol. Biol. Evol.. 30(1):62-65
Lee, A.P., Kerk, S.Y., Tan, Y.Y., Brenner, S., and Venkatesh, B. (2011) Ancient vertebrate conserved noncoding elements have been evolving rapidly in teleost fishes. Mol. Biol. Evol.. 28(3):1205-1215
Gill, J.A., Lowe, L., Nguyen, J., Liu, P.P., Blake, T., Venkatesh, B., and Aplan, P.D. (2010) Enforced expression of simian virus 40 large T-antigen leads to testicular germ cell tumors in zebrafish. Zebrafish. 7(4):333-341
Tan, Y.P., Li, S., Jiang, X.J., Loh, W., Foo, Y.K., Loh, C.B., Xu, Q., Yuen, W.H., Jones, M., Fu, J., Venkatesh, B., and Yu, W.P. (2010) Regulation of protocadherin gene expression by multiple neuron-restrictive silencer elements scattered in the gene cluster. Nucleic acids research. 38(15):4985-4997
Kulkarni, R.P., Tohari, S., Ho, A., Brenner, S., and Venkatesh, B. (2010) Characterization of a hypoxia-response element in the Epo locus of the pufferfish, Takifugu rubripes. Marine genomics. 3(2):63-70
MacDonald, R.B., Debiais-Thibaud, M., Martin, K., Poitras, L., Tay, B.H., Venkatesh, B., and Ekker, M. (2010) Functional conservation of a forebrain enhancer from the elephant shark (Callorhinchus milii) in zebrafish and mice. BMC Evolutionary Biology. 10:157
Bajoghli, B., Aghaallaei, N., Hess, I., Rode, I., Netuschil, N., Tay, B.H., Venkatesh, B., Yu, J.K., Kaltenbach, S.L., Holland, N.D., Diekhoff, D., Happe, C., Schorpp, M., and Boehm, T. (2009) Evolution of genetic networks underlying the emergence of thymopoiesis in vertebrates. Cell. 138(1):186-197
Yeo, G.H., Cheah, F.S., Winkler, C., Jabs, E.W., Venkatesh, B., and Chong, S.S. (2009) Phylogenetic and evolutionary relationships and developmental expression patterns of the zebrafish twist gene family. Development genes and evolution. 219(6):289-300
Larsson, T.A., Tay, B.H., Sundström, G., Fredriksson, R., Brenner, S., Larhammar, D., and Venkatesh, B. (2009) Neuropeptide Y-family peptides and receptors in the elephant shark, Callorhinchus milii confirm gene duplications before the gnathostome radiation. Genomics. 93(3):254-260
Sundström, G., Larsson, T.A., Brenner, S., Venkatesh, B., and Larhammar, D. (2008) Evolution of the neuropeptide Y family: New genes by chromosome duplications in early vertebrates and in teleost fishes. General and comparative endocrinology. 155(3):705-716
Yu, W.P., Yew, K., Rajasegaran, V., and Venkatesh, B. (2007) Sequencing and comparative analysis of fugu protocadherin clusters reveal diversity of protocadherin genes among teleosts. BMC Evolutionary Biology. 7(1):49
Bromee, T., Venkatesh, B., Brenner, S., Postlethwait, J.H., Yan, Y.L., and Larhammar, D. (2006) Uneven evolutionary rates of bradykinin B1 and B2 receptors in vertebrate lineages. Gene. 373:100-108
Venkatesh, B., Lu, S.Q., Dandona, N., See, S.L., Brenner, S., and Soong, T.W. (2005) Genetic basis of tetrodotoxin resistance in pufferfishes. Current biology : CB. 15(22):2069-2072
Bates, M.D., Wells, J.M., and Venkatesh, B. (2005) Comparative genomics of the Hlx homeobox gene and protein: Conservation of structure and expression from fish to mammals. Gene. 352:45-56
Larsson, T.A., Olsson, F., Sundström, G., Brenner, S., Venkatesh, B., and Larhammar, D. (2005) Pufferfish and Zebrafish Have Five Distinct NPY Receptor Subtypes, but Have Lost Appetite Receptors Y1 and Y5. Annals of the New York Academy of Sciences. 1040:375-377
Sundström, G., Larsson, T.A., Brenner, S., Venkatesh, B., and Larhammar, D. (2005) Ray-Fin Fish Tetraploidization Gave Rise to Pufferfish Duplicates of NPY and PYY, but Zebrafish NPY Duplicate Was Lost. Annals of the New York Academy of Sciences. 1040:476-478
Yeo, G., Hoon, S., Venkatesh, B., and Burge, C.B. (2004) Variation in sequence and organization of splicing regulatory elements in vertebrate genes. Proceedings of the National Academy of Sciences of the United States of America. 101(44):15700-15705
Loh, Y.H., Christoffels, A., Brenner, S., Hunziker, W., and Venkatesh, B. (2004) Extensive Expansion of the Claudin Gene Family in the Teleost Fish, Fugu rubripes. Genome research. 14(7):1248-1257
Williams, H., Brenner, S., and Venkatesh, B. (2002) Identification and analysis of additional copies of the platelet-derived growth factor receptor and colony stimulating factor 1 receptor genes in fugu. Gene. 295(2):255-264