Pakistan Journal of Biological Sciences1028-88801812-5735Asian Network for Scientific Information10.3923/pjbs.2015.149.165Xenopus laevis]]>LiuWuyi LiFengmei 42015184Xenopus laevis is a long established model organism for developmental, behavioral and neurological studies. Herein, an updated genome-wide survey was conducted using the ongoing genome project of Xenopus laevis and 106 non-redundant Basic Helix-Loop-Helix (bHLH) genes were identified in the Xenopus laevis genome databases. Gene Ontology (GO) enrichment statistics showed 51 significant GO annotations of biological processes and molecular functions and 5 significant KEGG pathways and a number of Xenopus laevis bHLH genes play significant role in specific development or special physiology processes like the development processes of muscle and eye and other organs. Furthermore, each sub-group of the bHLH family has its special gene functions except for the common GO term categories. Molecular phylogenetic analyses revealed that among these identified bHLH proteins, 105 sequences could classified into 39 families with 46, 25, 10, 5, 16 and 3 members in the corresponding high-order groups A, B, C, D, E and F, respectively with an addition bHLH member categorized as an orphan. The present study provides much useful information for further researches on Xenopus laevis.]]>Artavanis-Tsakonas, S., K. Matsuno and M.E. Fortini,1995268225232Atchley, W.R. and W.M. Fitch,19979451725176Atchley, W.R., W. Terhalle and A. Dress,199948501516Atchley, W.R., K.R. Wollenberg, W.M. Fitch, W. Terhalle and A.W. Dress,200017164178Bowes, J.B., K.A. Snyder, E. Segerdell, R. Gibb and C. Jarabek et al.,2008Xenopus biology and genomics resource.]]>36D761D767Buck, M.J. and W.R. Atchley,200356742750Campos-Ortega, J.A.,1993Drosophila melanogaster.]]>2413051327Campos-Ortega, J.A.,1994Drosophila melanogaster.]]>88111122Campos-Ortega, J.A.,1995Drosophila melanogaster.]]>107589Carretero-Paulet, L., A. Galstyan, I. Roig-Villanova, J.F. Martinez-Garcia, J.R. Bilbao-Castro and D.L. Robertson,201015313981412Carruthers, S. and D.L. Stemple,2006Xenopustropicalis research.]]>17146153Dennis, G., B.T. Sherman, D.A. Hosack, J. Yang, W. Gao, H.C. Lane and R.A. Lempicki,20034R60R60Ellenberger, T., D. Fass, M. Arnaud and S.C. Harrison,19948970980Ferre-D'Amare, A.R., G.C. Prendergast, E.B. Ziff and S.K. Burley,19933633845Fisher, F. and C.R. Goding,19921141034109Fujii, Y., T. Shimizu, T. Toda, M. Yanagida and T. Hakoshima,20007889893Greenwald, I.,19981217511762Guindon, S. and O. Gascuel,200352696704Hellsten, U., R.M. Harland, M.J. Gilchrist, D. Hendrix and J. Jurka et al.,2010Xenopus tropicalis.]]>328633636Hellsten, U., M.K. Khokha, T.C. Grammer, R.M. Harland, P. Richardson and D.S. Rokhsar,2007Xenopus laevis.]]>2007Huang, D.W., B.T. Sherman and R.A. Lempicki,200844457Heim, M.A., M. Jakoby, M. Werber, C. Martin, B. Weisshaar and P.C. Bailey,200320735747Huelsenbeck, J.P. and F. Ronquist,200117754755Jones, D.T., W.R. Taylor and J.M. Thornton,19923275282Jones, S.,20042004Ledent, V. and M. Vervoort,20015754770Ledent, V., O. Paquet and M. Vervoort,20022002Li, J., Q. Liu, M. Qiu, Y. Pan, Y. Li and T. Shi,2006350648656Li, X., X. Duan, H. Jiang, Y. Sun and Y. Tang et al.,200614111671184Liu, W.Y. and C.J. Zhao,20102010Liu, W.Y. and C.J. Zhao,201149226241Liu, W.Y.,2011Xenopus Laevis BHLH transcription factors.]]>1616Liu, A., Y. Wang, C. Dang, D. Zhang, H. Song, Q. Yao and K. Chen,20122012Liu, A., Y. Wang, D. Zhang, X. Wang and H. Song et al.,2013288365380Liu, W.Y. and D.Y. Chen,2013Xenopus tropicalis basic helix-loop-helix transcription factors.]]>2013Luscombe, N.M., S.E. Austin, H.M. Berman and J.M. Thornton,20002000Massari, M.E. and C. Murre,200020429440Morgenstern, B. and W.R. Atchley,19991616541663Murre, C., P.S. McCaw and D. Baltimore,1989daughterless, MyoD and myc proteins.]]>56777783Nei, M., X. Gu and T. Sitnikova,19971577997806Nei, M. and A.P. Rooney,200539121152Nicholas, K.B. and H.B. Nicholas,19971997Pires, N. and L. Dolan,201027862874Riechmann, J.L., J. Heard, G. Martin, L. Reuber and C.Z. Jiang et al.,2000Arabidopsis transcription factors: Genome-wide comparative analysis among eukaryotes.]]>29021052110Ronquist, F. and J.P. Huelsenbeck,20031215721574Shimizu, T., A/ Toumoto, K. Ihara, M. Shimizu and Y. Kyogoku et al.,19971646894697Simionato, E., V. Ledent, G. Richards, M. Thomas-Chollier and P. Kerner et al.,20072007Simionato, E., P. Kerner, N. Dray, M. Le Gouar, V. Ledent, D. Arendt and M. Vervoort,20082008Skinner, M.K., A. Rawls, J. Wilson-Rawls and E.H. Roalson,20108018Stevens, J.D., E.H. Roalson and M.K. Skinner,20087610061022Streisfeld, M.A. and M.D. Rausher,20072428162826Tamura, K., J. Dudley, M. Nei and S. Kumar,20072415961599Toledo-Ortiz, G., E. Huq and P.H. Quail,20031517491770Thompson, J.D., T.J. Gibson, F. Plewniak, F. Jeanmougin and D.G. Higgins,19972548764882Wang, Y., K. Chen, Q. Yao, X. Zheng and Z. Yang,20096629640Wang, Y., K. Chen, Q. Yao, W. Wang and Z. Zhu,2007Bombyx mori.]]>217715723Wang, Y., K. Chen, Q. Yao, W. Wang and Z. Zhu,2008Apis mellifera.]]>8112Zheng, X., Y. Wang, Q. Yao, Z. Yang and K. Chen,200920236246Bowes, J.B., K.A. Snyder, E. Segerdell, C.J. Jarabek, K. Azam, A.M. Zorn and P.D. Vize,201038D607D612Karpinka J.B., J.D. Fortriede, K.A. Burns, C. James-Zorn, V.G. Ponferrada et al.,2015Xenopus model organism database; new virtualized system, data types and genomes.]]>43D756D763Hebsgaard, S.M., P.G. Korning, N. Tolstrup, J. Engelbrecht, P. Rouze and S. Brunak,1996Arabidopsis thaliana pre-mRNA by combining local and global sequence information.]]>2434393452