Genome Research

Home Help [Feedback] [For Subscribers] [Archive] [Search] [Contents]
 QUICK SEARCH:   [advanced]


     


This Article
Right arrow Full Text
Right arrow Full Text (PDF)
Right arrow Alert me when this article is cited
Right arrow Alert me if a correction is posted
Right arrow Citation Map
Services
Right arrow Email this article to a friend
Right arrow Similar articles in this journal
Right arrow Similar articles in PubMed
Right arrow Alert me to new issues of the journal
Right arrow Download to citation manager
Right arrow reprints & permissions
Citing Articles
Right arrow Citing Articles via HighWire
Right arrow Citing Articles via Google Scholar
Google Scholar
Right arrow Articles by Ledent, V.
Right arrow Articles by Vervoort, M.
Right arrow Search for Related Content
PubMed
Right arrow PubMed Citation
Right arrow Articles by Ledent, V.
Right arrow Articles by Vervoort, M.
Social Bookmarking
 Add to CiteULike   Add to Connotea   Add to Del.icio.us   Add to Digg   Add to Reddit   Add to Technorati  
What's this?

Vol. 11, Issue 5, 754-770, May 2001

LETTER
The Basic Helix-Loop-Helix Protein Family: Comparative Genomics and Phylogenetic Analysis

Valérie Ledent,1 and Michel Vervoort2,3

1 Belgian EMBnet Node, Bioinformatics Laboratory, Université Libre de Bruxelles, Department of Molecular Biology, B-6041 Gosselies, Belgium; 2 Evolution et Développement des Protostomiens, Centre de Génétique Moléculaire-UPR 2067 CNRS, 91198 Gif-sur-Yvette Cedex, France

The basic Helix-Loop-Helix (bHLH) proteins are transcription factors that play important roles during the development of various metazoans including fly, nematode, and vertebrates. They are also involved in human diseases, particularly in cancerogenesis. We made an extensive search for bHLH sequences in the completely sequenced genomes of Caenorhabditis elegans and of Drosophila melanogaster. We found 35 and 56 different genes, respectively, which may represent the complete set of bHLH of these organisms. A phylogenetic analysis of these genes, together with a large number (>350) of bHLH from other sources, led us to define 44 orthologous families among which 36 include bHLH from animals only, and two have representatives in both yeasts and animals. In addition, we identified two bHLH motifs present only in yeast, and four that are present only in plants; however, the latter number is certainly an underestimate. Most animal families (35/38) comprise fly, nematode, and vertebrate genes, suggesting that their common ancestor, which lived in pre-Cambrian times (600 million years ago) already owned as many as 35 different bHLH genes.


3 Corresponding author.


11:754-770 ©2001 by Cold Spring Harbor Laboratory Press  ISSN 1088-9051/01 $5.00

Add to CiteULike CiteULike   Add to Connotea Connotea   Add to Del.icio.us Del.icio.us   Add to Digg Digg   Add to Reddit Reddit   Add to Technorati Technorati    What's this?


This article has been cited by other articles:


Home page
Nucleic Acids ResHome page
A. Fischer and M. Gessler
Delta Notch and then? Protein interactions and proposed modes of repression by Hes and Hey bHLH factors
Nucleic Acids Res., July 14, 2007; 35(14): 4583 - 4596.
[Abstract] [Full Text] [PDF]


Home page
Eukaryot CellHome page
M. Chen and J. M. Lopes
Multiple Basic Helix-Loop-Helix Proteins Regulate Expression of the ENO1 Gene of Saccharomyces cerevisiae
Eukaryot. Cell, May 1, 2007; 6(5): 786 - 796.
[Abstract] [Full Text] [PDF]


Home page
J. Biol. Chem.Home page
Y. Kodama and H. Sano
Evolution of a Basic Helix-Loop-Helix Protein from a Transcriptional Repressor to a Plastid-resident Regulatory Factor: INVOLVEMENT IN HYPERSENSITIVE CELL DEATH IN TOBACCO PLANTS
J. Biol. Chem., November 17, 2006; 281(46): 35369 - 35380.
[Abstract] [Full Text] [PDF]


Home page
Plant Physiol.Home page
X. Li, X. Duan, H. Jiang, Y. Sun, Y. Tang, Z. Yuan, J. Guo, W. Liang, L. Chen, J. Yin, et al.
Genome-Wide Analysis of Basic/Helix-Loop-Helix Transcription Factor Family in Rice and Arabidopsis
Plant Physiology, August 1, 2006; 141(4): 1167 - 1184.
[Abstract] [Full Text] [PDF]


Home page
DevelopmentHome page
Y. Nakajima, M. Morimoto, Y. Takahashi, H. Koseki, and Y. Saga
Identification of Epha4 enhancer required for segmental expression and the regulation by Mesp2
Development, July 1, 2006; 133(13): 2517 - 2525.
[Abstract] [Full Text] [PDF]


Home page
J. Cell Sci.Home page
K. Tabu, A. Ohnishi, Y. Sunden, T. Suzuki, M. Tsuda, S. Tanaka, T. Sakai, K. Nagashima, and H. Sawa
A novel function of OLIG2 to suppress human glial tumor cell growth via p27Kip1 transactivation.
J. Cell Sci., April 1, 2006; 119(Pt 7): 1433 - 1441.
[Abstract] [Full Text] [PDF]


Home page
Plant CellHome page
V. Yadav, C. Mallappa, S. N. Gangappa, S. Bhatia, and S. Chattopadhyay
A Basic Helix-Loop-Helix Transcription Factor in Arabidopsis, MYC2, Acts as a Repressor of Blue Light-Mediated Photomorphogenic Growth
PLANT CELL, July 1, 2005; 17(7): 1953 - 1966.
[Abstract] [Full Text] [PDF]


Home page
DevelopmentHome page
S. J. Tapscott
The circuitry of a master switch: Myod and the regulation of skeletal muscle gene transcription
Development, June 15, 2005; 132(12): 2685 - 2695.
[Abstract] [Full Text] [PDF]


Home page
Proc. Natl. Acad. Sci. USAHome page
W. R. Atchley, J. Zhao, A. D. Fernandes, and T. Druke
Solving the protein sequence metric problem
PNAS, May 3, 2005; 102(18): 6395 - 6400.
[Abstract] [Full Text] [PDF]


Home page
Proc. Natl. Acad. Sci. USAHome page
W. R. Atchley and A. D. Fernandes
Sequence signatures and the probabilistic identification of proteins in the Myc-Max-Mad network
PNAS, May 3, 2005; 102(18): 6401 - 6406.
[Abstract] [Full Text] [PDF]


Home page
Mol. Cell. Biol.Home page
L. M. Powell, P. I. zur Lage, D. R. A. Prentice, B. Senthinathan, and A. P. Jarman
The Proneural Proteins Atonal and Scute Regulate Neural Target Genes through Different E-Box Binding Sites
Mol. Cell. Biol., November 1, 2004; 24(21): 9517 - 9526.
[Abstract] [Full Text] [PDF]


Home page
J. Biol. Chem.Home page
T. A. Gorr, J. D. Cahn, H. Yamagata, and H. F. Bunn
Hypoxia-induced Synthesis of Hemoglobin in the Crustacean Daphnia magna Is Hypoxia-inducible Factor-dependent
J. Biol. Chem., August 20, 2004; 279(34): 36038 - 36047.
[Abstract] [Full Text] [PDF]


Home page
J. Biol. Chem.Home page
T. A. Gorr, T. Tomita, P. Wappner, and H. F. Bunn
Regulation of Drosophila Hypoxia-inducible Factor (HIF) Activity in SL2 Cells: IDENTIFICATION OF A HYPOXIA-INDUCED VARIANT ISOFORM OF THE HIF{alpha} HOMOLOG GENE similar
J. Biol. Chem., August 20, 2004; 279(34): 36048 - 36058.
[Abstract] [Full Text] [PDF]


Home page
DevelopmentHome page
X.-J. Quan, T. Denayer, J. Yan, H. Jafar-Nejad, A. Philippi, O. Lichtarge, K. Vleminckx, and B. A. Hassan
Evolution of neural precursor selection: functional divergence of proneural proteins
Development, April 15, 2004; 131(8): 1679 - 1689.
[Abstract] [Full Text] [PDF]


Home page
Genes Dev.Home page
X. Karp and I. Greenwald
Post-transcriptional regulation of the E/Daughterless ortholog HLH-2, negative feedback, and birth order bias during the AC/VU decision in C. elegans
Genes & Dev., December 15, 2003; 17(24): 3100 - 3111.
[Abstract] [Full Text] [PDF]


Home page
DevelopmentHome page
C. Minguillon, S. Jimenez-Delgado, G. Panopoulou, and J. Garcia-Fernandez
The amphioxus Hairy family: differential fate after duplication
Development, December 15, 2003; 130(24): 5903 - 5914.
[Abstract] [Full Text] [PDF]


Home page
DevelopmentHome page
V. Chandrasekaran and S. K. Beckendorf
senseless is necessary for the survival of embryonic salivary glands in Drosophila
Development, October 1, 2003; 130(19): 4719 - 4728.
[Abstract] [Full Text] [PDF]


Home page
DevelopmentHome page
M. Thellmann, J. Hatzold, and B. Conradt
The Snail-like CES-1 protein of C. elegans can block the expression of theBH3-only cell-death activator gene egl-1 by antagonizing the function of bHLH proteins
Development, September 1, 2003; 130(17): 4057 - 4071.
[Abstract] [Full Text] [PDF]


Home page
Mol. Cell. Biol.Home page
L. Jiang and S. T. Crews
The Drosophila dysfusion Basic Helix-Loop-Helix (bHLH)-PAS Gene Controls Tracheal Fusion and Levels of the Trachealess bHLH-PAS Protein
Mol. Cell. Biol., August 15, 2003; 23(16): 5625 - 5637.
[Abstract] [Full Text] [PDF]


Home page
Plant CellHome page
G. Toledo-Ortiz, E. Huq, and P. H. Quail
The Arabidopsis Basic/Helix-Loop-Helix Transcription Factor Family
PLANT CELL, August 1, 2003; 15(8): 1749 - 1770.
[Abstract] [Full Text] [PDF]


Home page
DevelopmentHome page
L. D. Mathies, S. T. Henderson, and J. Kimble
The C. elegans Hand gene controls embryogenesis and early gonadogenesis
Development, July 1, 2003; 130(13): 2881 - 2892.
[Abstract] [Full Text] [PDF]


Home page
Mol Biol EvolHome page
M. A. Heim, M. Jakoby, M. Werber, C. Martin, B. Weisshaar, and P. C. Bailey
The Basic Helix-Loop-Helix Transcription Factor Family in Plants: A Genome-Wide Study of Protein Structure and Functional Diversity
Mol. Biol. Evol., May 1, 2003; 20(5): 735 - 747.
[Abstract] [Full Text] [PDF]


Home page
Proc. Natl. Acad. Sci. USAHome page
B. Cooper, J. D. Clarke, P. Budworth, J. Kreps, D. Hutchison, S. Park, S. Guimil, M. Dunn, P. Luginbuhl, C. Ellero, et al.
A network of rice genes associated with stress response and seed development
PNAS, April 15, 2003; 100(8): 4945 - 4950.
[Abstract] [Full Text] [PDF]


Home page
DevelopmentHome page
A. C. Oates and R. K. Ho
Hairy/E(spl)-related (Her) genes are central components of the segmentation oscillator and display redundancy with the Delta/Notch signaling pathway in the formation of anterior segmental boundaries in the zebrafish
Development, March 8, 2003; 129(12): 2929 - 2946.
[Abstract] [Full Text] [PDF]


Home page
DevelopmentHome page
N. Giagtzoglou, P. Alifragis, K. A. Koumbanakis, and C. Delidakis
Two modes of recruitment of E(spl) repressors onto target genes
Development, March 2, 2003; 130(2): 259 - 270.
[Abstract] [Full Text] [PDF]


Home page
cellbioedHome page
V. Griffin, T. McMiller, E. Jones, and C. M. Johnson
Identifying Novel Helix-Loop-Helix Genes in Caenorhabditis elegans through a Classroom Demonstration of Functional Genomics
CBE Life Sci Educ, March 1, 2003; 2(1): 51 - 62.
[Abstract] [Full Text] [PDF]


Home page
Mol. Cell. Biol.Home page
M. Kruger and T. Braun
The Neuronal Basic Helix-Loop-Helix Transcription Factor NSCL-1 Is Dispensable for Normal Neuronal Development
Mol. Cell. Biol., February 1, 2002; 22(3): 792 - 800.
[Abstract] [Full Text] [PDF]


Home page
DevelopmentHome page
A. K. Corsi, T. M. Brodigan, E. M. Jorgensen, and M. Krause
Characterization of a dominant negative C. elegans Twist mutant protein with implications for human Saethre-Chotzen syndrome
Development, January 6, 2002; 129(11): 2761 - 2772.
[Abstract] [Full Text] [PDF]


Home page
Genome Res.Home page
W. Makaimg001.gif" ALT="&lst
Are We Polyploids? A Brief History of One Hypothesis
Genome Res., May 1, 2001; 11(5): 667 - 670.
[Full Text]




Home Help [Feedback] [For Subscribers] [Archive] [Search] [Contents]
Genes Dev. Learn. Mem.
Protein Science RNA Genome Res.