Ultrabithorax


REFERENCES (part 1/2)

Abzhanov, A. and Kaufman, T. C. (2000). Crustacean (malacostracan) Hox genes and the evolution of the arthropod trunk. Development 127: 2239-2249. PubMed Citation: 10804167

Adamson, A. L. and Shearn, A. (1996). Molecular genetic analysis of Drosophila ash2, a member of the trithorax group required for imaginal disc pattern formation. Genetics 144(2): 621-33. 8889525

Affolter, M., Walldorf, U., Kloter, U., Schier, A.F. and Gehring, W.J. (1993). Regional repression of a Drosophila POU box gene in the endoderm involves inductive interactions between germ layers. Development 117: 1199-1210. 8104774

Affolter, M., Nellen, D., Nussbaumer, U. and Basler, K. (1994). Multiple requirements for the receptor serine/threonine kinase thick veins reveal novel functions of TGF beta homologs during Drosophila embryogenesis. Development 120: 3105-3117. 7720555

Ahn, J. H., et al. (2010). Drosophila castor is regulated negatively by the Ubx and abdA genes, but positively by the AbdB gene. Int. J. Dev. Biol. 54(8-9): 1251-8. PubMed Citation: 20563987

Ahn, Y., Mullan, H. E. and Krumlauf, R. (2014). Long-range regulation by shared retinoic acid response elements modulates dynamic expression of posterior Hoxb genes in CNS development. Dev Biol 388: 134-144. PubMed ID: 24525295

Alexandre, C. and Vincent, J. P. (2003). Requirements for transcriptional repression and activation by Engrailed in Drosophila embryos. Development 130: 729-739. 12506003

Andrew, D. J., et al. (1994). Setting limits on homeotic gene function: restraint of Sexcombs reduced activity by teashirt and other homeotic genes. EMBO J. 13: 1132-44. PubMed Citation: 7907545

Appel, B. and Sakonju, S. (1993). Cell-type-specific mechanisms of transcriptional repression by the homeotic gene products UBX and ABD-A in Drosophila embryos. EMBO J. 12: 1099-109. PubMed Citation: 8096172

Arnone, M. I. and Davidson, E. H. (1997). The hardwiring of development: organization and function of genomic regulatory systems. Development 124: 1851-1864. 9169833

Averof, M. and Patel, N. H. (1997). Crustacean appendage evolution associated with changes in Hox gene expession. Nature 388: 682-686. PubMed Citation: 9262403

Azpiazu, N. and Morata G. (1998). Functional and regulatory interactions between hox and extradenticle genes. Genes Dev. 12(2): 261-273. PubMed Citation: 9436985

Badenhorst, P., Voas, M., Rebay, I. and Wu, C. (2002). Biological functions of the ISWI chromatin remodeling complex NURF. Genes Dev. 16: 3186-3198. 12502740

Baena-Lopez, L. A., Rodriguez, I. and Baonza, A. (2008). The tumor suppressor genes dachsous and fat modulate different signalling pathways by regulating dally and dally-like. Proc Natl Acad Sci U S A 105: 9645-9650. PubMed ID: 18621676

Balavoine, G. (1996). Identification of members of several homeobox genes in a planarian using a ligation-mediated polymerase chain reaction technique. Nucleic Acids Res. 24(8): 1547-53. PubMed Citation: 8628690

Banreti, A., Hudry, B., Sass, M., Saurin, A. J. and Graba, Y. (2013). Hox proteins mediate developmental and environmental control of autophagy. Dev Cell 28(1):56-69. PubMed ID: 24389064

Beachy, P. A., et al. (1993). Cooperative binding of an Ultrabithorax homeodomain protein to nearby and distant DNA sites. Mol. Cell. Biol. 13: 6941-56. PubMed Citation: 8105373

Beh, C. Y., El-Sharnouby, S., Chatzipli, A., Russell, S., Choo, S. W. and White, R. (2016). Roles of cofactors and chromatin accessibility in Hox protein target specificity Epigenetics Chromatin 9: 1. PubMed ID: 26753000

Beisel, C., Imhof, A., Greene, J., Kremmer, E. and Sauer, F. (2002). Histone methylation by the Drosophila epigenetic transcriptional regulator Ash1. Nature 419(6909): 857-62. 12397363

Bejarano, F., Gonzalez, I., Vidal, M. and Busturia, A. (2005). The Drosophila RYBP gene functions as a Polycomb-dependent transcriptional repressor. Mech. Dev. 122(10): 1118-29. 16125914

Beisel, C., et al. (2007). Comparing active and repressed expression states of genes controlled by the Polycomb/Trithorax group proteins. Proc. Natl. Acad. Sci. 104(42): 16615-16620. Medline abstract: 17921257

Bender, W. and Hudson, A. (2000). P element homing to the Drosophila bithorax complex. Development 127: 3981-3992. PubMed Citation: 10952896

Bender, W. (2008). MicroRNAs in the Drosophila bithorax complex. Genes Dev. 22: 14-19. PubMed citation: 18172161

Bennett, R. L., Brown, S. J. and Denell, R. E. (1999). Molecular and genetic analysis of the Tribolium Ultrabithorax ortholog, Ultrathorax. Dev. Genes Evol. 209: 608-619. PubMed ID: 10552302

Birve, A., et al. (2001). Su(z)12, a novel Drosophila Polycomb group gene that is conserved in vertebrates and plants. Development 128: 3371-3379. 11546753

Bomze, H. M. and Lopez, A. J. (1994). Evolutionary conservation of the structure and expression of alternatively spliced Ultrabithorax isoforms from Drosophila. Genetics 136: 965-77. PubMed ID: 7911773

Bondos, S. E., et al. (2004). Hox transcription factor Ultrabithorax Ib physically and genetically interacts with disconnected interacting protein 1, a double-stranded RNA-binding protein. J. Biol. Chem. 279(25): 26433-44. PubMed Citation: 15039447

Botas, J. and Auwers, L. (1996). Chromosomal binding sites of Ultrabithorax homeotic proteins. Mech. Dev. 56: 129-38. PubMed ID: 8798153

Boube, M., Hudry, B., Immarigeon, C., Carrier, Y., Bernat-Fabre, S., Merabet, S., Graba, Y., Bourbon, H. M. and Cribbs, D. L. (2014). Drosophila melanogaster Hox Transcription Factors Access the RNA Polymerase II Machinery through Direct Homeodomain Binding to a Conserved Motif of Mediator Subunit Med19. PLoS Genet 10: e1004303. PubMed ID: 24786462

Bowman, S. K., Deaton, A. M., Domingues, H., Wang, P. I., Sadreyev, R. I., Kingston, R. E., Bender, W. (2014) H3K27 modifications define segmental regulatory domains in the Drosophila bithorax complex. Elife (Cambridge): e02833. PubMed ID: 25082344

Breen, T. R. and Harte, P. J. (1993). Trithorax regulates multiple homeotic genes in the bithorax and Antennapedia complexes and exerts different tissue-specific, parasegment-specific and promoter-specific effects on each. Development 117: 119-34. 7900984

Breiling, A., et al. (2001). General transcription factors bind promoters repressed by Polycomb group proteins. Nature 412: 651-655. 11493924

Brizuela, B. J., et al. (1994). Genetic analysis of the brahma gene of Drosophila melanogaster and polytene chromosome subdivisions 72AB. Genetics 137: 803-813

Brizuela, B. J. and Kennison, J. A. (1997). The Drosophila homeotic gene moira regulates expression of engrailed and HOM genes in imaginal tissues. Mech. Dev. 65(1-2): 209-220

Brown, J. L., Fritsch, C., Mueller, J. and Kassis, J. A. (2003). The Drosophila pho-like gene encodes a YY1-related DNA binding protein that is redundant with pleiohomeotic in homeotic gene silencing. Development 130: 285-294. 12466196

Brown, J. L., Grau, D. J., DeVido, S. K., Kassis, J. A. (2005). An Sp1/KLF binding site is important for the activity of a Polycomb group response element from the Drosophila engrailed gene. Nucleic Acids Res. 33(16): 5181-5189. PubMed Citation: 16155187

Brown, J. L. and Kassis, J. A. (2010). Spps, a Drosophila Sp1/KLF family member, binds to PREs and is required for PRE activity late in development. Development 137: 2597-2602. PubMed Citation: 20627963

Burnette, J. M., Hatton, A. R. and Lopeza, A. J. (1999). Trans-acting factors required for inclusion of regulated exons in the Ultrabithorax mRNAs of Drosophila melanogaster. Genetics 151: 1517-1529

Cao, R., et al. (2002). Role of Histone H3 lysine 27 methylation in Polycomb-Group silencing. Science 298: 1039-1043. 12351676

Capovilla, M., Brandt, M. and Botas, J. (1994). Direct regulation of decapentaplegic by Ultrabithorax and its role in Drosophila midgut morphogenesis. Cell 76: 461-75

Capovilla, M. and Botas, J. (1998). Functional dominance among Hox genes: repression dominates activation in the regulation of dpp. Development 125: 4949-4957

Carroll, S.B., Weatherbee, S.D. and Langeland, J.A. (1995). Homeotic genes and the regulation and evolution of insect wing number. Nature 375: 58-61

Castelli-Gair, J. E., et al. (1992a). Positive and negative cis-regulatory elements in the bithoraxoid region of the Drosophila Ultrabithorax gene. Mol. Gen. Genet. 234: 177-84

Casares, F., Calleja, M. and Sánchez-Herrero, E. (1996). functional similarity in appendage specification by the Ultrabithorax and abdominal-A Drosophila HOX genes. EMBO J. 15: 3934-42.

Casares, F., et al. (1997). Interactions of Drosophila Ultrabithorax regulatory regions with native and foreign promoters. Genetics 145 (1): 123-137

Castelli-Gair, J., Muller, J. and Bienz, M. (1992b). Function of an Ultrabithorax minigene in imaginal cells. Development 114: 877-86

Castelli-Gair, J., et al. (1994). Dissecting the temporal requirements for homeotic gene function. Development 120: 1983-1995

Castelli-Gair, J. and Akam, M. (1995). How the Hox gene Ultrabithorax specifies two different segments: the significance of spatial and temporal regulation within metameres. Development 121: 2973-2982

Chan, C-S., Rastelli, L. and Pirrotta, V. (1994). A Polycomb response element of the Ubx gene that determines an epigenetically inherited state of repression. EMBO J. 11: 2553-64

Chan, S. K., et al. (1994). The DNA binding specificity of Ultrabithorax is modulated by cooperative interactions with extradenticle, another homeoprotein. Cell 78: 603-615

Chan, S. K. and Mann, R. S. (1996). A structural model for a homeotic protein-extradenticle-DNA complex accounts for the choice of HOX protein in the heterodimer. Proc. Natl. Acad. Sci. 93: 5223-5228

Chang, Y. L., et al. (1995). Functional reconstruction of trans regulation of the Ultrabithorax promoter by the products of two antagonistic genes, trithorax and Polycomb. Mol. Cell. Biol. 15: 6601-6612

Chang, Y.-L., et al. (2001). Essential role of Drosophila Hdac1 in homeotic gene silencing. Proc. Natl. Acad. Sci. Vol. 98: 9730-9735. 11493709

Chang, Y.-L. et al. (2007). A double-bromodomain protein, FSH-S, activates the homeotic gene Ultrabithorax through a critical promoter-proximal region. Mol. Cell. Biol. 27(15): 5486-5498. Medline abstract: 17526731

Chauvet, S., et al. (2000). Distinct Hox protein sequences determine specificity in different tissues. Proc. Natl. Acad. Sci. 97: 4064-4069.

Chauvet, S., Maurel-Zaffran, C., Miassod, R., Jullien, N., Pradel, J., Aragnol, D. (2000). Characterization of charybde and scylla, two paralogous target genes of Hox and cofactor proteins in Drosophila. GenBank, Direct Submission

Chen, Y., et al. (1998). A genetic screen for modifiers of Drosophila decapentaplegic signaling identifies mutations in punt, Mothers against dpp and the BMP-7 homologue, 60A. Development 125(9): 1759-1768

Chiang, C. and Beachy, C. A. (1995a). Expression of a novel Toll-like gene spans the parasegment boundary and contributes to hedgehog function in the adult eye of Drosophila. Mech. Dev. 47(3): 225--239

Chiang, C., Young, K. E. and Beachy, P. A. (1995b). Control of Drosophila tracheal branching by the novel homeodomain gene unplugged, a regulatory target for genes of the bithorax complex. Development 121: 3901-3912

Chopra, V. S., et al. (2008). Transcriptional activation by GAGA factor is through its direct interaction with dmTAF3. Dev. Biol. 317(2): 660-70. PubMed Citation: 18367161

Chopra, V. S., Hong, J. W. and Levine, M. (2009a). Regulation of Hox gene activity by transcriptional elongation in Drosophila. Curr. Biol. 19: 688-693. PubMed Citation: 19345103

Chopra, V. S., Cande, J., Hong, J. W. and Levine, M. (2009b). Stalled Hox promoters as chromosomal boundaries. Genes Dev. 23(13): 1505-9. PubMed Citation: 19515973

Christen, B. and Bienz, M. (1992). A cis-element mediating Ultrabithorax autoregulation in the central nervous system. Mech. Dev. 39: 73-80

Christen, B. and Bienz, M. (1994). Imaginal disc silencers from Ultrabithorax: evidence for Polycomb response elements. Mech. Dev. 48: 255-266

Cimbora, D. M. and Sakonju, S. (1995). Drosophila midgut morphogenesis requires the function of the segmentation gene odd-paired. Dev. Biol. 169: 580-595

Collins, R. T. and Treisman, J. E. (2000). Osa-containing Brahma chromatin remodeling complexes are required for the repression of Wingless target genes. Genes Dev. 14: 3140-3152. 11124806

Comet, I., et al. (2006). PRE-mediated bypass of Two Su(Hw) insulators targets PcG proteins to a downstream promoter. Dev. Cell 11: 117-124. 16824958

Copur, O. and Muller, J. (2013). The histone H3-K27 demethylase Utx regulates HOX gene expression in Drosophila in a temporally restricted manner. Development 140: 3478-3485. PubMed ID: 23900545

Crickmore, M. A. and Mann, R. S. (2006). Hox control of organ size by regulation of morphogen production and mobility. Science 313(5783): 63-8. 16741075

Crickmore, M. A. and Mann, R. S. (2007). Hox control of morphogen mobility and organ development through regulation of glypican expression. Development 134(2): 327-34. Medline abstract: 17166918

Crickmore, M. A., Ranade, V. and Mann, R. S. (2009). Regulation of Ubx expression by epigenetic enhancer silencing in response to Ubx levels and genetic variation. PLoS Genet. 5(9): e1000633. PubMed Citation: 19730678

Crocker, J., Abe, N., Rinaldi, L., McGregor, A. P., Frankel, N., Wang, S., Alsawadi, A., Valenti, P., Plaza, S., Payre, F., Mann, R. S. and Stern, D. L. (2015). Low affinity binding site clusters confer hox specificity and regulatory robustness. Cell 160: 191-203. PubMed ID: 25557079

Curt, J. R., de Navas, L. F. and Sanchez-Herrero, E. (2013). Differential activity of Drosophila Hox genes induces myosin expression and can maintain compartment boundaries. PLoS One 8: e57159. PubMed ID: 23451173

Dai, H., et al. (2000). The zinc finger protein Schnurri acts as a Smad partner in mediating the transcriptional response to Decapentaplegic. Dev. Bio. 227: 373-387.

Deuring, R., et al. (2000). The ISWI chromatin-remodeling protein is required for gene expression and the maintenance of higher order chromatin structure in vivo. Molec. Cell 5: 355-365.

Dejardin, J., Rappaillles, A., Cuvier, O., Grimaud, C., Decoville, M., Locker, D. and Cavalli, G. (2005). Recruitment of Drosophila Polycomb group proteins to chromatin by DSP1. Nature 434: 533-538. 15791260

de Navas, L. F., Garaulet, D. L. and Sanchez-Herrero, E. (2006). The Ultrabithorax Hox gene of Drosophila controls haltere size by regulating the Dpp pathway. Development 133: 4495-4506. PubMed ID: 17050628

Diaz-de-la-Loza, M. D., Loker, R., Mann, R. S., Thompson, B. J. (2020). Control of tissue morphogenesis by the HOX gene Ultrabithorax. Development, 147(5) PubMed ID: 32122911

Di Stefano, L., Ji, J. Y., Moon, N. S., Herr, A. and Dyson, N. (2007). Mutation of Drosophila Lsd1 disrupts H3-K4 methylation, resulting in tissue-specific defects during development. Curr. Biol. 17(9): 808-12. Medline abstract: 17462898

Draganescu, A., Levin, J. R. and Tullius, T. D. (1995). Homeodomain proteins: what governs their ability to recognize specific DNA sequences? J. Mol. Biol. 250: 595-608

Dynlacht, B. D., et al. (1989). Functional analysis of NTF-1, a developmentally regulated Drosophila transcription factor that binds neuronal cis elements. Genes Dev. 3: 1677-1688

Ekker, S. C., et al. (1994). The degree of variation in DNA sequence recognition among four Drosophila homeotic proteins. EMBO J. 13: 3551-3560

Elfring, L. K., et al. (1998). Genetic analysis of brahma: the Drosophila homolog of the yeast chromatin remodeling factor SWI2/SNF2. Genetics 148(1): 251-265

Enriquez, J., et al. (2010). Multi-step control of muscle diversity by Hox proteins in the Drosophila embryo. Development 137(3): 457-66. PubMed Citation: 20056681

Eresh, S., et al. (1997). A CREB-binding site as a target for decapentaplegic signalling during Drosophila endoderm induction. EMBO J. 16: 2014-22

Erokhin, M., Elizar'ev, P., Parshikov, A., Schedl, P., Georgiev, P. and Chetverina, D. (2015). Transcriptional read-through is not sufficient to induce an epigenetic switch in the silencing activity of Polycomb response elements. Proc Natl Acad Sci U S A. 112(48):14930-5 PubMed ID: 26504232

Fang, M., Ren, H., Liu, J., Cadigan, K. M., Patel, S. R. and Dressler, G. R. (2009). Drosophila ptip is essential for anterior/posterior patterning in development and interacts with the PcG and trxG pathways. Development 136(11): 1929-38. PubMed Citation: 19429789

Faucheux, M., et al. (2003). batman interacts with Polycomb and trithorax group genes and encodes a BTB/POZ protein that is included in a complex containing GAGA factor. Molec. Cell. Bio. 23: 1181-1195. 12556479

Feinstein, P. G., et al. (1995). Identification of homeotic target genes in Drosophila melanogaster including nervy, a proto-oncogene homologue. Genetics 140: 573-586

Feng, S., Rastogi, C., Loker, R., Glassford, W. J., Tomas Rube, H., Bussemaker, H. J. and Mann, R. S. (2022). Transcription factor paralogs orchestrate alternative gene regulatory networks by context-dependent cooperation with multiple cofactors. Nat Commun 13(1): 3808. PubMed ID: 35778382

Foos, N., Maurel-Zaffran, C., Mate, M. J., Vincentelli, R., Hainaut, M., Berenger, H., Pradel, J., Saurin, A. J., Ortiz-Lombardia, M. and Graba, Y. (2015) A flexible extension of the Drosophila Ultrabithorax homeodomain defines a novel Hox/PBC interaction model. Structure 23: 270-279. PubMed ID: 25651060

Formosa, T., Eriksson, P., Wittmeyer, J., Ginn, J., Yu, Y., and Stillman, D.J. (2001). Spt16-Pob3 and the HMG protein Nhp6 combine to form the nucleosome-binding factor SPN. EMBO J. 20: 3506-3517. 11432837

Frayne, E. G. and Sato, T. (1991). The Ultrabithorax gene of Drosophila and the specification of abdominal histoblasts. Dev. Biol. 146: 265-77

Fritsch, C., et al. (1999). The DNA-binding Polycomb group protein Pleiohomeotic mediates silencing of a Drosophila homeotic gene. Development 126: 3905-3913

Fujioka M., Yusibova G. L., Zhou J. and Jaynes J. B. (2008). The DNA-binding Polycomb-group protein Pleiohomeotic maintains both active and repressed transcriptional states through a single site. Development 135: 4131-4139. PubMed Citation: 19029043

Gabilondo, H., Rubio-Ferrera, I., Losada-Perez, M., Del Saz, D., Leon, Y., Molina, I., Torroja, L., D, W. A. and Benito-Sipos, J. (2018). Segmentally homologous neurons acquire two different terminal neuropeptidergic fates in the Drosophila nervous system. PLoS One 13(4): e0194281. PubMed ID: 29634720

Galant, R. and Carroll, S. B. (2002). Evolution of a transcriptional repression domain in an insect Hox protein. Nature 415(6874): 910-3. 11859369

Gao, S., Steffen, J. and Laughon, A. (2005). Dpp-responsive silencers are bound by a trimeric Mad-Medea complex. J. Biol. Chem. 280: 36158-36164. PubMed citation: 16109720

Garcia, E., et al. (1999). RYBP, a new repressor protein that interacts with components of the mammalian Polycomb complex, and with the transcription factor YY1. EMBO J. 18(12): 3404-18. 10369680

Gavis, E. R. and Hogness, D. S. (1991). Phosphorylation, expression and function of the Ultrabithorax protein family in Drosophila melanogaster. Development 112: 1077-93

Gebelein, B., et al. (2002). Specificity of Distalless repression and limb primordia development by Abdominal Hox proteins. Developmental Cell 3: 487-498. 12408801

Gebelein. B., McKay, D. J. and Mann, R. S. (2004). Direct integration of Hox and segmentation gene inputs during Drosophila development. Nature 431: 653-659. 16556799

Gemkow, M. J., Verveer, P. J. and Arndt-Jovin, D. J. (1998). Homologous association of the Bithorax-Complex during embryogenesis: consequences for transvection in Drosophila melanogaster. Development 125(22): 4541-4552

Geyer, A., Koltsaki, I., Hessinger, C., Renner, S. and Rogulja-Ortmann, A. (2015). Impact of Ultrabithorax alternative splicing on Drosophila embryonic nervous system development. Mech Dev 138 Pt 2:177-189. PubMed ID: 26299253

Gibson, G., Wemple, M. and Helden, S. v. (1999). Potential variance affecting homeotic Ultrabithorax and Antennapedia phenotypes in Drosophila melanogaster. Genetics 151: 1081-1091

Gilchrist, D. A., et al. (2008). NELF-mediated stalling of Pol II can enhance gene expression by blocking promoter-proximal nucleosome assembly. Genes Dev. 22: 1921-1933. PubMed Citation: 18628398

Gonzalez-Gaitan, M. A., Micol, J. L. and Garcia-Bellido, A. (1990). Developmental genetic analysis of Contrabithorax mutations in Drosophila melanogaster. Genetics 126: 139-55

Gonzalez-Reyes, A., Macias, A. and Morata, G. (1992). Autocatalysis and phenotypic expression of Drosophila homeotic gene Deformed: its dependence on polarity and homeotic gene function. Development 116: 1059-68

Gorfinkiel, N., Fanti, L., Melgar, T., Garcia, E., Pimpinelli, S., Guerrero, I. and Vidal, M. (2004). The Drosophila Polycomb group gene Sex combs extra encodes the ortholog of mammalian Ring1 proteins. Mech. Dev. 121(5): 449-62. 15147763

Gould, A. P., et al. (1990). Blocking cell division does not remove the requirement for Polycomb function in Drosophila embryogenesis. Development 110: 1319-25

Gould, A. P. and White, R. A. (1992). Connectin, a target of homeotic gene control in Drosophila. Development 116: 1163-74

Graba, Y., et al. (1992). Homeotic control in Drosophila; the scabrous gene is an in vivo target of Ultrabithorax proteins. EMBO J. 11: 3375-84

Graba, Y., Laurenti, P., Perrin, L., Aragnol, D. and Pradel, J. (1994). The modifier of variegation modulo gene acts downstream of dorsoventral and HOM-C genes and is required for morphogenesis in Drosophila. Dev. Biol. 166: 704-715. 7813788

Grbic, M. and Strand, M. R. (1998). Shifts in the life history of parasitic wasps correlate with pronounced alterations in early development. Proc. Natl. Acad. Sci. 95(3): 1097-1101

Greer, J. M. and Capecchi, M. R. (2002). Hoxb8 is required for normal grooming behavior in mice. Neuron 33: 23-34. 11779477

Grenier, J. K. and Carroll, S. B. (2000). Functional evolution of the Ultrabithorax protein. Proc. Natl. Acad. Sci. 97: 704-709.

Grienenberger. A., et al. (2002). The MYST domain acetyltransferase Chameau functions in epigenetic mechanisms of transcriptional repression. Curr. Biol. 12(9): 762-6. 12007422

Grimm, C., et al. (2009). Molecular recognition of histone lysine methylation by the Polycomb group repressor dSfmbt. EMBO J. 28: 1965-1977. PubMed Citation: 19494831

Grun, D., Wang, Y.L., Langenberger, D., Gunsalus, K. C., and Rajewsky, N. (2005). microRNA target predictions across seven Drosophila species and comparison to mammalian targets. PLoS Comput. Biol. 1: e13. 16103902

Gupta, R. P., Bajpai, A. and Sinha, P. (2017). Selector genes display tumor cooperation and inhibition in Drosophila epithelium in a developmental context-dependent manner. Biol Open 6(11): 1581-1591. PubMed ID: 29141951

Haerry, T. E., and Gehring, W. J. (1997). A conserved cluster of homeodomain binding sites in the mouse Hoxa-4 intron functions in Drosophila embryos as an enhancer that is directly regulated by Ultrabithorax. Dev. Biol. 186: 1-15

Hagstrom, K., Muller, M. and Schedl, P. (1997). A Polycomb and GAGA dependent silencer adjoins the Fab-7 boundary in the Drosophila bithorax complex. Genetics 146(4): 1365-1380

Harada, K., et al. (2009). Identification of targets of Prox1 during in vitro vascular differentiation from embryonic stem cells: functional roles of HoxD8 in lymphangiogenesis. J. Cell Sci. 122(Pt 21): 3923-30. PubMed Citation: 19825936

Hersh, B. M. and Carroll, S. B. (2005). Direct regulation of knot gene expression by Ultrabithorax and the evolution of cis-regulatory elements in Drosophila. Development 132(7): 1567-77. 15753212

Hessinger, C., Technau, G.M. and Rogulja-Ortmann, A. (2016). The Drosophila Hox gene Ultrabithorax acts both in muscles and motoneurons to orchestrate formation of specific neuromuscular connections. Development [Epub ahead of print]. PubMed ID: 27913640

Heuer, J. G., Li, K and Kaufman, T. C. (1995). The Drosophila homeotic target gene centrosomin (cnn) encodes a novel centrosomal protein with leucine zippers and maps to a genomic region required for midgut morphogenesis. Development 121: 3861-3876. 8582295

Hinz, U., Wolk, A. and Renkawitz-Pohl, R. (1992). Ultrabithorax is a regulator of beta 3 tubulin expression in the Drosophila visceral mesoderm. Development 116: 543-54

Hittinger, C. T., Stern, D. L. and Carroll, S. B. (2005). Pleiotropic functions of a conserved insect-specific Hox peptide motif. Development 132: 5261-5270. PubMed Citation: 16267091

Hirth, F., Hartmann, B. and Reichert, H. (1998). Homeotic gene action in embryonic brain development of Drosophila. Development 125: 1579-1589

Hittinger, C. T., Stern, D. L. and Carroll, S. B. (2005). Pleiotropic functions of a conserved insect-specific Hox peptide motif. Development 132(23): 5261-70. 16267091

Hodgson, J. W., Argiropoulos, B. and Brock, H. W. (2001). Site-specific recognition of a 70-base-pair element containing d(GA)n repeats mediates bithoraxoid Polycomb group response element-dependent silencing. Mol. Cell. Biol. 21: 4528-4543. 11416132

Horard, B., et al. (2000). Structure of a polycomb response element and in vitro binding of polycomb group complexes containing GAGA factor. Mol. Cell. Biol. 20: 3187-3197.

Huang, D.-H., et al. (2002). pipsqueak encodes a factor essential for sequence-specific targeting of a polycomb group protein complex. Mol. Cell. Biol. 22: 6261-6271. 12167718

Hughes, C. L. and Kaufman, T. C. (2002). Exploring the myriapod body plan: expression patterns of the ten Hox genes in a centipede. Development 129: 1225-1238. 11874918

Hur, M.-W., et al. (2002). Zeste maintains repression of Ubx transgenes: support for a new model of Polycomb repression. Development 129: 1339-1343. 11880343

Hursh, D. A., Padgett, R. W. and Gelbart, W. M. (1993). Cross regulation of decapentaplegic and Ultrabithorax transcription in the embryonic visceral mesoderm of Drosophila. Development 117: 1211-22

Iampietro, C., Cléard, F., Gyurkovics, H., Maeda, R. K. and Karch, F. (2008). Boundary swapping in the Drosophila Bithorax complex. Development 135(24): 3983-7. PubMed Citation: 18987027

Irvine, K. D., Helfand, S. L. and Hogness, D. S. (1991). The large upstream control region of the Drosophila homeotic gene Ultrabithorax. Development 111: 407-24

Irvine, K. D., et al. (1993). Negative autoregulation by Ultrabithorax controls the level and pattern of its expression. Development 117: 387-99. 7900988

Janody, F., et al. (2004). A mosaic genetic screen reveals distinct roles for trithorax and Polycomb group genes in Drosophila eye development. Genetics 166: 187-200. 15020417

Jiang, N., Emberly, E., Cuvier, O. and Hart, C. M. (2009). Genome-wide mapping of BEAF binding sites in Drosophila links BEAF to transcription. Mol. Cell. Biol. 29(13): 3556-68. PubMed Citation: 19380483

Johnson, F. B., Parker, E. and Krasnow, M. A. (1995). Extradenticle protein is a selective cofactor for the Drosophila homeotics: role of the homeodomain and YPWM amino acid motif in the interaction. Proc. Natl. Acad. Sci. 92: 739-743

Kahn, T. G., Schwartz, Y. B., Dellino, G. I. and Pirrotta, V. (2006). Polycomb complexes and the propagation of the methylation mark at the Drosophila Ubx gene. J. Biol. Chem. 281(39): 29064-75. Medline abstract: 16887811

Kang, S. Y., Kim, S. N., Kim, S. H. and Jeon, S. H. (2006). Temporal and spatial expression of homeotic genes is important for segment-specific neuroblast 6-4 lineage formation in Drosophila. Mol. Cells 21(3): 436-42. Medline abstract: 16819308

Kaplan, C. D., Morris, J. R., Wu, C. and Winston, F. (2000). Spt5 and spt6 are associated with active transcription and have characteristics of general elongation factors in D. melanogaster. Genes Dev. 14: 2623-2634. PubMed Citation: 11040216

Kaschula, R., Pinho, S. and Alonso, C. R. (2018). microRNA-dependent regulation of Hox gene expression sculpts fine-grain morphological patterns in a Drosophila appendage. Development. PubMed ID: 30143542

Katsani, K. R., Hajibagheri, M. A. and Verrijzer, C. P. (1999). Co-operative DNA binding by GAGA transcription factor requires the conserved BTB/POZ domain and reorganizes promoter topology. EMBO J. 18(3): 698-708

Kehle, J., et al. (1998). dMi-2, a Hunchback-interacting protein that functions in Polycomb repression. Science 282(5395): 1897-900

Kim, J., et al. (1997). Drosophila Mad binds to DNA and directly mediates activation of vestigial by Decapentaplegic. Nature 388: 304-8

Kim, K. H. and Yoo, S. (2013). Sequence-specific interaction between ABD-B homeodomain and castor gene in Drosophila. BMB Rep. Epub ahead of print] PubMed ID: 24219869

Kim, S. Y., Paylor, S.W., Magnuson, T. and Schumacher, A. (2006). Juxtaposed Polycomb complexes co-regulate vertebral identity. Development 133(24): 4957-68. Medline abstract: 17107999

Kirkpatrick, H., Johnson, K. and Laughon, A. (2001). Repression of Dpp targets by binding of Brinker to Mad sites. J. Biol. Chem. 276: 18216-18222. 11262410

Klymenko, T., Papp, B., Fischle, W., Köcher, T., Schelder, M., Fritsch, C., Wild, B., Wilm, M. and Müller, J. (2006). A Polycomb group protein complex with sequence-specific DNA-binding and selective methyl-lysine-binding activities. Genes Dev. 20: 1110-1122. Medline abstract: 16618800

Kopp, A., and Duncan, I. (2002). Anteroposterior patterning in adult abdominal segments of Drosophila. Dev. Biol. 242: 15-30. PubMed Citation: 11795937

Kornfeld, K., et al. (1989). Structure and expression of a family of Ultrabithorax mRNAs generated by alternative splicing and polyadenylation in Drosophila. Genes Dev. 3: 243-258. PubMed Citation: 2565858

Kremser, T., et al. (1999). Expression of the beta3 tubulin gene (beta Tub60D) in the visceral mesoderm of Drosophila is dependent on a complex enhancer that binds Tinman and UBX. Mol. Gen. Genet. 262(4-5): 643-58. PubMed Citation: 10628847

Kurant, E., et al. (1998). dorsotonals/ homothorax, the Drosophila homologue of meis1, interacts with extradenticle in patterning of the embryonic PNS. Development 125: 1037-1048. PubMed Citation: 9463350

LaBeau, E. M., Trujillo, D. L. and Cripps, R. M. (2009). Bithorax complex genes control alary muscle patterning along the cardiac tube of Drosophila. Mech. Dev. 126(5-6): 478-86. PubMed Citation: 19272319

LaJeunesse, D. and Shearn, A. (1995). Trans-regulation of thoracic homeotic selector genes of the Antennapedia and bithorax complexes by the trithorax group genes: absent, small, and homeotic discs 1 and 2. Mech. Dev. 53: 123-39

Lamka, M. L., Boulet, A. M. and Sakonju, S. (1993). Ectopic expression of UBX and ABD-B proteins during Drosophila embryogenesis: competition, not a functional hierarchy, explains phenotypic suppression. Development 116: 841-54

Laney. J. D. and Biggin, M. D. (1992). zeste, a nonessential gene, potently activates Ultrabithorax transcription in the Drosophila embryo. Genes Dev. 6: 1531-41

Laney, J. D. and Biggin, M. D. (1996). Redundant control of Ultrabithorax by zeste involves functional levels of zeste protein binding at the Ultrabithorax promoter. Development 122: 2303-11

Laney, J. D. and Biggin, M. D. (1997). Zeste-mediated activation by an enhancer is independent of cooperative DNA binding in vivo. Proc. Natl. Acad. Sci. 94: 3602-3604

Lanzuolo, C., et al. (2007). Polycomb response elements mediate the formation of chromosome higher-order structures in the bithorax complex. Nat. Cell Biol. 9: 1167-1174. PubMed Citation: 17828248

Lawrence, N., et al. (2001). Notch signaling targets the Wingless responsiveness of a Ubx visceral mesoderm enhancer in Drosophila. Curr. Biol. 11: 375-385. 11301248

Lee, C., et al. (2008). NELF and GAGA factor are linked to promoter-proximal pausing at many genes in Drosophila. Mol. Cell. Biol. 28: 3290-3300. PubMed Citation: 18332113

Lewis, D. L., DeCamillis, M. and Bennett, R. L. (2000). Distinct roles of the homeotic genes Ubx and abd-A in beetle embryonic abdominal appendage development. Proc. Natl. Acad. Sci. 97: 4504-4509

Lewis, E. B., et al. (2003). Evolution of the homeobox complex in the Diptera. Curr. Biol. 13: R587-R588. 12906807

Li H., et al. (2008). The role of transcription factors Sp1 and YY1 in proximal promoter region in initiation of transcription of the Mu opioid receptor gene in human lymphocytes. J. Cell. Biochem. 104: 237-237. PubMed Citation: 17990281

Li, H., Qi, Y. and Jasper, H. (2016). Ubx dynamically regulates Dpp signaling by repressing Dad expression during copper cell regeneration in the adult Drosophila midgut. Dev Biol. PubMed ID: 27570230

Li, J., Kong, Y., Sun, L., Tang, Y., Sun, X., Qin, S. and Li, M. (2023). Overexpression of Ultrabithorax Changes the Development of Silk Gland and the Expression of Fibroin Genes in Bombyx mori. Int J Mol Sci 24(7). PubMed ID: 37047645

Li, X. Y., et al. (2011) The role of chromatin accessibility in directing the widespread, overlapping patterns of Drosophila transcription factor binding. Genome Biol. 12: R34. PubMed Citation: 21473766

Li, L., et al. (1996). pH-dependent enhancement of DNA binding by the Ultrabithorax homeodomain. Biochemistry 35: 9832-9839

Li, X. and McGinnis, W. (1999). Activity regulation of Hox proteins, a mechanism for altering functional specificity in development and evolution. Proc. Natl. Acad. Sci. 96: 6802-6807.

Liang, Z. and Biggin, M. D. (1998). Eve and Ftz regulate a wide array of genes in blastoderm embryos: the selector homeoproteins directly or indirectly regulate most genes in Drosophila. Development 125(22): 4471-4482

Lin, L. and McGinnis, W. (1992). Mapping functional specificity in the Dfd and Ubx homeo domains. Genes Dev 6: 1071-81

Liu, Y., Matthews, K. S. and Bondos, S. E. (2008b). Multiple intrinsically disordered sequences alter DNA binding by the homeodomain of the Drosophila hox protein ultrabithorax. J. Biol. Chem. 283: 20874-20887. PubMed Citation: 18508761

Liu, Y., Huang, A., Booth, R. M., Mendes, G. G., Merchant, Z., Matthews, K. S. and Bondos, S. E. (2018). Evolution of the activation domain in a Hox transcription factor. Int J Dev Biol 62(11-12): 745-753. PubMed ID: 30604844

Lo, P. C. H., Skeath, J. B., Gajewski, K. Schulz, R. A. and Frasch, M. (2002). Homeotic genes autonomously specify the anteroposterior subdivision of the Drosophila dorsal vessel into aorta and heart. Dev. Bio. 251: 307-319. 12435360

Lohr, U. and Pick, L. (2005). Cofactor-interaction motifs and the cooption of a homeotic Hox protein into the segmentation pathway of Drosophila melanogaster. Curr. Biol. 15: 643-649. 15823536

Lohr, U., Yussa, M. and Pick, L. (2001). Drosophila fushi tarazu. a gene on the border of homeotic function. Curr. Biol. 11: 1403-1412. 11566098

Lópiez, A. J., Artero, R. D. and Pérez-Alonso, M. (1996). Stage, tissue, and cell specific distribution of alternative Ultrabithorax mRNAs and protein isoforms in the Drosophila embryo. Roux's Arch. Dev. Biol. 205: 450-459

Lu, D., Li, Z., Li, L., Yang, L., Chen, G., Yang, D., Zhang, Y., Singh, V., Smith, S., Xiao, Y., Wang, E., Ye, Y., Zhang, W., Zhou, L., Rong, Y. and Zhou, J. (2018). The Ubx Polycomb response element bypasses an unpaired Fab-8 insulator via cis transvection in Drosophila. PLoS One 13(6): e0199353. PubMed ID: 29928011

Lu, H.-C., et al. (1997). Retinoid signaling is required for the establishment of a ZPA and for the expression of Hoxb-8, a mediator of ZPA formation. Development 124: 1643-1651. 9165113

Magbanua, J. P., Runneburger, E., Russell, S. and White, R. (2014). A variably occupied CTCF binding site in the Ultrabithorax gene in the Drosophila Bithorax Complex. Mol Cell Biol 35(1):318-30. PubMed ID: 25368383

Mahmoudi, T., Zuijderduijn, L. M., Mohd-Sarip, A. and Verrijzer, C. P. (2003). GAGA facilitates binding of Pleiohomeotic to a chromatinized Polycomb response element. Nucleic Acids Res. 31(14): 4147-56. 12853632

Makhijani, K., Kalyani, C., Srividya, T. and Shashidhara, L. S. (2007). Modulation of Decapentaplegic gradient during haltere specification in Drosophila. Dev Biol 302: 243-255. PubMed ID: 17045257

Mallina, D. R., et al. (1998). Polycomb group repression is blocked by the Drosophila suppressor of Hairy-wing [su(Hw)] insulator. Genetics 148(1): 331-339

Manak, J. R. Mathies, L. D. and Scott, M. P. (1994). Regulation of a decapentaplegic midgut enhancer by homeotic proteins. Development 120: 3605-3619. 78212267821226

Mann, R. S. and Hogness, D. S. (1990). Functional dissection of Ultrabithorax proteins in D. melanogaster. Cell 60: 597-610

Mann, R. S. (1994). Engrailed-mediated repression of Ultrabithorax is necessary for the parasegment 6 identity in Drosophila. Development 120: 3205-3212

Marchetti, M., et al. (2003). Differential expression of the Drosophila BX-C in polytene chromosomes in cells of larval fat bodies: a cytological approach to identifying in vivo targets of the homeotic Ubx, Abd-A and Abd-B proteins. Development 130: 3683-3689. 12835385

Martinez-Laborda, A., Serrano-Cartagena, J. and Micol, J. L. (1996). A genetic analysis of bx bxd cis double mutants in the Drosophila Ultrabithorax gene. Mol. Gen. Genet. 250: 540-546

Mastick, G. S., et al. (1995). Identification of target genes regulated by homeotic proteins in Drosophila melanogaster through genetic selection of Ultrabithorax protein-binding sites in yeast. Genetics 139: 349-363

Mathies, L.D., Kerridge, S. and Scott, M.P. (1994). Role of the teashirt gene in Drosophila midgut morphogenesis: secreted proteins mediate the action of homeotic genes. Development 120: 2799-2809. 7607071

McCall, K., O'Connor, M. B. and Bender, W. (1994). Enhancer traps in the Drosophila bithorax complex mark parasegmental domains. Genetics 138: 387-399

McCall, K. and Bender, W. (1996). Probes of chromatin accessibility in the Drosophila bithorax complex respond differently to Polycomb-mediated repression. EMBO J. 15: 569-580

McClure, K. D. and Schubiger, G. (2005). Developmental analysis and squamous morphogenesis of the peripodial epithelium in Drosophila imaginal discs. Development 132(22): 5033-42. 16236766

McCormick, A., et al. (1995). Homeotic response elements are tightly linked to tissue-specific elements in a transcriptional enhancer of the teashirt gene. Development 121: 2799-2812. 7555708

McKay, D. J. and Lieb, J. D. (2013). A common set of DNA regulatory elements shapes Drosophila appendages. Dev Cell 27: 306-318. PubMed ID: 24229644

Michelson, A. M. (1994). Muscle pattern diversification in Drosophila is determined by the autonomous function of homeotic genes in the embryonic mesoderm. Development 120: 755-768

Mihaly, J., Misra, R. K. and Karch, F. (1998). A conserved sequence motif in Polycomb-response elements. Mol. Cell 1: 1065-1066

Miller, D. F. B., et al. (2001). Cross-regulation of Hox genes in the Drosophila melanogaster embryo. Mech. Dev. 102: 3-16. 11287177

Merabet, S., Saadaoui, M., Sambrani, N., Hudry, B., Pradel, J., Affolter, M. and Graba, Y. (2007). A unique Extradenticle recruitment mode in the Drosophila Hox protein Ultrabithorax. Proc. Natl. Acad. Sci. 104(43): 16946-51. PubMed Citation: 17942685

Mishra, R. K., et al. (2001). The iab-7 Polycomb response element maps to a nucleosome-free region of chromatin and requires both GAGA and Pleiohomeotic for silencing activity. Mol. Cell. Bio. 21: 1311-1318. 11158316

Mishra, K., et al. (2003). Trl-GAGA directly interacts with lola like and both are part of the repressive complex of Polycomb group of genes. Mech. Dev. 120: 681-689. 12834867

Moazzen, H., Rosenfeld, R. and Percival-Smith, A. (2009). Non-requirement of a regulatory subunit of Protein Phosphatase 2A, PP2A-B', for activation of Sex comb reduced activity in Drosophila melanogaster. Mech. Dev. 126(8-9): 605-10. PubMed Citation: 19563886

Mohd-Sarip, A., Venturini, F., Chalkley, G.E. and Verrijzer, C.P. (2002). Pleiohomeotic can link polycomb to DNA and mediate transcriptional repression. Mol. Cell Biol. 22: 7473-7483. 12370294

Mohd-Sarip, A., et al. (2005). Synergistic recognition of an epigenetic DNA element by Pleiohomeotic and a Polycomb core complex. Genes Dev. 19: 1755-1760. 16077005

Mohd-Sarip, A., van der Knaap, J. A., Wyman, C., Kanaar, R., Schedl, P. and Verrijzer, C. P. (2006). Architecture of a polycomb nucleoprotein complex. Mol. Cell 24(1): 91-100. Medline abstract: 17018295

Mohit, P., et al. (2005). Modulation of AP and DV signaling pathways by the homeotic gene Ultrabithorax during haltere development in Drosophila. Dev. Biol. 291(2): 356-67. 16414040

Monier, B., Astier, M., Semeriva, M. and Perrin, L. (2005). Steroid-dependent modification of Hox function drives myocyte reprogramming in the Drosophila heart. Development 132(23): 5283-93. 16284119

Moris-Sanz, M., Estacio-Gómez, A., Sánchez-Herrero, E and Díaz-Benjumea, F.J. (2015). The study of the Bithorax-complex genes in patterning CCAP neurons reveals a temporal control of neuronal differentiation by Abd-B. Biol Open 4(9):1132-42. PubMed ID: 26276099

Mortin, M. A., et al. (1992). Mutations in the second-largest subunit of Drosophila RNA polymerase II interact with Ubx. Genetics 131: 895-903

Moshkin, Y. M., et al. (2001). The Bithorax Complex of Drosophila melanogaster: Underreplication and morphology in polytene chromosomes. Proc. Natl. Acad. Sci. 98: 570-574. 11136231

Moshkovich, N., et al. (2011). RNAi-independent role for Argonaute2 in CTCF/CP190 chromatin insulator function. Genes Dev. 25(16): 1686-701. PubMed Citation: 21852534

Mou, X., Duncan, D. M., Baehrecke, E. H. and Duncan, I. (2012). Control of target gene specificity during metamorphosis by the steroid response gene E93. Proc Natl Acad Sci U S A 109: 2949-2954. PubMed ID: 22308414

Mulholland, N. M., King, I. F. G. and Kingston, R. E. (2003). Regulation of Polycomb group complexes by the sequence-specific DNA binding proteins Zeste and GAGA. Genes Dev. 17: 2741-2746. 14630938

Muller, J. and Bienz, M. (1991). Long range repression conferring boundaries of Ultrabithorax expression in the Drosophila embryo. EMBO J. 10: 3147-55

Muller, J. and Bienz, M. (1992). Sharp anterior boundary of homeotic gene expression conferred by the fushi tarazu protein. EMBO J. 11: 3653-61

Murali, T., et al. (2011). DroID 2011: a comprehensive, integrated resource for protein, transcription factor, RNA and gene interactions for Drosophila. Nucleic Acids Res 39: D736-D743. Pubmed: 21036869

Continued: UltrabithoraxReferences part 2/2

Ultrabithorax: Biological Overview | Evolutionary Homologs | Transcriptional Regulation | Targets of activity | Protein Interactions | Posttranscriptional regulation | Developmental Biology | Effects of Mutation

Home page: The Interactive Fly © 2024 Thomas B. Brody, Ph.D.

The Interactive Fly resides on the
Society for Developmental Biology's Web server.