Sequence complexity of histone H1 subtypes

Molecular Biology and Evolution

Volumn 20, Issue 3, 2003, Pages 371-380

  Ponte, Imma ^a   Vila, Roger ^a   Suau, Pedro ^a  

^a UNIVERSITAT AUTÒNOMA DE BARCELONA   (Spain)

Author keywords

Histone H1; Length mutations; Simplicity; Slippage; Tandem repeats

Indexed keywords

HISTONE H1;

AMINO TERMINAL SEQUENCE; ARTICLE; CARBOXY TERMINAL SEQUENCE; CHROMATIN; CONTROLLED STUDY; EUBACTERIUM; GENE CONTROL; GENE SEQUENCE; GENE STRUCTURE; INVERTEBRATE; NONHUMAN; NUCLEOTIDE SEQUENCE; PLANT; PROTEIN DOMAIN; PROTEIN MOTIF; SPECIES DIFFERENCE; STRUCTURE ANALYSIS; UNINDEXED SEQUENCE;

ANIMALS; BACTERIAL PROTEINS; BASE SEQUENCE; CHIRONOMIDAE; HISTONES; HUMANS; TANDEM REPEAT SEQUENCES; VARIATION (GENETICS);

BACTERIA (MICROORGANISMS); INVERTEBRATA; MAMMALIA;

EID: 0037357480     PISSN: 07374038     EISSN: None     Source Type: Journal    
DOI: 10.1093/molbev/msg041     Document Type: Article

References (50)

1. Albà, M. M., R. A. Laskowski, and J. M. Hancock. 2002. Detecting cryptically simple protein sequences using the SIMPLE algorithm. Bioinformatics 18:672-678.
2. Albà, M. M., M. F. Santibáñez-Koref, and J. M. Hancock. 1999a. Amino acid reiterations in yeast are overrepresented in particular classes of proteins and show evidence for a slippage-like mutational process. J. Mol. Evol. 49:789-797.
3. -. 1999b. Conservation of polyglutamine tract size between mouse and human depends on codon interruption. Mol. Biol. Evol. 16:1641-1644.
4. Bandiera, A., U. A. Patel, G. Manfioletti, A. Rustighi, V. Giancotti, and C. Crane-Robinson. 1995. A precursor-product relationship in molluscan sperm proteins from Ensis minor. Eur. J. Biochem. 233:744-749.
5. Berdnikov, V. A., S. M. Rozov, S. V. Temnykh, F. L. Gorel, and O. E. Kosterin. 1993. Adaptive nature of interspecies variation of histone H1 in insects. J. Mol. Evol. 36:497-507.
6. Bouvet, P., S. Dimitrov, and A. P. Wolffe. 1994. Specific regulation of Xenopus chromosomal 5S rRNA gene transcription in vivo by histone H1. Genes Dev. 8:1147-1159.
7. Bucci, L. R., W. A. Brock, and M. L. Meistrich. 1982. Distribution and synthesis of histone 1 subfractions during spermatogenesis in the rat. Exp. Cell Res. 140:111-118.
8. Churchill, M. E. A., and A. A. Travers. 1991. Protein motifs that recognize structural features of DNA. Trends Biochem. Sci. 16:92-97.
9. Costa, A. R., A. A. Peixoto, J. R. Thackeray, R. Dalgleish, and C. P. Kyriacou. 1991. Length polymorphism in the threonineglycine encoding repeat regions of the period gene in Drosophila. J. Mol. Evol. 32:238-246.
10. Djian, P., and H. Green. 1989. Vectorial expansion of the involucrin gene and the relatedness to hominoids. Proc. Natl. Acad. Sci. USA 86:8447-8451.
11. Dou, Y., C. A. Mizzen, M. Abrams, C. D. Allis, and M. A. Gorovsky. 1999. Phosphorylation of linker histone H1 regulates gene expression in vivo by mimicking H1 removal. Mol. Cell 4:641-647.
12. Eickbush, T. H., and W. D. Burke. 1986. The silkmoth late chorion locus. J. Mol. Biol. 190:357-366.
13. Hancock, J. M. 1993. Evolution of sequence repetition and gene duplications in the TATA-binding protein TBP (TFIID). Nucleic Acids Res. 21:2823-2830.
14. -. 1996. Simple sequences and the expanding genome. Bioessays 18:421-425.
15. Hancock, J. M., and J. S. Armstrong. 1994. Simple34: an improved and enhanced implementation for VAX and Sun computers of the Simple algorithm for analysis of clustered repetitive motifs in nucleotide sequences. Compt. Appl. Biosci. 10:67-70.
16. Hancock, J. M., and G. A. Dover. 1988. Molecular coevolution among cryptically simple expansion segments of eukaryotic 26S/28S rRNAs. Mol. Biol. Evol. 5:377-391.
17. Hoelzel, A. R., J. M. Hancock, and G. A. Dover. 1991. Evolution of the Cetacean mitochondrial D-loop region. Mol. Biol Evol. 8:475-493.
18. Kadake, J. R., and M. R. S. Rao. 1995. DNA- and chromatin-condensing properties of rat testes H1a and H1t compared to those of rat liver H1bdec: H1t is a poor condenser of chromatin. Biochemistry 34:15792-15801.
19. Kasinsky, H. E., J. D. Lewis, J. B. Dacks, and J. Ausió. 2001. Origin of H1 linker histones. FASEB J. 15:34-42.
20. Kato, J., T. K. Misra, and A. M. Chakrabarty. 1990. A1gR3, a protein resembling eukaryotic histone H1, regulates alginate synthesis in Pseudomonas aeruginosa. Proc. Natl. Acad. Sci. USA 87:2887-2891.
21. Khochbin, S., and A. P. Wolffe. 1994. Developmentally regulated expression of linker-histone variants in vertebrates. Eur. J. Biochem. 225:501-510.
22. Langan, T. A. 1982. Characterization of highly phosphorylated subcomponents of rat thymus H1 histone. J. Biol. Chem. 257:14835-14846.
23. Lee, H. L., and T. K. Archer. 1998. Prolonged glucocorticoid exposure dephosphorylates histone H1 and inactivates the MMTV promoter. EMBO J. 17:1454-1466.
24. Lennox, R. W. 1984. Differences in evolutionary stability among mammalian H1 subtypes. J. Biol. Chem. 259:669-672.
25. Lennox, R. W., R. G. Oshima, and L. H. Cohen. 1982. The H1 histones and their interphase phosphorylated states in differentiated and undifferentiated cell lines derived from murine teratocarcinomes. J. Biol. Chem. 257:5183-5189.
26. Levinson, G., and G. A. Gutman. 1987. Slipped-strand mispairing: a major mechanism for DNA sequence evolution. Mol. Biol. Evol. 4:203-221.
27. Liao, L. W., and R. D. Cole. 1981. Differences among fractions of H1 histones in their interactions with linear and superhelical DNA: circular dichroism. J. Biol. Chem. 256:10124-10128.
28. Nishizawa, M., and K. Nishizawa. 1999. Local-scale repetitiveness in amino acid use in eukaryote protein sequences: a genomic factor in protein evolution. Proteins 37:284-292.
29. Panyim, S., and R. Chalkley. 1969. A new histone found only in tissues with little cell division. Biochem. Biophys. Res. Commun. 37:1042-1049.
30. Parseghian, M. H., A. H. Henschen, K. G. Krieglstein, and Hamkalo, B. 1994. A proposal for a coherent mammalian histone H1 nomenclature correlated with amino acid sequences. Protein Sci. 3:575-587.
31. Paulsson, G., U. Lendahl, J. Galli, C. Ericsson, and L. Wieslander. 1990. The balbiani ring 3 gene in Chironomus tetans has a diverged repetitive structure split by many introns. J. Mol. Biol. 211:331-349.
32. Pizzi, E., and C. Frontali. 2001. Low complexity regions in Plasmodium falciparum proteins. Genome Res. 11:218-229.
33. Ponte, I., C. Monsalves, M. Cabañas, P. Martínez, and P. Suau. 1996. Sequence simplicity and evolution of the 3′ untranslated region of the histone H1° gene. J. Mol. Evol. 43:125-134.
34. Ponte, I., J. M. Vidal-Taboada, and P. Suau. 1998. Evolution of the vertebrate H1 histone class: evidence for the functional differentiation of the subtypes. Mol. Biol. Evol. 15:702-708.
35. Scarlato, V., B. Arico, S. Goyard, S. Ricci, R. Manetti, A. Prugnola, R. Manetti, P. Polverino-De-Laurento, A. Ullmann, and R. Rappuoli. 1995. A novel chromatin-forming histone H1 homologue is encoded by a dispensable and growth-regulated gene in Bordetella pertussis. Mol. Microbiol. 5:871-881.
36. Schlotterer, C., and D. Tautz, 1992. Slippage synthesis of simple sequence DNA. Nucleic Acids Res. 20:211-215.
37. Shen, X., and M. A. Gorovsky. 1996. Linker histone H1 regulates specific gene expression but not global transcription in vivo. Cell 86:475-483.
38. Sullivan, S. A., D. W. Sink, K. L. Trout, I. Makalowska, P. M. Taylor, A. D. Baxevanis, and D. Landsman. 2002. The histone database. Nucleic Acids Res. 30:341-342.
39. Suzuki, M. 1989. SPKK, a new nucleic acid-binding unit of protein found in histone. EMBO J. 8:797-804.
40. Talasz, H., N. Sapojnikova, W. Helliger, H. Linder, and B. Puschendorf. 1998. In vitro binding of H1 histone subtypes to nucleosomal organized mouse mammary tumor virus long terminal repeat promotor. J. Biol. Chem. 273:32236-32243.
41. Tanaka, M., J. D. Hennebold, J. Macfarlane, and E. Y. Adashi. 2001. A mammalian oocyte-specific linker histone gene H1oo: Homology with the genes for the oocyte-specific cleavage stage histone (CS-H1) of sea urchin and the B4/H1M histone of the frog. Development 128:655-664.
42. Tautz, D., M. Trick, and G. A. Dover. 1986. Cryptic simplicity in DNA is a major source of genetic variation. Nature 322:652-656.
43. Treiter, M., C. Pfeifle, and D. Tauz. 1989. Comparison of the gap segmentation gene hunchback between Drosophila melanogaster and Drosophila virilis reveals novel modes of evolutionary change. EMBO J. 8:1517-1525.
44. Vermaak, D., O. C. Steinback, S. Dimitrov, R. A. W. Rupp, and A. P. Wolffe. 1998. The globular domain of histone H1 is sufficient to direct specific gene repression in early Xenopus embryos. Curr. Biol. 8:533-536.
45. Vila, R., I. Ponte, M. Collado, J. L. R. Arrondo, M. A. Jiménez, M. Rico, and P. Suau. 2001a. DNA-induced α-helical structure in the NH2-terminal domain of histone H1. J. Biol. Chem. 276:46429-46435.
46. Vila, R., I. Ponte, M. Collado, J. L. R. Arrondo, and P. Suau. 2001b. Induction of secondary structure in a COOH-terminal peptide of histone H1 by interaction with the DNA. J. Biol. Chem. 276:30898-30903.
47. Vila, R., I. Ponte, M. A. Jiménez, M. Rico, and P. Suau. 2000. A helix-turn motif in the C-terminal domain of histone H1. Protein Sci. 9:627-636.
48. -. 2002. An inducible helix-Gly-Gly motif in the N-terminal domain of histone Hle: A CD and NMR study. Protein Sci. 11:214-220.
49. Wolffe, A. P., P. S. Khochbin, and S. Dimitrov. 1997. What do linker histones do in chromatin? BioEssays 19:249-255.
50. Zlatanova, J., and K. van Holde. 1992. Histone H1 and transcription: still an enigma? J. Cell Sci. 103:889-885.