The YYRR box: a conserved dipyrimidine-dipurine sequence element in<i>Drosophila</i>and other eukaryotes

Cavener, Douglas R.; Yue, Feng; Foster, Brian; Krasney, Philip A.; Murtha, Michael T.; Schonbaum, Christopher P.; Xiao, Xiao

doi:10.1093/nar/16.8.3375

Cited by 6 publications

(3 citation statements)

References 27 publications

(40 reference statements)

Supporting

Mentioning

Contrasting

Order By: Relevance

“…The conserved position of the simple sequence family (CAX)n adjacent to various protein-coding genes, expressed stage and tissues specifically during the embryonic development of Drosophila and mouse (Doboule et al 1987), strongly supports the functional significance of the (CAX)n-mediated "expression code". The same holds true of the conserved position of the (YYRRbox)-family associated with the expression of the glucose dehydrogenase locus (Cavener et al 1988).…”

Section: Functional Aspects Of Type Ll-repetitive Dna Sequence Familiesmentioning

confidence: 75%

“…Generally, her data indicate a clustering of these repeated motifs near transcriptional initiation sites. A clustered organization of the (GACT), quartet family in the human gehome is suggested by DNA blot experiments with related oligonucleotide probes (Cavener et al 1988). A clustered organization of the (GATA)n quartet family in the human genome has been revealed by in situ hybridization to the long arm of chromosome 6, chromosome 11, and the short arm of the X chromosome (Kiel-Metzger et al 1985) and by DNA blot experiments on the short arm of the Y chromosome (Arnemann et al 1986).…”

Section: The Simple Sequence Families With a Tetranucleotide Sequencementioning

confidence: 98%

See 1 more Smart Citation

Potential genetic functions of tandem repeated DNA sequence blocks in the human genome are based on a highly conserved ?chromatin folding code?

Vogt¹

1990

Hum Genet

181

122

View full text Add to dashboard Cite

This review is based on a thorough description of the structure and sequence organization of tandemly organized repetitive DNA sequence families in the human genome; it is aimed at revealing the locus-specific sequence organization of tandemly repetitive sequence structures as a highly conserved DNA sequence code. These repetitive so-called "super-structures" or "higher-order" structures are able to attract specific nuclear proteins. I shall define this code therefore as a "chromatin folding code". Since locus-specific superstructures of tandemly repetitive sequence units are present not only in the chromosome centromere or telomere region but also on the arms of the chromosomes, I assume that their chromatin folding code may contribute to, or even organize, the folding pathway of the chromatin chain in the nucleus. The "chromatin folding code" is based on its specific "chromatin code", which describes the sequence dependence of the helical pathway of the DNA primary sequence (i.e., secondary structure) entrapping the histone octamers in preferential positions. There is no periodicity in the distribution of the nucleosomes along the DNA chain. The folding pathway of the nucleosomal chromatin chain is however still flexible and determined by e.g., the length of the DNA chain between the nucleosomes. The fixation and stabilization of the chromatin chain in the space of the nucleus (i.e., its "functional state") may be mediated by additionally unique DNA protein interactions that are dictated by the "chromatin folding code". The unique DNA-protein interactions around the centromeres of human chromosomes are revealed for example by their "C-banding". I wish to stress that it is not my aim to relate each block of repetitive DNA sequences to a specific "chromatin folding code", but I shall demonstrate that there is an inherent potential for tandem repeated sequence units to develop a locus-specific repetitive higher order structure; this potential may create a specific chromatin folding code whenever a selection force exists at the position of this repetitive DNA structure in the genome.

show abstract

Section: Functional Aspects Of Type Ll-repetitive Dna Sequence Familiesmentioning

confidence: 75%

Section: The Simple Sequence Families With a Tetranucleotide Sequencementioning

confidence: 98%

Potential genetic functions of tandem repeated DNA sequence blocks in the human genome are based on a highly conserved ?chromatin folding code?

Vogt¹

1990

Hum Genet

181

122

View full text Add to dashboard Cite

show abstract

“…A search in the promoter regions of a number of Drosophila genes in the Genbank data base and recent publications failed to detect these particular sequences in other known and putative promoters. In addition to the sequence elements immediately upstream of the start site of transcription, a 72-bp tetranucleotide tandem repeat element was found in the middle of intron I (CAVENER et al 1988). This sequence element, named the YYRR box, is conserved in the Gld gene of three divergent Drosophila species indicating that it may serve some function.…”

Section: Discussionmentioning

confidence: 99%

Molecular structure and transformation of the glucose dehydrogenase gene in Drosophila melanogaster.

et al. 1988

View full text Add to dashboard Cite

We have precisely mapped and sequenced the three 5' exons of the Drosophila melanogaster Gld gene and have identified the start sites for transcription and translation. The first exon is composed of 335 nucleotides and does not contain any putative translation start codons. The second exon is separated from the first exon by 8 kb and contains the Gld translation start codon. The inferred amino acid sequence of the amino terminus contains two unusual features: three tandem repeats of serine-alanine, and a relatively high density of cysteine residues. P element-mediated transformation experiments demonstrated that a 17.5-kb genomic fragment contains the functional and regulatory components of the Gld gene.

show abstract

Genome scanning by two‐dimensional DNA typing: The use of repetitive DNA sequences for rapid mapping of genetic traits

Uitterlinden¹,

Slagboom²,

Mullaart³

et al. 1991

Electrophoresis

View full text Add to dashboard Cite

The existence of repetitive DNA sequences offers the possibility to assess the mammalian genome for individual variation in its entirety rather than at one or only a few sites. In order to fully explore the various sets of mammalian repeat sequences for this purpose, analytical tools are required which allow many if not all individual members of sets of repetitive elements to be resolved and identified in terms of location and allelic variation. We have applied and further developed an electrophoretic system, two-dimensional DNA typing, which may fulfill these requirements. The two-dimensional system combines separation of DNA fragments by size in a neutral gel, with separation by sequence composition in a denaturing gradient gel. By hybridization with minisatellite- and simple-sequence core probes and by inter-repeat polymerase chain reaction techniques, it is possible to obtain individual--and even chromosome-specific separation patterns that consist of hundreds of spots. Computerized image analysis and matching of such spot patterns allows the rapid assessment of multiple polymorphisms, spread over the genome, to monitor genetic variability in populations. When coupled to databases of polymorphic DNA markers with a known genomic location, two-dimensional DNA typing can greatly accelerate the mapping of genetic traits in humans, animals, and plants.

show abstract

The YYRR box: a conserved dipyrimidine-dipurine sequence element inDrosophilaand other eukaryotes

Cited by 6 publications

References 27 publications

Potential genetic functions of tandem repeated DNA sequence blocks in the human genome are based on a highly conserved ?chromatin folding code?

Potential genetic functions of tandem repeated DNA sequence blocks in the human genome are based on a highly conserved ?chromatin folding code?

Molecular structure and transformation of the glucose dehydrogenase gene in Drosophila melanogaster.

Genome scanning by two‐dimensional DNA typing: The use of repetitive DNA sequences for rapid mapping of genetic traits

Contact Info

Product

Resources

About