Isolation and characterisation of repeated DNA sequences from Erianthus spp. (Saccharinae: Andropogoneae)

Genome ◽  
1998 ◽  
Vol 41 (3) ◽  
pp. 408-416 ◽  
Author(s):  
P Besse ◽  
C L McIntyre
Keyword(s):  
Genetic Structure ◽  
Dna Sequences ◽  
Repetitive Sequences ◽  
Intergeneric Hybrids ◽  
Genome Organisation ◽  
Repeated Dna ◽  
Saccharum Spp ◽  
Repeated Dna Sequences ◽  
Noncoding Sequences ◽  
Copy Sequence

Four anonymous noncoding sequences were isolated from Erianthus arundinaceus. The four sequences were selected because they were specific to the genusErianthus section Ripidium, relative to Saccharum spp. These sequences, designated Eracsi 294, 228, 153, and 34, showed various degrees of repetitiveness and different patterns of distribution. Eracsi 34 and 153 were low- and medium-copy repeated sequences, respectively, and appeared to be present at discrete locations in the Erianthus genome. By contrast, Eracsi 294, also a low-copy sequence, appeared to be more dispersed in location, with some tandem arrays identified. Eracsi 228 was highly repeated and dispersed. The location of Eracsi 228 was more precisely determined by FISH and was found to be distributed along the length of, but not at the telomeres of, most chromosomes in two Erianthus species. The distribution of the four sequences was investigated in a sample of 65 Erianthus (representing 9 species) and 14 Saccharum (2 species) accessions. The usefulness of these sequences for phylogenetic and genome organisation studies in sugarcane and for assessing the genetic structure of Saccharum x Erianthus intergeneric hybrids is discussed.Key words: Erianthus, FISH, repetitive sequences, Saccharum, sugarcane.

Complex arrangement of dispersed repeated DNA sequences in Oryza officinalis

Genome ◽  
1996 ◽  
Vol 39 (1) ◽  
pp. 183-190 ◽  
Author(s):  
M. C. Kiefer-Meyer ◽  
A. S. Reddy ◽  
M. Delseny
Keyword(s):  
Dna Sequences ◽  
Wild Rice ◽  
Repetitive Sequences ◽  
Rice Genome ◽  
Repeated Dna ◽  
Element Analysis ◽  
Oryza Officinalis ◽  
Repeated Dna Sequences ◽  
Genomic Clones ◽  
Complex Arrangement

A 525-bp BglII fragment was isolated from Oryza officinalis DNA (accession W1278) and shown to correspond to a new dispersed repetitive DNA sequence with specificity restricted to a subset of the wild rice with a C genome. The sequence of the fragment was determined but it does not correspond to any sequence already present in databases. It contains several imperfect palindromes. Larger genomic clones (12–18 kbp) were isolated and all contain sequences homologous to the BglII element. Analysis of these clones confirms that the BglII element is dispersed in the O. officinalis genome. From one genomic clone, the sequences adjacent to the BglII element were subcloned and used as probes to demonstrate that the sequences flanking the BglII element are variable in different genomic clones and that some of them are also dispersed repetitive sequences. The genomic specificity of two of these dispersed repeats was evaluated and shown to be different from that of the initial BglII element. This analysis revealed a complex arrangement of various dispersed repeated sequences. Key words : wild rice, genome specificity, repeated DNA sequences.

Genomic organization, evolution, and structural peculiarities of highly repetitive DNA of Hordeum vulgare

Genome ◽  
1990 ◽  
Vol 33 (3) ◽  
pp. 441-449 ◽  
Author(s):  
A. V. Vershinin ◽  
E. A. Salina ◽  
V. V. Solovyov ◽  
L. L. Timofeyeva
Keyword(s):  
Hordeum Vulgare ◽  
Dna Sequences ◽  
Genome Organization ◽  
Copy Number ◽  
Repetitive Sequences ◽  
Repeated Dna ◽  
Repeated Dna Sequences ◽  
Highly Repeated Dna ◽  
Structural Peculiarities ◽  
Hordeum Jubatum

A fraction of highly repeated DNA sequences of Hordeum vulgare has been investigated by cloning 19 separate highly repetitive sequences in the plasmid pBR327. Characteristics studied included genus specificity of isolated sequences, their prevalence, and genome organization. Sequences (pHv7161, pHv7191, pHv7179) have been identified that are the most widespread in the H. vulgare genome and have a complicated arrangement. A tandemly arranged sequence, pHv7141, was also identified. The primary structure of a 999 bp long, BamHI fragment of one of the most widespread sequences, pHv7161, as well as the adjacent pHv7302 and pHv7245 sequences was determined. The fragment abounds in inverted repeats, of which two are flanked by direct repeats, and contains short subrepeats, A, B, and C, and a great variety of potential protein-binding sites. A comparison is drawn between the content and genome organization of highly repeated DNA sequences of H. vulgare and those of the wild barley species Hordeum bulbosum, Hordeum jubatum, Hordeum geniculatum, Hordeum brevisubulatum, Hordeum turkestanicum, and Hordeum murinum. According to the above characters (close copy number and genome organization similarity of highly repetitive sequences) the species under discussion have been classified into four groups. This division is in good agreement with other data on interspecific crossing in Hordeum and on chromosome pairing in hybrid meiosis.Key words: Hordeum, highly repeated DNA sequences, copy number.

Highly repeated DNA sequences in birds: The structure and evolution of an abundant, tandemly repeated 190-bp DNA fragment in parrots

Genomics ◽  
1992 ◽  
Vol 14 (2) ◽  
pp. 462-469 ◽  
Author(s):  
Cort S. Madsen ◽  
Dineke H. de Kloet ◽  
Jean E. Brooks ◽  
Siwo R. de Kloet
Keyword(s):  
Dna Sequences ◽  
Repeated Dna ◽  
Repeated Dna Sequences ◽  
Highly Repeated Dna ◽  
Dna Fragment

Polymerase chain reaction based mapping of rye involving repeated DNA sequences

Genome ◽  
1992 ◽  
Vol 35 (4) ◽  
pp. 621-626 ◽  
Author(s):  
Peter M. Rogowsky ◽  
Ken W. Shepherd ◽  
Peter Langridge
Keyword(s):  
Polymerase Chain Reaction ◽  
Dna Sequences ◽  
Chromosome 1 ◽  
Repeated Dna ◽  
Chain Reaction ◽  
Pcr Marker ◽  
Banding Patterns ◽  
Repeated Dna Sequences ◽  
Cereal Rye ◽  
Polymerase Chain

A novel type of polymerase chain reaction (PCR) marker was developed for the mapping of cereal rye (Secale cereale). Primer pairs were synthesized targeting the insertion sites of three individual copies of the R173 family of rye specific repeated DNA sequences. While one primer was derived from a sequence within the respective R173 element, the second primer corresponded to a flanking region. The complex banding patterns obtained in rye allowed not only the mapping of the three R173 elements to certain chromosome regions of 1RS (the short arm of rye chromosome 1) but also the mapping of an additional 3–10 easily identifiable bands per primer pair to other rye chromosomes. Linkage mapping of a polymorphic 1R band derived from three rye cultivars demonstrated the presence of nonallelic, dominant markers in two independent crosses. Because of the high copy number of the R173 family (15 000 copies per diploid rye genome), its dispersion over the entire length of all chromosomes and the high number of markers obtained per primer pair, PCR markers based on the R173 family provide an almost unlimited source for well-spaced markers in rye mapping.Key words: polymerase chain reaction, mapping, repetitive DNA sequences, wheat, rye.

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