Journal articles: 'Repetitive DNA sequence'

1

Nagaki, Kiyotaka, Hisashi Tsujimoto, Kazuhiro Isono, and Tetsuo Sasakuma. "Molecular characterization of a tandem repeat, Afa family, and its distribution among Triticeae." Genome 38, no. 3 (June 1, 1995): 479–86. http://dx.doi.org/10.1139/g95-063.

Full text

Abstract:

We have characterized a so-called D genome specific repetitive DNA sequence (pAs1) of Aegilops squarrosa L. (2n = 14, genome DD) with respect to its DNA sequence and its distribution among Triticeae species. The clone consisted of three units of a repetitive DNA sequence of 336 or 337 base pairs, and was AT rich (65.2%). DNA analyses revealed the presence of the pAs1-like sequences in other genomes of Triticeae species, although the repetition was greatly (as much as 100-fold) variable among the genomes. The repetitive sequences from 10 diploid species were amplified using PCR with specific primers, and the sequential variability was analyzed by the digestion pattern obtained with five restriction enzymes. Since the AfaI site was the most conservatively present in the unit of the repetitive sequences, we named them "Afa family." The analysis clearly displayed the variation of the repetitive sequences regardless of the uniformity of the size of the amplified product. These results indicated that plural amplification events of these repetitive sequences happened independently in the genome evolution of Triticeae.Key words: Triticeae, Aegilops squarrosa, repetitive DNA sequence, CAPS analysis, Afa family.

APA, Harvard, Vancouver, ISO, and other styles

2

Loomis, William F., and Michael E. Gilpin. "Neutral mutations and repetitive DNA." Bioscience Reports 7, no. 7 (July 1, 1987): 599–606. http://dx.doi.org/10.1007/bf01119778.

Full text

Abstract:

We have previously shown that computer simulations of processes that generate selectively advantageous changes together with random duplications and deletions give rise to genomes with many different genes embedded in a large amount of dispensable DNA sequence. We now explore the consequences of neutral changes on the evolution of genomes. We follow the consequences of sequence divergences that are neutral when they occur in dispensable sequences or extra copies of genes present in multigene families. We find that when divergence occurs at about the same frequency as duplication/deletion events, genomes carry repetitive sequences in proportion to their size. Inspection of the genomes as they evolved showed that multigene families were generated by relatively recent duplications of single genes and so would be expected to be highly homogeneous.

APA, Harvard, Vancouver, ISO, and other styles

3

Li, W., A. Van Soom, and L. Peelman. "Repeats as global DNA methylation marker in bovine preimplantation embryos." Czech Journal of Animal Science 62, No. 2 (February 6, 2017): 43–50. http://dx.doi.org/10.17221/29/2016-cjas.

Full text

Abstract:

DNA methylation undergoes dynamic changes and is a crucial part of the epigenetic regulation during mammalian early development. To determine the DNA methylation levels in bovine embryos, we applied a bisulfite sequencing based method aimed at repetitive sequences including three retrotransposons (L1_BT, BovB, and ERV1-1-I_BT) and Satellite I. A more accurate estimate of the global DNA methylation level compared to previous methods using only one repeat sequence, like Alu, could be made by calculation of the weighted arithmetic mean of multiple repetitive sequences, considering the copy number of each repetitive sequence. Satellite I and L1_BT showed significant methylation reduction at the blastocyst stage, while BovB and ERV1-1-I_BT showed no difference. The mean methylation level of the repetitive sequences during preimplantation development was the lowest at the blastocyst stage. No methylation difference was found between embryos cultured in 5% and 20% O<sub>2</sub>. Because mutations of CpGs negatively influence the calculation accuracy, we checked the mutation rate of the sequenced CpG sites. Satellite I and L1_BT showed a relatively low mutation rate (1.92 and 3.72% respectively) while that of ERV1-1-I_BT and BovB was higher (11.95 and 24% respectively). Therefore we suggest using a combination of repeats with low mutation rate, taking into account the proportion of each sequence, as a relatively quick marker for the global DNA methylation status of preimplantation stages and possibly also for other cell types.

APA, Harvard, Vancouver, ISO, and other styles

4

ZEIN, SIMA S., ALEXANDRE A. VETCHER, and STEPHEN D. LEVENE. "PCR-BASED SYNTHESIS OF REPETITIVE SINGLE-STRANDED DNA FOR APPLICATIONS TO NANOBIOTECHNOLOGY." International Journal of Nanoscience 04, no. 03 (June 2005): 287–94. http://dx.doi.org/10.1142/s0219581x05003140.

Full text

Abstract:

Recent data show that assembly of repetitive-sequence, single-stranded DNA molecules (ssDNA) and carbon nanotubes (CNTs) depend on the specific sequence repeat. Therefore, it is of practical interest to assess various methods for generating single-stranded DNA molecules that contain repetitive sequences. Existing automated synthesis procedures for generating long (> 100 nt) ssDNA molecules generate ssDNA products of variable purity and yield. An alternative to automated synthesis is the polymerase chain reaction (PCR), which provides a powerful tool for the amplification of minute amounts of specific DNA sequences. Here we show that a modified asymmetric PCR method allows synthesis of long ssDNAs comprised of tandem repeats of the repetitive vertebrate telomeric sequence (TTAGGG)n, and is also applicable to arbitrary (repetitive or nonrepetitive) DNA. Long, repetitive deoxynucleotides produced by automated synthesis are surprisingly heterogeneous with respect to both length and sequence. Benefits of the method described here are that long, repetitive ssDNA sequences are generated with high sequence fidelity and yield.

APA, Harvard, Vancouver, ISO, and other styles

5

Jahn, C. L., K. E. Prescott, and M. W. Waggener. "Organization of the micronuclear genome of oxytricha nova." Genetics 120, no. 1 (September 1, 1988): 123–34. http://dx.doi.org/10.1093/genetics/120.1.123.

Full text

Abstract:

Abstract In the hypotrichous ciliated protozoan Oxytricha nova, approximately 95% of the micronuclear genome, including all of the repetitive DNA and most of the unique sequence DNA, is eliminated during the formation of the macronuclear genome. We have examined the interspersion patterns of repetitive and unique and eliminated and retained sequences in the micronuclear genome by characterizing randomly selected clones of micronuclear DNA. Three major classes of clones have been defined: (1) those containing primarily unique, retained sequences; (2) those containing only unique, eliminated sequences; and (3) those containing only repetitive, eliminated sequences. Clones of type one and three document two aspects of organization observed previously: clustering of macronuclear destined sequences and the presence of a prevalent repetitive element. Clones of the second type demonstrate for the first time that eliminated unique sequence DNA occurs in long stretches uninterrupted by repetitive sequences. To further examine repetitive sequence interspersion, we characterized the repetitive sequence family that is present in 50% of the clones (class three above). A consensus map of this element was obtained by mapping approximately 80 phage clones and by hybridization to digests of micronuclear DNA. The repeat element is extremely large (approximately 24 kb) and is interspersed with both macronuclear destined sequences and eliminated unique sequences.

APA, Harvard, Vancouver, ISO, and other styles

6

Bell, George I., and David C. Torney. "Repetitive DNA sequences: Some considerations for simple sequence repeats." Computers & Chemistry 17, no. 2 (June 1993): 185–90. http://dx.doi.org/10.1016/0097-8485(93)85009-2.

Full text

APA, Harvard, Vancouver, ISO, and other styles

7

Badaracco, Gianfranco, Grazia Tubiello, Roberta Benfante, Franco Cotelli, Domenico Maiorano, and Nicoletta Landsberger. "Highly repetitive DNA sequence in parthenogeneticArtemia." Journal of Molecular Evolution 32, no. 1 (January 1991): 31–36. http://dx.doi.org/10.1007/bf02099926.

Full text

APA, Harvard, Vancouver, ISO, and other styles

8

Callaghan, M. J., and K. J. Beh. "A middle-repetitive DNA sequence element in the sheep parasitic nematode, Trichostrongylus colubriformis." Parasitology 109, no. 3 (September 1994): 345–50. http://dx.doi.org/10.1017/s0031182000078379.

Full text

Abstract:

SummaryA novel repetitive DNA sequence in the sheep parasitic nematode Trichostrongylus colubriformis was cloned and sequenced. A l·1 kb repetitive sequence (Tc15) which hybridized with DNA from T. colubriformis but not with DNA from two other parasitic nematodes, Haemonchus contortus and Ostertagia circumcincta, or sheep was further characterized. Southern blot analysis showed that the repeat hybridized to a range of fragments in restriction digested T. colubriformis DNA and existed in multiple copy number tandem arrays. However, to define clearly the repetitive monomeric unit further screening of phagemid libraries containing BamH I restriction fragments using a subclone of Tc15 as a probe was carried out. Restriction map and sequence data were compiled for 3 clones containing a 145 bp highly repetitive sequence (designated TcREP) which shared homology with the original pTc15 clone. TcREP hybridized to a tandemly repeating sequence monomer of 145 bp in T. colubriformis DNA which was cloned from various genetic environments in the T. colubriformis genome. TcREP homologous sequences were also found in the genomes of two other species of the same genus (Trichostrongylus axei and Trichostrongylus vitrinus) but not in a fourth species (Trichostrongylus rugatus).

APA, Harvard, Vancouver, ISO, and other styles

9

Paço, Ana, Renata Freitas, and Ana Vieira-da-Silva. "Conversion of DNA Sequences: From a Transposable Element to a Tandem Repeat or to a Gene." Genes 10, no. 12 (December 5, 2019): 1014. http://dx.doi.org/10.3390/genes10121014.

Full text

Abstract:

Eukaryotic genomes are rich in repetitive DNA sequences grouped in two classes regarding their genomic organization: tandem repeats and dispersed repeats. In tandem repeats, copies of a short DNA sequence are positioned one after another within the genome, while in dispersed repeats, these copies are randomly distributed. In this review we provide evidence that both tandem and dispersed repeats can have a similar organization, which leads us to suggest an update to their classification based on the sequence features, concretely regarding the presence or absence of retrotransposons/transposon specific domains. In addition, we analyze several studies that show that a repetitive element can be remodeled into repetitive non-coding or coding sequences, suggesting (1) an evolutionary relationship among DNA sequences, and (2) that the evolution of the genomes involved frequent repetitive sequence reshuffling, a process that we have designated as a “DNA remodeling mechanism”. The alternative classification of the repetitive DNA sequences here proposed will provide a novel theoretical framework that recognizes the importance of DNA remodeling for the evolution and plasticity of eukaryotic genomes.

APA, Harvard, Vancouver, ISO, and other styles

10

Wang, Richard R. C., and Jun-Zhi Wei. "Variations of two repetitive DNA sequences in several Triticeae genomes revealed by polymerase chain reaction and sequencing." Genome 38, no. 6 (December 1, 1995): 1221–29. http://dx.doi.org/10.1139/g95-160.

Full text

Abstract:

Genomes of Triticeae were analyzed using PCR with synthesized primers that were based on two published repetitive DNA sequences, pLeUCD2 (pLe2) and l-E6hcII-l (L02368), which were originally isolated from Thinopyrum elongatum. The various genomes produced a 240 bp PCR product having high homology with the repetitive DNA pLe2. The PCR fragments produced from different genomes differed mainly in amplification quantity and in base composition at 89 variable sites. On the other hand, amplification products from the primer set for L02368 were of different sizes and nucleotide sequences. These results show that the two repetitive DNA sequences have different evolutionary significance. pLe2 is present in all genomes tested, although differences in copy number and nucleotide sequence are notable. L02368 is more genome specific, i.e., fewer genomes possess this family of repetitive sequences. It was concluded that the repetitive sequence pLe2 family is an ancient one that existed in the progenitor genome prior to divergence of annual and perennial genomes. In contrast, sequences similar to L02368 have only evolved following genome divergence.Key words: repetitive sequence, PCR, genome, evolution, Thinopyrum, Triticeae.

APA, Harvard, Vancouver, ISO, and other styles

11

Schwarzacher, Trude. "DNA, chromosomes, and in situ hybridization." Genome 46, no. 6 (December 1, 2003): 953–62. http://dx.doi.org/10.1139/g03-119.

Full text

Abstract:

In situ hybridization is a powerful and unique technique that correlates molecular information of a DNA sequence with its physical location along chromosomes and genomes. It thus provides valuable information about physical map position of sequences and often is the only means to determine abundance and distribution of repetitive sequences making up the majority of most genomes. Repeated DNA sequences, composed of units of a few to a thousand base pairs in size, occur in blocks (tandem or satellite repeats) or are dispersed (including transposable elements) throughout the genome. They are often the most variable components of a genome, often being species and, occasionally, chromosome specific. Their variability arises through amplification, diversification and dispersion, as well as homogenization and loss; there is a remarkable correlation of molecular sequence features with chromosomal organization including the length of repeat units, their higher order structures, chromosomal locations, and dispersion mechanisms. Our understanding of the structure, function, organization, and evolution of genomes and their evolving repetitive components enabled many new cytogenetic applications to both medicine and agriculture, particularly in diagnosis and plant breeding.Key words: repetitive DNA, genome organization, sequence evolution, telomere, centromere.

APA, Harvard, Vancouver, ISO, and other styles

12

Fuchs, Lidia-Yolanda, Cesar Ovando, Patricia Joseph, Xavier Soberon, and Jean Louis Charli. "Repetitive DNA sequence from the crayfishProcambarus clarkii." Nucleic Acids Research 18, no. 6 (1990): 1650. http://dx.doi.org/10.1093/nar/18.6.1650.

Full text

APA, Harvard, Vancouver, ISO, and other styles

13

Dewar, R., C. Katayama, P. S. Sypherd, and R. L. Cihlar. "Dispersed repetitive DNA sequence of Mucor racemosus." Journal of Bacteriology 162, no. 1 (1985): 438–40. http://dx.doi.org/10.1128/jb.162.1.438-440.1985.

Full text

APA, Harvard, Vancouver, ISO, and other styles

14

Michael, D., and M. D. Weil. "Repetitive dna sequence in irradiated hybrid cells." International Journal of Radiation Oncology*Biology*Physics 24 (January 1992): 263. http://dx.doi.org/10.1016/0360-3016(92)90363-m.

Full text

APA, Harvard, Vancouver, ISO, and other styles

15

Popova, M. A., V. I. Rolich, R. R. Ramazanov, N. A. Kasyanenko, and P. A. Sokolov. "C-Ag+−C based repetitive DNA sequence." Journal of Physics: Conference Series 1679 (November 2020): 022049. http://dx.doi.org/10.1088/1742-6596/1679/2/022049.

Full text

APA, Harvard, Vancouver, ISO, and other styles

16

Jamilena, M., C. Ruiz Rej�n, and M. Ruiz Rej�n. "Repetitive DNA sequence families in Crepis capillaris." Chromosoma 102, no. 4 (March 1993): 272–78. http://dx.doi.org/10.1007/bf00352401.

Full text

APA, Harvard, Vancouver, ISO, and other styles

17

Iwamura, Y., Y. Irie, R. Kominami, T. Nara, and K. Yasuraoka. "Existence of host-related DNA sequences in the schistosome genome." Parasitology 102, no. 3 (June 1991): 397–403. http://dx.doi.org/10.1017/s0031182000064362.

Full text

Abstract:

DNA sequences homologous to the mouse intracisternal A particle and endogenous type C retrovirus were detected in the DNAs ofSchistosoma japonicumadults andS. mansonieggs. Furthermore, other kinds of repetitive sequences in the host genome such as mouse type 1 Alu sequence (B1), mouse type 2 Alu sequence (B2) and mo-2 sequence, a mouse mini-satellite, were also detected in the DNAs from adults and eggs ofS. japonicumand eggs ofS. mansoni. Almost all of the sequences described above were absent in the DNAs ofS. mansoniadults. The DNA fingerprints of schistosomes, using the mo-2 sequence, were indistinguishable from each other and resembled those of their murine hosts. Moreover, the mo-2 sequence was hypermethylated in the DNAs of schistosomes and its amount was variable in them. These facts indicate that host-related sequences are actually present in schistosomes and that the mo-2 repetitive sequence exists probably in extra-chromosome.

APA, Harvard, Vancouver, ISO, and other styles

18

Ueng, P. P., A. Hang, H. Tsang, J. M. Vega, L. Wang, C. S. Burton, F. T. He, and B. Liu. "Molecular analyses of a repetitive DNA sequence in wheat (Triticum aestivum L.)." Genome 43, no. 3 (June 1, 2000): 556–63. http://dx.doi.org/10.1139/g99-143.

Full text

Abstract:

A repetitive sequence designated WE35 was isolated from wheat genomic DNA. This sequence consists of a 320-bp repeat unit and represents approximately 0.002% of the total wheat DNA. It is unidirectionally distributed either continuously or discretely in the genome. Ladder-like banding patterns were observed in Southern blots when the wheat genomic DNA was restricted with endonuclease enzymes EcoRI, HincII, NciI, and NdeI, which is characteristic for tandemly organized sequences. Two DNA fragments in p451 were frequently associated with the WE35 repetitive unit in a majority of λ wheat genomic clones. A 475-bp fragment homologous to the 5'-end long terminal repeat (LTR) of cereal retroelements was also found in some λ wheat genomic clones containing the repetitive unit. Physical mapping by fluorescence in situ hybridization (FISH) indicated that one pair of wheat chromosomes could be specifically detected with the WE35 positive probe p551. WE35 can be considered a chromosome-specific repetitive sequence. This repetitive unit could be used as a molecular marker for genetic, phylogenetic, and evolutionary studies in the tribe Triticeae.Key words: repetitive sequence, genomic DNA, Triticum aestivum, fluorescence in situ hybridization, long terminal repeat.

APA, Harvard, Vancouver, ISO, and other styles

19

Kiefer-Meyer, M. C., A. S. Reddy, and M. Delseny. "Characterization of a dispersed repetitive DNA sequence associated with the CCDD genome of wild rice." Genome 38, no. 4 (August 1, 1995): 681–88. http://dx.doi.org/10.1139/g95-086.

Full text

Abstract:

A HindII repetitive fragment (pOD3) was isolated and cloned from the genomic DNA of an accession of Oryza latifolia, a wild rice species that possesses a tetraploid CCDD genome. Southern blot analysis using this clone as a probe demonstrated that this repetitive DNA sequence had a dispersed organization in the CCDD genome and seemed to be highly specific for this genome type. This fragment is the first CCDD-specific repeated DNA sequence to be described. The hybridization pattern is similar for most CCDD accessions tested, although a few showed no hybridization signal. The nucleotide sequence of the element cloned in pOD3 was determined and analysed. The 1783 base pair long repeated sequence shows no homology with other known nucleotide sequences. In addition, none of the amino acid sequences deduced from the potential open reading frames contained in the pOD3 repeat is homologous to any known protein. The nucleotide sequence presents several internal repeats, direct or inverted, but their significance remains unknown.Key words: rice, dispersed repetitive DNA sequences, genome-specific sequences.

APA, Harvard, Vancouver, ISO, and other styles

20

Foster, E., J. Hattori, P. Zhang, H. Labbé, T. Martin-Heller, J. Li-Pook-Than, T. Ouellet, K. Malik, and B. Miki. "The new RENT family of repetitive elements in Nicotiana species harbors gene regulatory elements related to the tCUP cryptic promoter." Genome 46, no. 1 (February 1, 2003): 146–55. http://dx.doi.org/10.1139/g02-102.

Full text

Abstract:

The tCUP cryptic constitutive promoter was discovered in the tobacco genome by T-DNA (transfer DNA) tagging with a promoterless GUSnos gene. Here, we show that the portion of the tCUP sequence containing a variety of cryptic gene regulatory elements is related to a new family of moderately repetitive sequences (102 copies), the RENT (repetitive element from Nicotiana tabacum) family. The RENT family is found only in certain Nicotiana species. Five RENT elements were cloned and sequenced. The RENT elements are a minimum of 5 kb in length and share 8090% sequence similarity throughout their length. The 5' termini are the same in the isolated RENT family members and are characterized by a conserved border sequence (TGTTGA(T or C)ACCCAATTTT(T or C)). The 3' ends of RENT sequence similarity vary in location and sequence. The tCUP cryptic promoter originated from a unique truncated RENT element that interrupts a phytochelatin synthase-like gene that may have undergone rearrangements prior to or resulting from T-DNA insertion. No evidence was found for expressed coding regions within the RENT elements; however, like the cryptic gene regulatory elements within the tCUP sequence, the isolated RENT elements possess promoter activity and translational enhancer activity.Key words: cryptic promoter, Nicotiana, T-DNA, translational enhancer, repetitive element.

APA, Harvard, Vancouver, ISO, and other styles

21

Liu, Kebin, and Shauna Somerville. "Cloning and characterization of a highly repeated DNA sequence in Hordeum vulgare L." Genome 39, no. 6 (December 1, 1996): 1159–68. http://dx.doi.org/10.1139/g96-146.

Full text

Abstract:

A novel repetitive DNA sequence, R10hvcop, has been identified in the barley (Hordeum vulgare L.) genome. This 830 base pair (bp) DNA sequence has a 606-bp open reading frame and is present as approximately 1.96 × 105 copies per haploid barley genome. Southern blot analysis revealed that repetitive DNA elements containing R10hvcop and related sequences were dispersed within the barley chromosomes. Sequences similar to R10hvcop were also found in wheat (Triticum aestivum L.), rye (Secale cereale L.), and oat (Avena sativa L.) with copy numbers of 8 × 104, 1.39 × 105, and 7.9 × 104 per haploid genome, respectively. Sequences similar to R10hvcop were also present in the corn (Zea mays L. ssp. mays) genome, but they were not highly repeated. Barley, wheat, rye, oat, and corn showed species-specific restriction fragment length polymorphisms of R10hvcop and related sequences. Computer-based similarity searches revealed that R10hvcop is closely related to reverse transcriptase genes in retrotransposons and retrotransposon-like elements of several plant species and of Drosophila. The highly repetitive nature, interspersed distribution, and high degree of similarity to reverse transcriptase genes suggests that R10hvcop contains the sequence of a diverged reverse transcriptase gene. Key words : repetitive DNA, barley, reverse transcriptase gene, sequence divergence.

APA, Harvard, Vancouver, ISO, and other styles

22

TING, SOLOMON J. Y. "A Binary Model of Repetitive DNA Sequence in Caenorhabditis elegans." DNA and Cell Biology 14, no. 1 (January 1995): 83–85. http://dx.doi.org/10.1089/dna.1995.14.83.

Full text

APA, Harvard, Vancouver, ISO, and other styles

23

CHEN, R. M., M. T. HOU, N. W. CHANG, Y. T. CHEN, and JEFFREY J. P. TSAI. "CUMULATIVE SPECTRAL REPEAT FINDER (CSRF): A SPECTRAL APPROACH FOR IDENTIFYING THE LENGTH OF REPEATS IN DNA SEQUENCES." International Journal on Artificial Intelligence Tools 20, no. 01 (February 2011): 179–94. http://dx.doi.org/10.1142/s0218213011000073.

Full text

Abstract:

Repetitive sequences of DNA are meaningful and of great importance to human functions. Previous researchers have proposed various methods to discover repetitive sequences in DNA sequence. However, the unknown lengths for repetitive sequences are usually predicted randomly or determined by rules of thumb rather than using a systematical criterion. We propose a new algorithm based on the cumulative Fourier spectral contents of DNA sequence to identify the candidate lengths of repetitive sequences or repeats in DNA sequences. After the candidate lengths of repeats are known, one can identify the repeats and their copy numbers using an exact method. Both of the simulated and real datasets are used to illustrate the performance of the proposed algorithm. The results are also compared to two well-known methods such as Spectral Repeat Finder (SRF) and Gibbs sampler. Furthermore, we demonstrate the use of CSRF in some well-known repeats-finding methods such as SRF, Gibbs sampler, MEME.

APA, Harvard, Vancouver, ISO, and other styles

24

Kato, S., R. A. Anderson, and R. D. Camerini-Otero. "Foreign DNA introduced by calcium phosphate is integrated into repetitive DNA elements of the mouse L cell genome." Molecular and Cellular Biology 6, no. 5 (May 1986): 1787–95. http://dx.doi.org/10.1128/mcb.6.5.1787.

Full text

Abstract:

We investigated the sites of integration of exogenous DNA fragments introduced by DNA-mediated gene transfer. Mouse Ltk- cells were transformed with the herpes simplex virus thymidine kinase gene and pBR322 DNA by the calcium phosphate precipitation method. Some of the integrated exogenous DNA sequences were recovered from the stable tk+ transformants in the form of plasmids that were capable of propagation in bacteria. Four plasmids derived from two cloned cell lines were analyzed in detail by nucleotide sequencing and hybridization techniques. These plasmids contained a total of seven cellular-exogenous DNA junctions. In all cases, there was no sequence homology between the exogenous and cellular DNA sequences adjacent to the joining sites, and no specific exogenous or cellular sequences occurred at the junctions. Rearrangement or deletion of Ltk- DNA was always associated with the integration of exogenous DNA. All of the assignable cellular sequences at the junctions were repetitive sequences. Two of these sequences were from the MIF-1 repetitive sequence family, and a third consisted of a 40-base pair simple copolymer of alternating deoxyadenosine-deoxythymidine. Our results suggest that repetitive sequences are relatively favorable sites for the integration of exogenous DNA.

APA, Harvard, Vancouver, ISO, and other styles

25

Kato, S., R. A. Anderson, and R. D. Camerini-Otero. "Foreign DNA introduced by calcium phosphate is integrated into repetitive DNA elements of the mouse L cell genome." Molecular and Cellular Biology 6, no. 5 (May 1986): 1787–95. http://dx.doi.org/10.1128/mcb.6.5.1787-1795.1986.

Full text

Abstract:

We investigated the sites of integration of exogenous DNA fragments introduced by DNA-mediated gene transfer. Mouse Ltk- cells were transformed with the herpes simplex virus thymidine kinase gene and pBR322 DNA by the calcium phosphate precipitation method. Some of the integrated exogenous DNA sequences were recovered from the stable tk+ transformants in the form of plasmids that were capable of propagation in bacteria. Four plasmids derived from two cloned cell lines were analyzed in detail by nucleotide sequencing and hybridization techniques. These plasmids contained a total of seven cellular-exogenous DNA junctions. In all cases, there was no sequence homology between the exogenous and cellular DNA sequences adjacent to the joining sites, and no specific exogenous or cellular sequences occurred at the junctions. Rearrangement or deletion of Ltk- DNA was always associated with the integration of exogenous DNA. All of the assignable cellular sequences at the junctions were repetitive sequences. Two of these sequences were from the MIF-1 repetitive sequence family, and a third consisted of a 40-base pair simple copolymer of alternating deoxyadenosine-deoxythymidine. Our results suggest that repetitive sequences are relatively favorable sites for the integration of exogenous DNA.

APA, Harvard, Vancouver, ISO, and other styles

26

Lilly, Jason W., and Michael J. Havey. "Small, Repetitive DNAs Contribute Significantly to the Expanded Mitochondrial Genome of Cucumber." Genetics 159, no. 1 (September 1, 2001): 317–28. http://dx.doi.org/10.1093/genetics/159.1.317.

Full text

Abstract:

Abstract Closely related cucurbit species possess eightfold differences in the sizes of their mitochondrial genomes. We cloned mitochondrial DNA (mtDNA) fragments showing strong hybridization signals to cucumber mtDNA and little or no signal to watermelon mtDNA. The cucumber mtDNA clones carried short (30–53 bp), repetitive DNA motifs that were often degenerate, overlapping, and showed no homology to any sequences currently in the databases. On the basis of dot-blot hybridizations, seven repetitive DNA motifs accounted for >13% (194 kb) of the cucumber mitochondrial genome, equaling >50% of the size of the Arabidopsis mitochondrial genome. Sequence analysis of 136 kb of cucumber mtDNA revealed only 11.2% with significant homology to previously characterized mitochondrial sequences, 2.4% to chloroplast DNA, and 15% to the seven repetitive DNA motifs. The remaining 71.4% of the sequence was unique to the cucumber mitochondrial genome. There was <4% sequence colinearity surrounding the watermelon and cucumber atp9 coding regions, and the much smaller watermelon mitochondrial genome possessed no significant amounts of cucumber repetitive DNAs. Our results demonstrate that the expanded cucumber mitochondrial genome is in part due to extensive duplication of short repetitive sequences, possibly by recombination and/or replication slippage.

APA, Harvard, Vancouver, ISO, and other styles

27

Bober, Eva, Surjit Singh, Dharam P. Agarwal, and H. Werner Goedde. "Isolation of repetitive clones from human muscle cDNA library." Bioscience Reports 6, no. 7 (July 1, 1986): 633–38. http://dx.doi.org/10.1007/bf01114757.

Full text

Abstract:

Human fetal muscle cDNA library was screened with a β-myosin heavy chain gene fragment containing Alu sequences. Two cDNA clones AI and BII with 1.8 and 3 kb inserts respectively were chosen for further characterization by means of RNA and DNA hybridization procedures and sequencing. The clones appeared to contain repetitive sequences as well as single copy regions. They are actively transcribed in different stages of myogenic development but not in the liver. DNA sequence analysis of short stretches from both clones revealed no sequence homology to any other published DNA sequences.

APA, Harvard, Vancouver, ISO, and other styles

28

Xia, X., and L. Erickson. "An AT-rich satellite DNA sequence, E180, in alfalfa (Medicago sativa)." Genome 36, no. 3 (June 1, 1993): 427–32. http://dx.doi.org/10.1139/g93-058.

Full text

Abstract:

A DNA fragment of ~750 bp was cloned from EcoRI-digested nuclear DNA of alfalfa (Medicago sativa). Southern blot and sequence analysis showed that the cloned DNA fragment represents a tetramer of a highly tandemly repeated DNA sequence of 185–188 bp (E180). The consensus sequence deduced from the four repeating units is 189 bp in length with an AT content of 67%. The copy number of the satellite DNA was estimated to be ~1.8 × 105 per genome and constitutes about 1% of the alfalfa genome. Sequence comparison revealed no identity to any repetitive DNA sequences that have been published to date. Digestion with HpaII and MspI indicated a high degree of methylation at the internal C of the restriction site CCGG within E180.Key words: alfalfa, Medicago, repetitive DNA sequence, satellite DNA.

APA, Harvard, Vancouver, ISO, and other styles

29

Quinn, J. S., E. Guglich, G. Seutin, R. Lau, J. Marsolais, L. Parna, P. T. Boag, and B. N. White. "Characterization and assessment of an avian repetitive DNA sequence as an icterid phylogenetic marker." Genome 35, no. 1 (February 1, 1992): 155–62. http://dx.doi.org/10.1139/g92-025.

Full text

Abstract:

The first tandemly repeated sequence examined in a passerine bird, a 431-bp PstI fragment named pMAT1, has been cloned from the genome of the brown-headed cowbird (Molothrus ater). The sequence represents about 5–10% of the genome (about 4 × 105 copies) and yields prominent ethidium bromide stained bands when genomic DNA cut with a variety of restriction enzymes is electrophoresed in agarose gels. A particularly striking ladder of fragments is apparent when the DNA is cut with HinfI, indicative of a tandem arrangement of the monomer. The cloned PstI monomer has been sequenced, revealing no internal repeated structure. There are sequences that hybridize with pMAT1 found in related nine-primaried oscines but not in more distantly related oscines, suboscines, or nonpasserine species. Little sequence similarity to tandemly repeated PstI cut sequences from the merlin (Falco columbarius), saurus crane (Grus antigone), or Puerto Rican parrot (Amazona vittata) or to HinfI digested sequence from the Toulouse goose (Anser anser) was detected. The isolated sequence was used as a probe to examine DNA samples of eight members of the tribe Icterini. This examination revealed phylogenetically informative characters. The repeat contains cutting sites from a number of restriction enzymes, which, if sufficiently polymorphic, would provide new phylogenetic characters. Sequences like these, conserved within a species, but variable between closely related species, may be very useful for phylogenetic studies of closely related taxa.Key words: tandemly repeated sequences, satellite DNA, tribe Icterini.

APA, Harvard, Vancouver, ISO, and other styles

30

Rajagopal, Deepa, Robert W. Maul, Amalendu Ghosh, Tirtha Chakraborty, Ahmed Amine Khamlichi, Ranjan Sen, and Patricia J. Gearhart. "Immunoglobulin switch μ sequence causes RNA polymerase II accumulation and reduces dA hypermutation." Journal of Experimental Medicine 206, no. 6 (May 11, 2009): 1237–44. http://dx.doi.org/10.1084/jem.20082514.

Full text

Abstract:

Repetitive DNA sequences in the immunoglobulin switch μ region form RNA-containing secondary structures and undergo hypermutation by activation-induced deaminase (AID). To examine how DNA structure affects transcription and hypermutation, we mapped the position of RNA polymerase II molecules and mutations across a 5-kb region spanning the intronic enhancer to the constant μ gene. For RNA polymerase II, the distribution was determined by nuclear run-on and chromatin immunoprecipitation assays in B cells from uracil-DNA glycosylase (UNG)–deficient mice stimulated ex vivo. RNA polymerases were found at a high density in DNA flanking both sides of a 1-kb repetitive sequence that forms the core of the switch region. The pileup of polymerases was similar in unstimulated and stimulated cells from Ung−/− and Aid−/−Ung−/− mice but was absent in cells from mice with a deletion of the switch region. For mutations, DNA was sequenced from Ung−/− B cells stimulated in vivo. Surprisingly, mutations of A nucleotides, which are incorporated by DNA polymerase η, decreased 10-fold before the repetitive sequence, suggesting that the polymerase was less active in this region. We propose that altered DNA structure in the switch region pauses RNA polymerase II and limits access of DNA polymerase η during hypermutation.

APA, Harvard, Vancouver, ISO, and other styles

31

Plucienniczak, G., J. Skowronski, A. Plucienniczak, and J. Jaworski. "Nucleotide Sequence of Bovine 1.723 Satellite DNA." Zeitschrift für Naturforschung C 40, no. 3-4 (April 1, 1985): 242–46. http://dx.doi.org/10.1515/znc-1985-3-418.

Full text

Abstract:

The nucleotide sequence of the bovine 1.723 satellite DNA repeated unit was determined. The 680 bp long period of this satellite DNA does not show any significant sequence similarities with the known bovine satellite DNAs. Short repetitive sequences which are parts of 680 bp long repeated units do not form any orderly periodical structure. It seems, however, that the basic repeated unit of the 1.723 bovine satellite DNA has been formed by successive duplications of two, about 100 bp long sequences. The sequence divergence between different copies of the 680 bp repeated unit was also analyzed.

APA, Harvard, Vancouver, ISO, and other styles

32

Zannis-Hadjopoulos, M., G. Kaufmann, S. S. Wang, R. L. Lechner, E. Karawya, J. Hesse, and R. G. Martin. "Properties of some monkey DNA sequences obtained by a procedure that enriches for DNA replication origins." Molecular and Cellular Biology 5, no. 7 (July 1985): 1621–29. http://dx.doi.org/10.1128/mcb.5.7.1621.

Full text

Abstract:

Twelve clones of monkey DNA obtained by a procedure that enriches 10(3)- to 10(4)-fold for nascent sequences activated early in S phase (G. Kaufmann, M. Zannis-Hadjopoulos, and R. G. Martin, Mol. Cell. Biol. 5:721-727, 1985) have been examined. Only 2 of the 12 ors sequences (origin-enriched sequences) are unique (ors1 and ors8). Three contain the highly reiterated Alu family (ors3, ors9, and ors11). One contains the highly reiterated alpha-satellite family (ors12), but none contain the Kpn family. Those remaining contain middle repetitive sequences. Two examples of the same middle repetitive sequence were found (ors2 and ors6). Three of the middle repetitive sequences (the ors2-ors6 pair, ors5, and ors10) are moderately dispersed; one (ors4) is highly dispersed. The last, ors7, has been mapped to the bona fide replication origin of the D loop of mitochondrial DNA. Of the nine ors sequences tested, half possess snapback (intrachain reannealing) properties.

APA, Harvard, Vancouver, ISO, and other styles

33

Zannis-Hadjopoulos, M., G. Kaufmann, S. S. Wang, R. L. Lechner, E. Karawya, J. Hesse, and R. G. Martin. "Properties of some monkey DNA sequences obtained by a procedure that enriches for DNA replication origins." Molecular and Cellular Biology 5, no. 7 (July 1985): 1621–29. http://dx.doi.org/10.1128/mcb.5.7.1621-1629.1985.

Full text

Abstract:

Twelve clones of monkey DNA obtained by a procedure that enriches 10(3)- to 10(4)-fold for nascent sequences activated early in S phase (G. Kaufmann, M. Zannis-Hadjopoulos, and R. G. Martin, Mol. Cell. Biol. 5:721-727, 1985) have been examined. Only 2 of the 12 ors sequences (origin-enriched sequences) are unique (ors1 and ors8). Three contain the highly reiterated Alu family (ors3, ors9, and ors11). One contains the highly reiterated alpha-satellite family (ors12), but none contain the Kpn family. Those remaining contain middle repetitive sequences. Two examples of the same middle repetitive sequence were found (ors2 and ors6). Three of the middle repetitive sequences (the ors2-ors6 pair, ors5, and ors10) are moderately dispersed; one (ors4) is highly dispersed. The last, ors7, has been mapped to the bona fide replication origin of the D loop of mitochondrial DNA. Of the nine ors sequences tested, half possess snapback (intrachain reannealing) properties.

APA, Harvard, Vancouver, ISO, and other styles

34

Mendonça-Lima, Leila de, and Yara M. Traub-Cseko. "A new repetitive DNA sequence from Trypanosoma cruzi." Memórias do Instituto Oswaldo Cruz 86, no. 4 (December 1991): 475. http://dx.doi.org/10.1590/s0074-02761991000400020.

Full text

APA, Harvard, Vancouver, ISO, and other styles

35

Naylor, L. H., and J. H. van de Sande. "Improved sequence resolution of highly repetitive DNA fragments." Nucleic Acids Research 14, no. 14 (1986): 5939. http://dx.doi.org/10.1093/nar/14.14.5939.

Full text

APA, Harvard, Vancouver, ISO, and other styles

36

Doering, Jeffrey L., Anne E. Burket, and Susan L. Carnahan. "A new human alphoid-like repetitive DNA sequence." FEBS Letters 231, no. 1 (April 11, 1988): 130–34. http://dx.doi.org/10.1016/0014-5793(88)80716-6.

Full text

APA, Harvard, Vancouver, ISO, and other styles

37

Vogt, Peter. "Code domains in tandem repetitive DNA sequence structures." Chromosoma 101, no. 10 (October 1992): 585–89. http://dx.doi.org/10.1007/bf00360534.

Full text

APA, Harvard, Vancouver, ISO, and other styles

38

Orford, S. J., N. Steele Scott, and J. N. Timmis. "A hypervariable middle repetitive DNA sequence from citrus." Theoretical and Applied Genetics 91, no. 8 (December 1995): 1248–52. http://dx.doi.org/10.1007/bf00220936.

Full text

APA, Harvard, Vancouver, ISO, and other styles

39

Centola, M., and J. Carbon. "Cloning and characterization of centromeric DNA from Neurospora crassa." Molecular and Cellular Biology 14, no. 2 (February 1994): 1510–19. http://dx.doi.org/10.1128/mcb.14.2.1510.

Full text

Abstract:

The centromere locus from linkage group VII of Neurospora crassa has been cloned, characterized, and physically mapped. The centromeric DNA is contained within a 450-kb region that is recombination deficient, A+T-rich, and contains repetitive sequences. Repetitive sequences from within this region hybridize to a family of repeats located at or near centromeres in all seven linkage groups of N. crassa. Genomic Southern blots and sequence analysis of these repeats revealed a unique centromere structure containing a divergent family of centromere-specific repeats. The predominantly transitional differences between copies of the centromere-specific sequence repeats and their high A+T content suggest that their divergence was mediated by repeat-induced point (RIP) mutations.

APA, Harvard, Vancouver, ISO, and other styles

40

Centola, M., and J. Carbon. "Cloning and characterization of centromeric DNA from Neurospora crassa." Molecular and Cellular Biology 14, no. 2 (February 1994): 1510–19. http://dx.doi.org/10.1128/mcb.14.2.1510-1519.1994.

Full text

Abstract:

The centromere locus from linkage group VII of Neurospora crassa has been cloned, characterized, and physically mapped. The centromeric DNA is contained within a 450-kb region that is recombination deficient, A+T-rich, and contains repetitive sequences. Repetitive sequences from within this region hybridize to a family of repeats located at or near centromeres in all seven linkage groups of N. crassa. Genomic Southern blots and sequence analysis of these repeats revealed a unique centromere structure containing a divergent family of centromere-specific repeats. The predominantly transitional differences between copies of the centromere-specific sequence repeats and their high A+T content suggest that their divergence was mediated by repeat-induced point (RIP) mutations.

APA, Harvard, Vancouver, ISO, and other styles

41

Nishioka, Yutaka, and Estelle Lamothe. "ISOLATION AND CHARACTERIZATION OF A MOUSE Y CHROMOSOMAL REPETITIVE SEQUENCE." Genetics 113, no. 2 (June 1, 1986): 417–32. http://dx.doi.org/10.1093/genetics/113.2.417.

Full text

Abstract:

ABSTRACT The Y chromosome plays a dominant role in mammalian sex determination, and characterization of this chromosome is essential to understand the mechanism responsible for testicular differentiation. Male mouse genomic DNA fragments, cloned into pBR322, were screened for the presence of Bkm (a female snake satellite DNA)-related sequences, and we obtained a clone (AC11) having a DNA fragment from the mouse Y chromosome. In addition to a Bkm-related sequence, this fragment contained a Y chromosomal repetitive sequence. DNA isolated from the XX sex-reversed male genome produced a hybridization pattern indistinguishable to that obtained with normal female DNA, suggesting that the AC11 sequence is not contained within the Y chromosomal DNA present in the sex-reversed male genome. Based on the hybridization patterns against mouse Y chromosomal DNA, AC11 classified 16 inbred laboratory strains into two categories; those with the Mus musculus musculus type Y chromosome and those with the M.m. domesticus type Y chromosome. Three European subspecies of Mus musculus (M.m. brevirostris, M.m. poschiavinus and M.m. praetextus) possessed the M.m. domesticus type Y chromosome, whereas the Japanese mouse, M.m. molossinus, had the M.m. musculus type Y chromosome. The survey was also extended to six other species that belong to the genus Mus, of which M. spretus and M. hortulanus showed significant amounts of AC11-related sequences in their Y chromosomes. The male-specific accumulation of AC11-related sequences was not found in M. caroli, M. cookii, M. pahari or M. platythrix. This marked difference among Mus species indicates that the amplification of AC11-related sequences in the mouse Y chromosome was a recent evolutionary event.

APA, Harvard, Vancouver, ISO, and other styles

42

Ohzeki, Jun-ichirou, Megumi Nakano, Teruaki Okada, and Hiroshi Masumoto. "CENP-B box is required for de novo centromere chromatin assembly on human alphoid DNA." Journal of Cell Biology 159, no. 5 (December 2, 2002): 765–75. http://dx.doi.org/10.1083/jcb.200207112.

Full text

Abstract:

Centromere protein (CENP) B boxes, recognition sequences of CENP-B, appear at regular intervals in human centromeric α-satellite DNA (alphoid DNA). In this study, to determine whether information carried by the primary sequence of alphoid DNA is involved in assembly of functional human centromeres, we created four kinds of synthetic repetitive sequences: modified alphoid DNA with point mutations in all CENP-B boxes, resulting in loss of all CENP-B binding activity; unmodified alphoid DNA containing functional CENP-B boxes; and nonalphoid repetitive DNA sequences with or without functional CENP-B boxes. These four synthetic repetitive DNAs were introduced into cultured human cells (HT1080), and de novo centromere assembly was assessed using the mammalian artificial chromosome (MAC) formation assay. We found that both the CENP-B box and the alphoid DNA sequence are required for de novo MAC formation and assembly of functional centromere components such as CENP-A, CENP-C, and CENP-E. Using the chromatin immunoprecipitation assay, we found that direct assembly of CENP-A and CENP-B in cells with synthetic alphoid DNA required functional CENP-B boxes. To the best of our knowledge, this is the first reported evidence of a functional molecular link between a centromere-specific DNA sequence and centromeric chromatin assembly in humans.

APA, Harvard, Vancouver, ISO, and other styles

43

Wu, Wen-Luan, Jiang-Ping Wang, Mei-Chen Tseng, and Tzen-Yuh Chiang. "Cloning and genetic variability of a HindIII repetitive DNA in Acrossocheilus paradoxus (Cyprinidae)." Genome 42, no. 4 (August 1, 1999): 780–88. http://dx.doi.org/10.1139/g99-019.

Full text

Abstract:

Thirty clones of a highly repetitive HindIII fragment of DNA from seven populations of Acrossocheilus paradoxus (Cyprinidae) were isolated and sequenced. The fragment represents a tandemly repeated sequence, with a monomeric unit of 270 bp, amounting to 0.08-0.10% of the fish genome. Higher units of this monomer appear as a ladder in Southern blots. The HindIII satellite DNA family is conserved in three genera of the Cyprinidae. Variation in nucleotide sequences of this repetitive fragment, which is A+T-rich, is distributed both within individuals and among populations. High overall nucleotide divergence (dij= 0.056 ± 0.001) was detected among clones of the HindIII satellite DNAs of Acrossocheilus paradoxus. Based on the molecular clock hypothesis, the maximum evolutionary rate was estimated to be 5.3 × 10-7 substitutions per site per year. Lineage sorting may have contributed to the genetic heterogeneity within individuals and populations. Cladistic analyses indicated a closer phylogeographic relationship between populations of the central and south regions in Taiwan.Key words: highly repetitive DNA, HindIII restriction, nucleotide sequence, genetic variability, phylogeography.

APA, Harvard, Vancouver, ISO, and other styles

44

Edwards, Keith J., Jacky Veuskens, Heather Rawles, Allan Daly, and Jeffrey L. Bennetzen. "Characterization of four dispersed repetitive DNA sequences from Zea mays and their use in constructing contiguous DNA fragments using YAC clones." Genome 39, no. 4 (August 1, 1996): 811–17. http://dx.doi.org/10.1139/g96-102.

Full text

Abstract:

We have isolated four repetitive DNA fragments from maize DNA. Only one of these sequences showed homology to sequences within the EMBL database, despite each having an estimated copy number of between 3 × 104 and 5 × 104 per haploid genome. Hybridization of the four repeats to maize mitotic chromosomes showed that the sequences are evenly dispersed throughout most, but not all, of the maize genome, whereas hybridization to yeast colonies containing random maize DNA fragments inserted into yeast artificial chromosomes (YACs) indicated that there was considerable clustering of the repeats at a local level. We have exploited the distribution of the repeats to produce repetitive sequence fingerprints of individual YAC clones. These fingerprints not only provide information about the occurrence and organization of the repetitive sequences within the maize genome, but they can also be used to determine the organization of overlapping maize YAC clones within a contiguous fragment (contigs). Key words : maize, repetitive DNA, YACs.

APA, Harvard, Vancouver, ISO, and other styles

45

Kiefer-Meyer, M. C., A. S. Reddy, and M. Delseny. "Complex arrangement of dispersed repeated DNA sequences in Oryza officinalis." Genome 39, no. 1 (February 1, 1996): 183–90. http://dx.doi.org/10.1139/g96-024.

Full text

Abstract:

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.

APA, Harvard, Vancouver, ISO, and other styles

46

Garrido-Ramos, M. A., R. de la Herrán, M. Ruiz Rejón, and C. Ruiz Rejón. "A subtelomeric satellite DNA family isolated from the genome of the dioecious plant Silene latifolia." Genome 42, no. 3 (June 1, 1999): 442–46. http://dx.doi.org/10.1139/g98-156.

Full text

Abstract:

In an ongoing effort to trace the evolution of the sex chromosomes of Silene latifolia, we have searched for the existence of repetitive sequences specific to these chromosomes in the genome of this species by direct isolation from low-melting agarose gels of satellite DNA bands generated by digestion with restriction enzymes. Five monomeric units belonging to a highly repetitive family isolated from Silene latifolia, the SacI family, have been cloned and characterized. The consensus sequence of the repetitive units is 313 bp in length (however, high variability exists for monomer length variants) and 52.9% in AT. Repeating units are tandemly arranged at the subtelomeric regions of the chromosomes in this species. The sequence does not possess direct or inverted sequences of significant length, but short direct repeats are scattered throughout the monomer sequence. Several short sequence motives resemble degenerate monomers of the telomere repeat sequence of plants (TTTAGGG), confirming a tight association between this subtelomeric satellite DNA and the telomere repeats. Our approach in this work confirms that SacI satellite DNA sequences are among the most abundant in the genome of S. latifolia and, on the other hand, that satellite DNA sequences specific of sex chromosomes are absent in this species. This agrees with a sex determination system less cytogenetically diverged from a bisexual state than the system present in other plant species, such as R. acetosa, or at least a lesser degree of differentiation between the sex chromosomes of S. latifolia and the autosomes.Key words: satellite DNA, sex chromosomes, Silene latifolia, subtelomeric sequences.

APA, Harvard, Vancouver, ISO, and other styles

47

Xia, X., S. Du, and L. Erickson. "A moderately repetitive DNA sequence in alfalfa is transcribed in a floral-specific manner." Genome 39, no. 1 (February 1, 1996): 9–16. http://dx.doi.org/10.1139/g96-002.

Full text

Abstract:

Based on DNA sequence analysis of 5 clones of repetitive DNA from alfalfa (Medicago sativa), we propose the existence of a dispersed middle repetitive element about 3400 bp long with a copy number in the range of 2–3 × 103 per haploid genome. The average A + T content of the sequences was 54.6%, compared with 61.4% for the alfalfa genome. Sequence homologies between overlapping regions of the clones ranged from 85 to 89.5% with an average of 86.6%; sequence divergence was due largely to single base pair changes, with deletions or insertions occurring randomly across sequences. An open reading frame (ORF) in one clone, RPE15, contained homologies to cereal prolamin genes and a legumin box was located upstream of the coding region. A Northern blot of RNA from various alfalfa tissues, probed with the above clone containing this ORF, showed an extensive heterodispersed pattern of hybridization in the late stages of flower bud development but in no other tissues. Key words : lucerne, Medicago sativa, repetitive DNA, plant genomes.

APA, Harvard, Vancouver, ISO, and other styles

48

Gao, D., T. Schmidt, and C. Jung. "Molecular characterization and chromosomal distribution of species-specific repetitive DNA sequences from Beta corolliflora, a wild relative of sugar beet." Genome 43, no. 6 (December 1, 2000): 1073–80. http://dx.doi.org/10.1139/g00-084.

Full text

Abstract:

Repetitive DNA sequences have been isolated from a Sau3AI plasmid library of tetraploid Beta corolliflora (2n = 4x = 36), a wild relative of sugar beet (B. vulgaris). The library was screened by differential hybridization with genomic DNA of B. corolliflora and B. vulgaris. When used as probes for Southern hybridization of genomic DNA, six clones were determined to represent highly repetitive DNA families present only in the B. corolliflora genome. Five other sequences were highly repetitive in B. corolliflora and low or single copy in B. vulgaris. The insert size varied between 43 bp and 448 bp. Two sequences pBC1279 and pBC1944 displayed strong homology to a previously cloned satellite DNA from B. nana. With one exception, sequences are tandemly arranged as revealed by a typical ladder pattern after genomic Southern hybridization. The chromosomal distribution of five probes was determined by fluorescence in situ hybridization (FISH) of mitotic metaphases from B. corolliflora and a triploid hybrid between B. vulgaris and B. corolliflora. Three sequences were spread along all chromosome arms of B. corolliflora while one sequence was present on only six chromosomes. The chromosome-specific sequence pBC216 was found in close vicinity to the 5S rDNA located on B. corolliflora chromosome IV. This set of species-specific sequences has the potential to be used as probes for the identification of monosomic alien addition lines and for marker-assisted gene transfer from wild beet to cultivated beet.Key words: Beta vulgaris, FISH, repetitive DNA, species-specific sequences.

APA, Harvard, Vancouver, ISO, and other styles

49

van Vugt, Joke J. F. A., Ron G. M. van der Hulst, Andrea J. P. Pruijssers, Patrick Verbaarschot, Richard Stouthamer, and Hans de Jong. "Comparative AFLP reveals paternal sex ratio chromosome specific DNA sequences in the parasitoid wasp Trichogramma kaykai." Genome 52, no. 5 (May 2009): 447–55. http://dx.doi.org/10.1139/g09-024.

Full text

Abstract:

The parasitoid wasp Trichogramma kaykai with a haplo-diploid sex determination has a B chromosome called the paternal sex ratio (PSR) chromosome that confers paternal genome loss during early embryogenesis, resulting in male offspring. So far, it is not well known whether the PSR chromosome has unique DNA sequence characteristics. By comparative AFLP fingerprinting of genomic DNA from wasps with and without the PSR chromosome, we isolated DNA from PSR-specific bands. Fourteen of such DNA fragments were analysed to confirm their PSR specificity. Seven were sequenced and two (PT-AFLP 1 and PT-AFLP1 3) were identified as parts of retrotransposon genes based on BLAST searches. Internal primers designed from a third AFLP fragment allowed PCR amplification of a PSR chromosome specific marker, which can be used to screen for the PSR trait in male wasps. Southern analysis revealed a dispersed repetitive nature of this third sequence in the T. kaykai genome, suggesting that it is part of a transposon. A fourth AFLP fragment (PT-AFLP 5) appears to be a large repetitive sequence on the PSR chromosome. This sequence is also found in the genome of both T. kaykai and the closely related species Trichogramma deion , but its distribution on the PSR chromosome strongly resembles that of T. deion rather than that of T. kaykai. Our results provide further insight into the repetitive nature of sequences comprising B chromosomes and their similarities with their host and closely related species.

APA, Harvard, Vancouver, ISO, and other styles

50

Rzeszowska-Wolny, J., and J. Rogoliński. "MspI8, the repetitive sequence specifically interacting with nuclear matrix of rat testis cells." Acta Biochimica Polonica 41, no. 4 (December 31, 1994): 459–66. http://dx.doi.org/10.18388/abp.1994_4698.

Full text

Abstract:

The nuclear matrix bound DNA fraction of rat testis showed enrichment in repetitive sequences found in the 450 bp band after gel electrophoresis of the MspI digested rat DNA. DNA fragments isolated from this band were cloned. DNA of the clone pMspI8 showed homology to some representatives of rat LINE sequence family, and complexed in vitro more efficiently with testes nuclear matrix proteins than with yeast ARS1 sequence containing the matrix association region (MAR) or DNA from an other clone, MspI19. Western blot analysis showed that MspI8 sequence interacts with testes matrix protein of about 120 kDa.

APA, Harvard, Vancouver, ISO, and other styles

Journal articles on the topic 'Repetitive DNA sequence'

Create a spot-on reference in APA, MLA, Chicago, Harvard, and other styles