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Journal articles on the topic 'Repetitive DNA sequence'

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Published: 4 June 2021

Last updated: 3 February 2022

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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.

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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 pr

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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.

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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 event

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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.

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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

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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.

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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 o

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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.

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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 seq

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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.

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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.

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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.

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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 screeni

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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.

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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 s

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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.

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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 resul

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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.

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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 ofte

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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.

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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.

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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.

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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.

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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.

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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.

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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 i

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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.

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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

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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.

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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

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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.

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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 le

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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.

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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 g

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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.

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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.

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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

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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.

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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 cellul

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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.

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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 cellul

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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.

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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 &gt;13% (194 kb) of the cucumber mitochondrial genome, equaling &am

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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.

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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.

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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.

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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.

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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.

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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 int

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30

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

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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 fo

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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.

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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.

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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.

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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

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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.

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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

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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.

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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.

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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.

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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.

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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.

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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.

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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 d

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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.

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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 d

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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.

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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 hybridizat

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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.

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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

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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.

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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

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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.

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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

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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.

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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 g

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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.

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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 varia

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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.

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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

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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.

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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

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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.

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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-AF

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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.

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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 abo

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