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  • 1
    Electronic Resource
    Electronic Resource
    Springer
    Journal of molecular evolution 47 (1998), S. 183-189 
    ISSN: 1432-1432
    Keywords: Key words: Triticeae — Wheat — Afa family — Tandem repeat amplification
    Source: Springer Online Journal Archives 1860-2000
    Topics: Biology
    Notes: Abstract. The Afa-family sequences in wheat-related species, Triticeae, are tandem repetitive sequences of 340 bp. All the analyzed Triticeae species carried the sequences in their genomes, though the copy numbers varied about 100-fold among the species. The nucleotide fragments amplified by PCR were cloned and sequenced, and their behavior in the evolution of Triticeae was analyzed by the neighbor-joining (NJ) method. The sequences in genomes with many copies of this family clustered at independent branches of the phylogenic tree, whereas the sequences in genomes with a few copies did not. This may suggest that Afa-family sequences had amplified several times in the evolution of Triticeae, each using a limited number of different master copies. In addition, the sequences of the A and B genomes of hexaploid common wheat indicated that the Afa-family sequences had not evolved in a concerted manner between the genomes. Furthermore, the sequences of each chromosome of the D genome of this species indicated that the sequences had amplified on all over the D-genome chromosomes in a short period.
    Type of Medium: Electronic Resource
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  • 2
    Electronic Resource
    Electronic Resource
    Springer
    Current genetics 22 (1992), S. 251-258 
    ISSN: 1432-0983
    Keywords: Hypervariable region ; Wheat chloroplast DNAs ; Short repeats ; Intramolecular recombination
    Source: Springer Online Journal Archives 1860-2000
    Topics: Biology
    Notes: Summary The hot-spot region related to length mutations in the chloroplast genome of the wheat group was precisely analyzed at the DNA sequence level. This region, located downstream from the rbcL gene, was highly enriched in A+T, and contained a number of direct and inverted repeats. Many deletions/insertions were observed in the region. In most deletions/insertions of multiple nucleotides, short repeated sequences were found at the mutation points. Furthermore, a pair of short repeated sequences was also observed at the border of the translocated gene. A sequence homologous with ORF512 of tobacco cpDNA was truncated in cpDNAs of the wheat group and found only in the mitochondrial DNA of Ae. crassa, suggesting the inter-organellar translocation of this sequence. Mechanisms that could generate structural alterations of the chloroplast genome in the wheat group are discussed.
    Type of Medium: Electronic Resource
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  • 3
    ISSN: 1573-6849
    Keywords: heterochromatin ; Secale cereale L. ; tandem repeat
    Source: Springer Online Journal Archives 1860-2000
    Topics: Biology
    Notes: Abstract Among cultivated rye, Secale cereale L., collected in Japan, we found an extra heterochromatin on the long-arm interstitial region of chromosome 2R. This extra heterochromatin was polymorphic in the population. The plants with the extra heterochromatin showed a specific DNA fragment of 1.2 kb in digests prepared with the restriction enzyme DraI. The fragment was cloned and used as a probe for fluorescent in-situ hybridization (FISH). The clone, pScJNK1, showed a hybridization signal at the extra heterochromatic region. The segregation of the number of signals corresponded to the number of the extra heterochromatin of the 2R chromosome, indicating that the sequence might construct the heterochromatin. Southern hybridization using the clone as a probe showed a ladder pattern, suggesting that the sequence was a tandem repeat. Three sequences homologous to pScJNK1 were isolated; these were 1192–1232 bp, 44.7–45.9% in GC content, highly homologous (〉93%) with each other, and did not show any significant homology to other sequences in a DNA database. Slot blot hybridization using pScJNK1 as a probe indicated that there were about 4000 copies of the sequence in the haploid genome carrying the extra heterochromatin, whereas less than 20 copies existed in the genome without the heterochromatin. Southern hybridization using MspI and HapII indicated that all of the second cytosine nucleotides in CCGG sites in the sequence were methylated in the extra heterochromatin.
    Type of Medium: Electronic Resource
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  • 4
    ISSN: 1573-6849
    Keywords: Afa-family sequences ; Leymus ; subtelomeric heterochromatin ; Triticeae ; 350-bp family sequences
    Source: Springer Online Journal Archives 1860-2000
    Topics: Biology
    Notes: Abstract Two kinds of tandem repetitive sequences were isolated from Leymus racemosus (Lam.) Tzvelev. One of them was classified in the 350-bp family originally isolated from Secale. The other was a novel repetitive sequence family, named ‘TaiI family’, which consisted of a repeat unit of 570 bp. Fluorescence in-situ hybridization of the chromosomes of L. racemosus indicated that both families were located in subtelomeric heterochromatin and that the 350-bp family and TaiI family occupied different heterochromatin regions. In addition, even homologous chromosomes did not show the same patterns of TaiI and 350-bp families. The combination of these two families of repetitive sequences, together with Afa-family sequences and rDNAs, helps to identify the ten homologous chromosome pairs of L. racemosus. From these data, we proposed a karyotype of L. racemosus and compared it with other karyotypes already reported.
    Type of Medium: Electronic Resource
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  • 5
    Electronic Resource
    Electronic Resource
    Springer
    Chromosome research 6 (1998), S. 295-302 
    ISSN: 1573-6849
    Keywords: CENP-B box ; FISH ; Saccharum species ; tandem repeat
    Source: Springer Online Journal Archives 1860-2000
    Topics: Biology
    Notes: Abstract Tandem repetitive sequences consisting of 140-bp repetitive units were cloned from sugar cane genomic DNA and designated the SCEN family. In situ hybridization revealed that they were located on the centromeric region of almost all of the chromosomes of sugar cane. The 140-bp sequence included three CENP-B box-like sequences. Phylogenetic analysis of the members of the SCEN family revealed that the sequences had 75% homology with each other, on average, and that the sequences could not be further classified into smaller subfamilies. The copy number of the sequence was estimated to be 2.6 × 105 per haploid sugar cane genome and, therefore, 4.6 × 103 or 630 kb per chromosome on average.
    Type of Medium: Electronic Resource
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  • 6
    ISSN: 1573-5060
    Keywords: heading date ; heterosis ; linkage analysis ; photoperiod ; QTL ; vernalization requirement
    Source: Springer Online Journal Archives 1860-2000
    Topics: Agriculture, Forestry, Horticulture, Fishery, Domestic Science, Nutrition
    Notes: Abstract Recombinant inbred lines (RILs) from a cross between hexaploid wheat (T. aestivum cv. Chinese Spring (CS) and T. spelta (Sp)) were used for RFLP analysis of heading date and heterosis. Fourteen RFLP markers linking with heading date were identified; two were localized on chromosome 1A, one on 2A, three on 2B, one on 2D, four on 5A, two on 7A and one unlinked but reported to be on group 2. All of these markers may be attributable to genes for earliness per se. However, the markers in the chromosomes of 1A and 7A are new to this study. RILs were crossed with (tim)-CS, the alloplasmic CS with T. timopheevi cytoplasm, and the heterosis from earlier-parent and mid-parents were calculated for the F1s to examine the heterotic effect toward earliness on heading date. Five and two RFLP markers were associated with heterosis from the earlier-parent and mid-parents, respectively. They were distributed on the chromosomes of homoeologous groups 1 and 2.
    Type of Medium: Electronic Resource
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  • 7
    ISSN: 1573-5028
    Keywords: Fe deficiency ; graminaceous plants ; Hordeum vulgare ; mugineic acid ; phytosiderophores ; roots
    Source: Springer Online Journal Archives 1860-2000
    Topics: Biology
    Notes: Abstract A cDNA clone, Ids3 (iron deficiency-specific clone 3), was isolated from an Fe-deficient-root cDNA library of Hordeum vulgare. Ids3 encodes a protein of 339 amino acids with a calculated molecular mass of 37.7 kDa, and its amino acid sequence shows a high degree of similarity with those of plant and fungal 2-oxoglutarate-dependent dioxygenases. One aspartate and two histidine residues for ferrous Fe binding (Asp-211, His-209, His-265) and arginine and serine residues for 2-oxoglutarate binding (Arg-275, Ser-277) are conserved in the predicted amino acid sequence of Ids3. Ids3 expression was rapidly induced by Fe deficiency, and was suppressed by re-supply of Fe. Among eight graminaceous species tested, Ids3 expression was observed only in Fe-deficient roots of H. vulgare and Secale cereale, which not only secrete 2′-deoxymugineic acid (DMA), but also mugineic acid (MA) and 3-epihydroxymugineic acid (epiHMA, H. vulgare), and 3-hydroxymugineic acid (HMA, S. cereale). The Ids3 gene is encoded on the long arm of chromosome 4H of H. vulgare, which also carries the hydroxylase gene that converts DMA to MA. Moreover, the Ids2 gene, which is the plant dioxygenase with the highest homology to Ids3, is encoded on the long arm of chromosome 7H of H. vulgare, which carries the hydroxylase gene that converts MA to epiHMA. The observed expression patterns of the Ids3 and Ids2 genes strongly suggest that IDS3 is an enzyme that hydroxylates the C-2′ positions of DMA and epiHDMA, while IDS2 hydroxylates the C-3 positions of MA and DMA.
    Type of Medium: Electronic Resource
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