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  • S. Karger AG  (5)
  • Raudsepp, T.  (5)
  • 1
    Online Resource
    Online Resource
    Chromosomal distribution, localization and expression of the human endogenous retrovirus ERV9
    S. Karger AG ; 2001
    In:  Cytogenetic and Genome Research Vol. 92, No. 1-2 ( 2001), p. 89-96
    Details
    In: Cytogenetic and Genome Research, S. Karger AG, Vol. 92, No. 1-2 ( 2001), p. 89-96
    Abstract: ERV9 is a class I family of human endogenous retroviral sequences. Somatic cell hybrid genomic hybridization experiments using a mono-chromosomal panel indicate the presence of approximately 120 ERV9 loci in the human genome distributed on most chromosomes. Fluorescence in situ hybridization (FISH) using an ERV9 cDNA probe containing 〈 i 〉 gag 〈 /i 〉 , 〈 i 〉 pol 〈 /i 〉 and 〈 i 〉 env 〈 /i 〉 sequences, verified this observation and a consistent signal was found at the chromosome region 11q13.3→q13.5. By analysis of a panel of radiation hybrids, an ERV9 locus was mapped to within a 300-kbp region at the chromosome site 11q13. The marker cCLGW567 and the locus MAP3K11/D11S546 centromeric and telomeric flanked it, respectively. Northern blot analysis, using an ERV9 LTR probe, indicated that most normal tissues examined expressed low abundant ERV9 LTR driven mRNAs of various sizes. The most prominent expression was found in adrenal glands and testis. However, the level of expression varied in the same tissues among different individuals indicating that ERV9 mRNA expression probably is inducible in certain tissues or at various cell stages.   
    Type of Medium: Online Resource
    ISSN: 1424-8581 , 1424-859X
    URL: Article
    DOI: 10.1159/000056875
    Language: English
    Publisher: S. Karger AG
    Publication Date: 2001
    detail.hit.zdb_id: 2061918-2
    SSG: 12
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  • 2
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    A BAC contig map over the proximal ∼3.3 Mb region of horse chromosome 21
    S. Karger AG ; 2008
    In:  Cytogenetic and Genome Research Vol. 120, No. 1-2 ( 2008), p. 164-172
    Details
    In: Cytogenetic and Genome Research, S. Karger AG, Vol. 120, No. 1-2 ( 2008), p. 164-172
    Abstract: A total of 207 BAC clones containing 155 loci were isolated and arranged into a map of linearly ordered overlapping clones over the proximal part of horse chromosome 21 (ECA21), which corresponds to the proximal half of the short arm of human chromosome 19 (HSA19p) and part of HSA5. The clones form two contigs – each corresponding to the respective human chromosomes – that are estimated to be separated by a gap of ∼200 kb. Of the 155 markers present in the two contigs, 141 (33 genes and 108 STS) were generated and mapped in this study. The BACs provide a 4–5× coverage of the region and span an estimated length of ∼3.3 Mb. The region presently contains one mapped marker per 22 kb on average, which represents a major improvement over the previous resolution of one marker per 380 kb obtained through the generation of a dense RH map for this segment. Dual color fluorescence in situ hybridization on metaphase and interphase chromosomes verified the relative order of some of the BACs and helped to orient them accurately in the contigs. Despite having similar gene order and content, the equine region covered by the contigs appears to be distinctly smaller than the corresponding region in human (3.3 Mb vs. 5.5–6 Mb) because the latter harbors a host of repetitive elements and gene families unique to humans/primates. Considering limited representation of the region in the latest version of the horse whole genome sequence EquCab2, the dense map developed in this study will prove useful for the assembly and annotation of the sequence data on ECA21 and will be instrumental in rapid search and isolation of candidate genes for traits mapped to this region.
    Type of Medium: Online Resource
    ISSN: 1424-8581 , 1424-859X
    URL: Article
    DOI: 10.1159/000118758
    Language: English
    Publisher: S. Karger AG
    Publication Date: 2008
    detail.hit.zdb_id: 2061918-2
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  • 3
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    Isolation, characterization and FISH assignments of horse BAC clones containing type I and II markers
    S. Karger AG ; 2001
    In:  Cytogenetic and Genome Research Vol. 92, No. 1-2 ( 2001), p. 144-148
    Details
    In: Cytogenetic and Genome Research, S. Karger AG, Vol. 92, No. 1-2 ( 2001), p. 144-148
    Abstract: In order to increase the number of markers on the horse cytogenetic map and expand the integration with the linkage map, an equine BAC library was screened for genes and for microsatellites. Eighty-nine intra-exon primers were designed from consensus gene sequences in documented species. After PCR screening, 38 clones containing identified genes were isolated and FISH mapped. These data allowed us to refine the available Zoo-FISH results, to define ten new conserved cytogenetic segments and expand two others, thus leading to the identification of a total of 26 conserved segments between horse and human. Interestingly, a new homeology segment was detected between ECA6p and HSA2q. Screening BAC clones for dinucleotide repeats led to the isolation of 33 microsatellites. Ten of the clones each contained at least a polymorphic microsatellite and one specific gene. The success of the approach in the production of integrative anchor loci and their potential use in localization and analysis of traits of interest by the candidate gene and positional cloning approach, are discussed.   
    Type of Medium: Online Resource
    ISSN: 1424-8581 , 1424-859X
    URL: Article
    DOI: 10.1159/000056886
    Language: English
    Publisher: S. Karger AG
    Publication Date: 2001
    detail.hit.zdb_id: 2061918-2
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  • 4
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    A 4,103 marker integrated physical and comparative map of the horse genome
    S. Karger AG ; 2008
    In:  Cytogenetic and Genome Research Vol. 122, No. 1 ( 2008), p. 28-36
    Details
    In: Cytogenetic and Genome Research, S. Karger AG, Vol. 122, No. 1 ( 2008), p. 28-36
    Abstract: A comprehensive second-generation whole genome radiation hybrid (RH II), cytogenetic and comparative map of the horse genome (2n = 64) has been developed using the 5000rad horse × hamster radiation hybrid panel and fluorescence in situ hybridization (FISH). The map contains 4,103 markers (3,816 RH; 1,144 FISH) assigned to all 31 pairs of autosomes and the X chromosome. The RH maps of individual chromosomes are anchored and oriented using 857 cytogenetic markers. The overall resolution of the map is one marker per 775 kilobase pairs (kb), which represents a more than five-fold improvement over the first-generation map. The RH II incorporates 920 markers shared jointly with the two recently reported meiotic maps. Consequently the two maps were aligned with the RH II maps of individual autosomes and the X chromosome. Additionally, a comparative map of the horse genome was generated by connecting 1,904 loci on the horse map with genome sequences available for eight diverse vertebrates to highlight regions of evolutionarily conserved syntenies, linkages, and chromosomal breakpoints. The integrated map thus obtained presents the most comprehensive information on the physical and comparative organization of the equine genome and will assist future assemblies of whole genome BAC fingerprint maps and the genome sequence. It will also serve as a tool to identify genes governing health, disease and performance traits in horses and assist us in understanding the evolution of the equine genome in relation to other species.
    Type of Medium: Online Resource
    ISSN: 1424-8581 , 1424-859X
    URL: Article
    DOI: 10.1159/000151313
    Language: English
    Publisher: S. Karger AG
    Publication Date: 2008
    detail.hit.zdb_id: 2061918-2
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  • 5
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    The 450-Band Resolution G- and R-Banded Standard Karyotype of the Donkey (〈i〉Equus asinus〈/i〉, 2n = 62)
    S. Karger AG ; 2009
    In:  Cytogenetic and Genome Research Vol. 125, No. 4 ( 2009), p. 266-271
    Details
    In: Cytogenetic and Genome Research, S. Karger AG, Vol. 125, No. 4 ( 2009), p. 266-271
    Abstract: Donkey chromosomes were earlier characterized separately by C-, G- and R-banding techniques. However, direct comparisons between G- and R-banding patterns have still not been carried out in this species. The present study reports this comparison at the 450-band level by using replication G- and R-banding patterns. Two sets of synchronized lymphocyte cultures were set up to obtain early (GBA+CBA-banding) and late (RBA-banding) BrdU incorporation. Slides were stained with acridine orange and observed under a fluorescence microscope. Reverse GBA+CBA- and RBA-banded karyotypes at the 450-band level were constructed. To verify G- and R-banding patterns in some acrocentric chromosomes, sequential GBA+CBA/Ag-NORs and RBA/Ag-NORs were also performed. The results of CBA-banding patterns obtained in 12 animals from 2 breeds showed a pronounced polymorphism of heterochromatin, especially in EAS1q-prox. Ideogrammatic representations of G- and R-banded karyotypes were constructed using only one common G- and R-banding nomenclature. In the present study both G- and R-banding patterns and relative ideograms are presented as standard karyotype for this species at the 450-band level.
    Type of Medium: Online Resource
    ISSN: 1424-8581 , 1424-859X
    URL: Article
    DOI: 10.1159/000235932
    Language: English
    Publisher: S. Karger AG
    Publication Date: 2009
    detail.hit.zdb_id: 2061918-2
    SSG: 12
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