TY - JOUR
T1 - FISH mapping and molecular organization of the major repetitive sequences of tomato
AU - Chang, Song Bin
AU - Yang, Tae Jin
AU - Datema, Erwin
AU - Van Vugt, Joke
AU - Vosman, Ben
AU - Kuipers, Anja
AU - Meznikova, Marie
AU - Szinay, Dóra
AU - Lankhorst, René Klein
AU - Jacobsen, Evert
AU - De Jong, Hans
N1 - Funding Information:
This research was co-financed by the European Commission (EU-SOL Project PL 016214) and by the Centre for BioSystems Genomics (CBSG) which is part of the Netherlands Genomics Initiative / Netherlands Organization for Scientific Research.
PY - 2008/10
Y1 - 2008/10
N2 - This paper presents a bird's-eye view of the major repeats and chromatin types of tomato. Using fluorescence in-situ hybridization (FISH) with Cot-1, Cot-10 and Cot-100 DNA as probes we mapped repetitive sequences of different complexity on pachytene complements. Cot-100 was found to cover all heterochromatin regions, and could be used to identify repeat-rich clones in BAC filter hybridization. Next we established the chromosomal locations of the tandem and dispersed repeats with respect to euchromatin, nucleolar organizer regions (NORs), heterochromatin, and centromeres. The tomato genomic repeats TGRII and TGRIII appeared to be major components of the pericentromeres, whereas the newly discovered TGRIV repeat was found mainly in the structural centromeres. The highly methylated NOR of chromosome 2 is rich in [GACA] 4, a microsatellite that also forms part of the pericentromeres, together with [GA]8, [GATA]4 and Ty1-copia. Based on the morphology of pachytene chromosomes and the distribution of repeats studied so far, we now propose six different chromatin classes for tomato: (1) euchromatin, (2) chromomeres, (3) distal heterochromatin and interstitial heterochromatic knobs, (4) pericentromere heterochromatin, (5) functional centromere heterochromatin and (6) nucleolar organizer region.
AB - This paper presents a bird's-eye view of the major repeats and chromatin types of tomato. Using fluorescence in-situ hybridization (FISH) with Cot-1, Cot-10 and Cot-100 DNA as probes we mapped repetitive sequences of different complexity on pachytene complements. Cot-100 was found to cover all heterochromatin regions, and could be used to identify repeat-rich clones in BAC filter hybridization. Next we established the chromosomal locations of the tandem and dispersed repeats with respect to euchromatin, nucleolar organizer regions (NORs), heterochromatin, and centromeres. The tomato genomic repeats TGRII and TGRIII appeared to be major components of the pericentromeres, whereas the newly discovered TGRIV repeat was found mainly in the structural centromeres. The highly methylated NOR of chromosome 2 is rich in [GACA] 4, a microsatellite that also forms part of the pericentromeres, together with [GA]8, [GATA]4 and Ty1-copia. Based on the morphology of pachytene chromosomes and the distribution of repeats studied so far, we now propose six different chromatin classes for tomato: (1) euchromatin, (2) chromomeres, (3) distal heterochromatin and interstitial heterochromatic knobs, (4) pericentromere heterochromatin, (5) functional centromere heterochromatin and (6) nucleolar organizer region.
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U2 - 10.1007/s10577-008-1249-z
DO - 10.1007/s10577-008-1249-z
M3 - Article
C2 - 18688733
AN - SCOPUS:55149114423
SN - 0967-3849
VL - 16
SP - 919
EP - 933
JO - Chromosome Research
JF - Chromosome Research
IS - 7
ER -