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Molecular cytogenetic mapping of Cucumis sativus and C. melo using highly repetitive DNA sequences

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Abstract

Chromosomes often serve as one of the most important molecular aspects of studying the evolution of species. Indeed, most of the crucial mutations that led to differentiation of species during the evolution have occurred at the chromosomal level. Furthermore, the analysis of pachytene chromosomes appears to be an invaluable tool for the study of evolution due to its effectiveness in chromosome identification and precise physical gene mapping. By applying fluorescence in situ hybridization of 45S rDNA and CsCent1 probes to cucumber pachytene chromosomes, here, we demonstrate that cucumber chromosomes 1 and 2 may have evolved from fusions of ancestral karyotype with chromosome number n = 12. This conclusion is further supported by the centromeric sequence similarity between cucumber and melon, which suggests that these sequences evolved from a common ancestor. It may be after or during speciation that these sequences were specifically amplified, after which they diverged and specific sequence variants were homogenized. Additionally, a structural change on the centromeric region of cucumber chromosome 4 was revealed by fiber-FISH using the mitochondrial-related repetitive sequences, BAC-E38 and CsCent1. These showed the former sequences being integrated into the latter in multiple regions. The data presented here are useful resources for comparative genomics and cytogenetics of Cucumis and, in particular, the ongoing genome sequencing project of cucumber.

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Abbreviations

BAC:

Bacterial artificial chromosome

CCD:

Charge-coupled device

CTAB:

Cetyltrimethylammonium bromide

DAPI:

4′,6-Diamidino-2-phenylindole

FISH:

Fluorescence in situ hybridization

FITC:

Fluorescein isothiocyanate

NOR:

Nucleolar-organizing region

PI:

Propidium iodide

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Acknowledgements

We are grateful to Dr. Jiming Jiang for his valuable comments on this manuscript. This work was supported by a grant from the Korea Research Foundation (KRF-2000-DP0401) to YH.

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Authors and Affiliations

  1. School of Bioscience and Biotechnology, Chungnam National University, Daejeon, 305-764, South Korea

    Dal-Hoe Koo, Jae-Wook Bang & Yoonkang Hur

  2. Department of Horticulture, University of Wisconsin-Madison, Madison, WI, 53706, USA

    Dal-Hoe Koo

  3. Life Science, College of Natural Science, Sogang University, Seoul, 100-611, South Korea

    Young-Woo Nam

  4. Department of Plant Sciences, College of Agricultural and Life Sciences, Seoul National University, Seoul, 151-742, South Korea

    Doil Choi

  5. Laboratory of Genetics, Wageningen University and Research Center, Wageningen, the Netherlands

    Hans de Jong

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  1. Dal-Hoe Koo
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  2. Young-Woo Nam
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  4. Jae-Wook Bang
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  5. Hans de Jong
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Correspondence to Dal-Hoe Koo or Yoonkang Hur.

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Responsible Editor: Herbert Macgregor.

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ESM Table 1

Repeats on BAC-E38 BAC sequence analyzed by RepeatMasker v1.162 (2005/04/14) run with cross match version 0.990329, RepBase Update 9.11(database version 20050112) (DOC 57 kb)

ESM Table 2

Repeats on BAC-E38 analyzed by Tandem Repeats Finder Version 3.21 (parameters 2 7 7 80 10 50 500) (DOC 56 kb)

ESM Table 3

Repeats on BAC-E38 BAC sequence analyzed by Miropeats (threshold value = 100) (DOC 37 kb)

ESM Table 4

Characterization of nine ORFs predicted by FGENESH in BAC-E38 (DOC 34 kb)

ESM Fig. 1

(DOC 308 kb)

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Koo, DH., Nam, YW., Choi, D. et al. Molecular cytogenetic mapping of Cucumis sativus and C. melo using highly repetitive DNA sequences. Chromosome Res 18, 325–336 (2010). https://doi.org/10.1007/s10577-010-9116-0

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  • DOI: https://doi.org/10.1007/s10577-010-9116-0

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