Comparison of the distribution of the repetitive DNA sequences in three variants of Cucumis sativus reveals their phylogenetic relationships

Xin Zhao^{a, #},
Jingyuan Lu^{b, #},
Zhonghua Zhang^c,
Jiajin Hu^b,
Sanwen Huang^{c
, ,},
Weiwei Jin^{a
, ,}

a.
National Maize Improvement Center of China, Key Laboratory of Crop Genetic Improvement and Genome of Ministry of Agriculture, Beijing Key Laboratory of Crop Genetic Improvement, China Agricultural University, Beijing 100193, China
b.
College of Bioscience and Biotechnology, Hunan Agricultural University, Changsha 410128, China
c.
Opening Lab of Genetic Improvement of Agricultural Crops of Ministry of Agriculture, Sino-Dutch Joint Lab of Horticultural Genomics, Institute of Vegetables and Flowers, Chinese Academy of Agricultural Sciences, Beijing 100081, China

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Corresponding author: E-mail address: huangsanwen@caas.net.cn (Sanwen Huang); E-mail address: weiweijin@cau.edu.cn (Weiwei Jin)

These authors contributed equally to this paper.

摘要

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Abstract: Repetitive DNA sequences with variability in copy number or/and sequence polymorphism can be employed as useful molecular markers to study phylogenetics and identify species/chromosomes when combined with fluorescence in situ hybridization (FISH). Cucumis sativus has three variants, Cucumis sativus L. var. sativus, Cucumis sativus L. var. hardwickii and Cucumis sativus L. var. xishuangbannesis. The phylogenetics among these three variants has not been well explored using cytological landmarks. Here, we concentrate on the organization and distribution of highly repetitive DNA sequences in cucumbers, with emphasis on the differences between cultivar and wild cucumber. The diversity of chromosomal karyotypes in cucumber and its relatives was detected in our study. Thereby, sequential FISH with three sets of multi-probe cocktails (combined repetitive DNA with chromosome-specific fosmid clones as probes) were conducted on the same metaphase cell, which helped us to simultaneously identify each of the 7 metaphase chromosomes of wild cucumber C. sativus var. hardwickii. A standardized karyotype of somatic metaphase chromosomes was constructed. Our data also indicated that the relationship between cultivar cucumber and C. s. var. xishuangbannesis was closer than that of C. s. var. xishuangbannesis and C. s. var. hardwickii.
- Cucumber /
- Wild cucumber /
- Satellite repeats
These authors contributed equally to this paper.
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[1]	Albert, P.S., Gao, Z., Danilova, T.V. et al. Diversity of chromosomal karyotypes in maize and its relatives Cytogenet. Genome Res., 129 (2010),pp. 6-16
[2]	Bradeen, J.M., Staub, J.E., Wye, C. et al. Genome, 44 (2001),pp. 111-119
[3]	Chen, J., Staub, J.E., Adelberg, J.W. et al. Can. J. Bot., 77 (1999),pp. 389-393
[4]	Ganal, M., Hemleben, V. Theor. Appl. Genet., 75 (1988),pp. 357-361
[5]	Ganal, M., Riede, I., Hemleben, V. J. Mol. Evol., 23 (1986),pp. 23-30
[6]	Gong, Z.Y., Liu, X.X., Tang, D. et al. Non-homologous chromosome pairing and crossover formation in haploid rice meiosis Chromosoma (2010)
[7]	Hall, S.E., Kettler, G., Preuss, D. Genome Res., 13 (2003),pp. 195-205
[8]	Han, Y.H., Zhang, Z.H., Liu, J.H. et al. Cytogenet. Genome Res., 122 (2008),pp. 80-88
[9]	Han, Y.H., Zhang, Z.H., Liu, C.X. et al. Centromere repositioning in cucurbit species: Implication of the genomic impact from centromere activation and inactivation Proc. Natl. Acad. Sci. USA, 106 (2009),pp. 14937-14941
[10]	Huang, S., Li, R., Zhang, Z. et al. Nat. Genet., 41 (2009),pp. 1275-1281
[11]	Jiang, J.M., Gill, B.S. Genome, 37 (1994),pp. 717-725
[12]	Jiang, J.M., Birchler, J.A., Parrott, W.A. et al. Molecular view of plant centromeres Trends Plant Sci., 8 (2003),pp. 570-575
[13]	Koo, D.H., Hur, Y., Jin, D.C. et al. Mol. Cells, 13 (2002),pp. 413-418
[14]	Kumar, A., Bennetzen, J.L. Plant retrotransposons Annu. Rev. Genet., 33 (1999),pp. 479-532
[15]	Lamb, J.C., Meyer, J.M., Corcoran, B. et al. Distinct chromosomal distributions of highly repetitive sequences in maize Chromosome Res., 15 (2007),pp. 33-49
[16]	Lee, C., Stanyon, R., Lin, C.C. et al. Conservation of human gamma-X centromeric satellite DNA among primates with an autosomal localization in certain Old World monkeys Chromosome Res, 7 (1999),pp. 43-47
[17]	Li, R., Ye, J., Li, S. et al. ReAS: recovery of ancestral sequences for transposable elements from the unassembled reads of a whole genome shotgun PLoS Computational Biol., 1 (2005),p. e43
[18]	Linares, C., Ferrer, E., Fominaya, A. Proc. Natl. Acad. Sci. USA, 95 (1998),pp. 12450-12455
[19]	Liu, C.X., Liu, J.H., Li, H. et al. Cytogenet. Genome Res., 129 (2010),pp. 1-3
[20]	Macas, J., Navrátilová, A., Koblížková, A. Chromosoma, 115 (2006),pp. 437-447
[21]	Marín, S., Martín, A., Barro, F. Genome, 51 (2008),pp. 580-588
[22]	Mravinac, B., Plohl, M., Ugarkovic, D. Preservation and high sequence conservation of satellite DNAs indicate functional constraints J. Mol. Evol., 61 (2005),pp. 542-550
[23]	Mukai, Y., Nakahara, Y., Yamamoto, M. Genome, 36 (1993),pp. 489-494
[24]	Nagaki, K., Tsujimoto, H., Sasakuma, T. A novel repetitive sequence of sugar cane, SCEN family, locating on centromeric regions Chromosome Res., 6 (1998),pp. 295-302
[25]	Ohmido, N., Kijima, K., Ashikawa, I. et al. Visualization of the terminal structure of rice chromosomes 6 and 12 with multicolor FISH to chromosomes and extended DNA fibers Plant Mol. Biol., 47 (2001),pp. 413-421
[26]	Ouyang, S., Buell, C.R. The TIGR Plant Repeat Databases: a collective resource for the identification of repetitive sequences in plants Nucleic Acids Res., 32 (2004),pp. D360-D363
[27]	Plohl, M., Luchetti, A., Meštrović, N. et al. Satellite DNAs between selfishness and functionality: structure, genomics and evolution of tandem repeats in centromeric (hetero) chromatin Gene, 409 (2008),pp. 78-82
[28]	Ren, Y., Zhang, Z.H., Liu, J.H. et al. An integrated genetic and cytogenetic map of the cucumber genome PLoS ONE, 4 (2009),p. e5795
[29]	San, M.P., Tikhonov, A., Jin, Y.K. et al. Nested retrotransposons in the intergenic regions of the maize genome Science, 274 (1996),pp. 765-768
[30]	Sharma, S., Raina, S.N. Organization and evolution of highly repeated satellite DNA sequences in plant chromosomes Cytogenet. Genome Res., 109 (2005),pp. 15-26
[31]	She, C.W., Jiang, X.H., Song, Y.C. et al. Yi Chuan, 32 (2010),pp. 264-270
[32]	Zhang, W., Yi, C., Bao, W. et al. Plant Physiol., 139 (2005),pp. 306-315

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doi: 10.1016/j.jcg.2010.12.005

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Comparison of the distribution of the repetitive DNA sequences in three variants of Cucumis sativus reveals their phylogenetic relationships

Corresponding author: E-mail address: huangsanwen@caas.net.cn (Sanwen Huang); E-mail address: weiweijin@cau.edu.cn (Weiwei Jin)

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doi: 10.1016/j.jcg.2010.12.005

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Comparison of the distribution of the repetitive DNA sequences in three variants of Cucumis sativus reveals their phylogenetic relationships

Corresponding author: E-mail address: huangsanwen@caas.net.cn (Sanwen Huang); E-mail address: weiweijin@cau.edu.cn (Weiwei Jin)

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