Identification and Physical Mapping of New PCR-Based Markers Specific for the Long Arm of Rye (Secale cereale L.) Chromosome 6

Meng Li^{a, b, #},
Zongxiang Tang^{a, b, #},
Ling Qiu^{a, b},
Yangyang Wang^{a, b},
Shuyao Tang^{a, b},
Shulan Fu^{a, b
, ,}

a.
Province Key Laboratory of Plant Breeding and Genetics, Sichuan Agricultural University, Chengdu 611130, China
b.
Agronomy College, Sichuan Agricultural University, Chengdu 611130, China

More Information

Corresponding author: E-mail address: fusl1981@sina.com (Shulan Fu)

These authors contributed equally to this work.

摘要

- /
- /
- /
- /
- /
Abstract: To effectively use elite genes on the long arm of rye chromosome 6 (the 6RL arm) in wheat breeding programs, precise and fast identification of 6RL chromatin in wheat backgrounds is necessary. PCR-based 6RL-specific markers can facilitate the detection of elite genes on 6RL in wheat breeding. However, only a limited number of 6RL-specific markers have been developed. In the present study, 300 new PCR-based 6RL-specific markers were identified using specific length amplified fragment sequencing (SLAF-seq) technology, and were further physically mapped to four regions on the 6RL arm using 6R and 6RL deletion lines. Interestingly, 127 of the 300 markers were physically localized to a region from the site between 2.3 and 2.5 to the telomere, the same region where the powdery mildew resistance gene was mapped. In addition, 95 of the 300 markers exhibit polymorphisms, which can be used to investigate the diversity of rye 6RL arms. The markers developed in this study can be used to identify given segments of 6RL in wheat backgrounds and accelerate the utilization of elite genes on 6RL in wheat breeding.
- Wheat /
- Rye /
- 6RL-specific marker /
- Physical mapping /
- SLAF-seq /
- Powdery mildew
These authors contributed equally to this work.
注释:

HTML全文

参考文献(38)

[1]	Alkhimova, A.G., Heslop-Harrison, J.S., Shchapova, A.I. et al. Rye chromosome variability in wheat-rye addition and substitution lines Chromosome Res., 7 (1999),pp. 205-212
[2]	Asiedu, R., Fisher, J.M., Driscoll, C.J. Theor. Appl. Genet., 79 (1990),pp. 331-336
[3]	Bedbrook, J.R., Jones, J., O'Dell, M. et al. Cell, 19 (1980),pp. 545-560
[4]	Bento, M., Gustafson, P., Viegas, W. et al. Genome merger: from sequence rearrangements in triticale to their elimination in wheat-rye addition lines Theor. Appl. Genet., 121 (2010),pp. 489-497
[5]	Benito, C., Gallego, F.J., Zaragoza, C. et al. Theor. Appl. Genet., 82 (1991),pp. 27-32
[6]	Camacho, M.V., Matos, M., González, C. et al. Genetica, 123 (2005),pp. 303-311
[7]	Chen, S.Q., Huang, Z.F., Dai, Y. et al. PLoS One, 8 (2013),p. e65122
[8]	Cuadrado, A., Ceoloni, C., Jouve, N. Genome, 38 (1995),pp. 1061-1069
[9]	Delaney, D.E., Friebe, B.R., Hatchett, J.H. et al. Targeted mapping of rye chromatin in wheat by representational difference analysis Genome, 38 (1995),pp. 458-466
[10]	Devos, K.M., Atkinson, M.D., Chinoy, C.N. et al. Chromosomal rearrangements in the rye genome relative to that of wheat Theor. Appl. Genet., 85 (1993),pp. 673-680
[11]	Dundas, I.S., Frappell, D.E., Crack, D.M. et al. Deletion mapping of a nematode resistance gene on rye chromosome 6R in wheat Crop Sci., 41 (2001),pp. 1771-1778
[12]	Friebe, B., Hatchett, J.H., Gill, B.S. et al. Theor. Appl. Genet., 83 (1991),pp. 33-40
[13]	Friebe, B., Heun, M., Tuleen, N. et al. Cytogenetically monitored transfer of powdery mildew resistance from rye into wheat Crop Sci., 34 (1994),pp. 621-625
[14]	Fu, S.L., Yang, M.Y., Fei, Y.Y. et al. Alterations and abnormal mitosis of wheat chromosomes induced by wheat-rye monosomic addition lines PLoS One, 8 (2013),p. e70483
[15]	Fu, S.L., Ren, Z.L., Chen, X.M. et al. New wheat-rye 5DS-4RS·4RL and 4RS-5DS·5DL translocation lines with powdery mildew resistance J. Plant Res., 127 (2014),pp. 743-753
[16]	Gustafson, J.P., Ma, X.F., Korzun, V. et al. A consensus map of rye integrating mapping data from five mapping populations Theor. Appl. Genet., 118 (2009),pp. 793-800
[17]	Gyawali, Y.P., Nasuda, S., Endo, T.R. Cytological dissection and molecular characterization of chromosome 1R derived from ‘Burgas 2’ common wheat Genes Genet. Syst., 84 (2009),pp. 407-416
[18]	Gyawali, Y.P., Nasuda, S., Endo, T.R. A cytological map of the short arm of rye chromosome 1R constructed with 1R dissection stocks of common wheat and PCR-based markers Cytogenet. Genome Res., 129 (2010),pp. 224-233
[19]	Kofler, R., Bartoš, J., Gong, L. et al. Theor. Appl. Genet., 117 (2008),pp. 915-926
[20]	Korzun, V., Malyshev, S., Kartel, N. et al. Theor. Appl. Genet., 96 (1998),pp. 203-208
[21]	Li, J.J., Endo, T.R., Saito, M. et al. Homoeologous relationship of rye chromosome arms as detected with wheat PLUG markers Chromosoma, 122 (2013),pp. 555-564
[22]	Li, R., Yu, C., Li, Y. et al. SOAP2: an improved ultrafast tool for short read alignment Bioinformatics, 25 (2009),pp. 1966-1967
[23]	Milczarski, P., Bolibok-Bragoszewska, H., Myśków, B. et al. PLoS One, 6 (2011),p. e28495
[24]	Mukai, Y., Friebe, B., Hatchett, J.H. et al. Molecular cytogenetic analysis of radiation-induced wheat-rye terminal and intercalary chromosomal translocations and the detection of rye chromatin specifying resistance to Hessian fly Chromosoma, 102 (1993),pp. 88-95
[25]	Murray, M.G., Thompson, W.F. Rapid isolation of high molecular weight plant DNA Nucleic Acids Res., 8 (1980),pp. 4321-4326
[26]	Rayburn, A.L., Gill, B.S. Molecular identification of the D-genome chromosomes of wheat J. Hered., 77 (1986),pp. 253-255
[27]	Saal, B., Wricke, G. Genome, 42 (1999),pp. 964-972
[28]	Saal, B., Wricke, G. Clustering of amplified fragment length polymorphism markers in a linkage map of rye Plant Breed., 121 (2002),pp. 117-123
[29]	Seo, Y.W., Jang, C.S., Johnson, J.W. Development of AFLP and STS markers for identifying wheat-rye translocations possessing 2RL Euphytica, 121 (2001),pp. 279-287
[30]	Stojałowski, S., Myśów, B., Milczarski, P. et al. Cell Mol. Biol. Lett., 14 (2009),pp. 190-198
[31]	Tomita, M., Okutani, A., Beiles, A. et al. BMC Evol. Biol., 11 (2011),p. 269
[32]	Tomita, M., Seno, A. Genome, 55 (2012),pp. 370-382
[33]	Tsuchida, M., Fukushima, T., Nasuda, S. et al. Dissection of rye chromosome 1R in common wheat Genes Genet. Syst., 83 (2008),pp. 43-53
[34]	Wang, D., Zhuang, L.F., Sun, L. et al. Euphytica, 176 (2010),pp. 157-166
[35]	Wanous, M.K., Goicoechea, P.G., Gustafson, J.P. RFLP maps of rye chromosomes 6R and 7R including terminal C-bands Genome, 38 (1995),pp. 999-1004
[36]	Xu, H., Yin, D., Li, L. et al. Cytogenet. Genome Res., 136 (2012),pp. 220-228
[37]	Zhao, Z.H., Sun, H.G., Song, W. et al. Theor. Appl. Genet., 126 (2013),pp. 3081-3089
[38]	Zhuang, L.F., Liu, P., Liu, Z.Q. et al. Multiple structural aberrations and physical mapping of rye chromosome 2R introgressed into wheat Mol. Breeding, 35 (2015),p. 133