SNP genotyping in tetraploid cut roses

Acta Horticulturae

Volumn 953, Issue , 2012, Pages 351-356

  Koning Boucoiran, C F S ^a   Smulders, M J M ^a   Krens, F A ^a   Esselink, G D ^a   Maliepaard, C ^a  

^a WAGENINGEN UNIVERSITY   (Netherlands)

Author keywords

Cut roses; Marker assisted breeding; Powdery mildew resistance; QTL; Rosa hybrida; SNP marker; Tetraploid inheritance

Indexed keywords

EID: 84869990764     PISSN: 05677572     EISSN: None     Source Type: Book Series    
DOI: 10.17660/ActaHortic.2012.953.49     Document Type: Article

References (12)

1. Grabherr, M.G., Haas, B.J., Yassour, M., Levin, J.Z., Thompson, D.A., Amit, I., Adiconis, X., Fan, L., Raychowdhury, R., Zeng, Q., Chen, Z., Mauceli, E., Hacohen, N., Gnirke, A., Rhind, N., di Palma, F., Birren, B.W., Nusbaum, C., Lindblad-Toh, K., Friedman, N. and Regev, A. 2011. Full-length transcriptome assembly from RNA-Seq data without a reference genome. Nature Biotech. 29:644-652.
2. Hosseini Moghaddam, H., Leus, L., De Riek, J., Van Huylenbroeck, J. and Van Bockstaele, E. 2012. Construction of a genetic linkage map with SSR, AFLP and morphological markers to locate QTLs controlling pathotype-specific powdery mildew resistance in diploid roses. Euphytica 184:413-427.
3. Huang, X. and Madan, A. 1999. CAP3: A DNA Sequence Assembly Program. Genome Res. 9:868-877. (Pubitemid 29488446)
4. Koning-Boucoiran, C.F.S., Gitonga, V., Yan, Z., Dolstra, O., van der Linden, C.G., van der Schoot, J., Uenk, G., Verlinden, K., Smulders, M.J.M., Krens, F.A. and Maliepaard, C. 2012. The mode of inheritance in tetraploid cut roses. TAG. doi.10.1007/s00122-012-1855-1.
5. Langmead, B. and Salzberg, S. 2012. Fast gapped-read alignment with Bowtie 2. Nature Methods 9:357-359.
6. Leus, L. 2005. Resistance breeding for powdery mildew (Podosphaera pannosa) and black spot (Diplocarpon rosae) in roses. Ph.D. Thesis, Faculty of Bioscience Engineering, Ghent University, Belgium. 149p.
7. Linde, M. and Debener, T. 2003. Isolation and identification of eight races of powdery mildew of roses (Podosphaera pannosa) (Wallr.: Fr.) de Bary and the genetic analysis of the resistance gene Rpp1. TAG 107:256-262. (Pubitemid 36922304)
8. Linde, M. and Shishkoff, N. 2003. Powdery mildew. p.158-165. In: A.V. Roberts, T. Debener and S. Gudin (eds.), Encyclopedia of rose science. Elsevier, Oxford.
9. Tang, J., Vosman, B., Voorrips, R.E., van der Linden, C.G. and Leunissen, J.A. 2006. QualitySNP: a pipeline for detecting single nucleotide polymorphisms and insertions/deletions in EST data from diploid and polyploid species. BMC Bioinformatics 7:438.
10. Voorrips, R.E., Gort, G. and Vosman, B. 2011. Genotype calling in tetraploid species from bi-allelic marker data using mixture models. BMC Bioinformatics 12:172.
11. Yan, Z. 2005. Towards efficient improvement of greenhouse grown roses: genetic analysis of vigour and powdery mildew resistance. PhD. Thesis. WUR, The Netherlands.
12. Yan, Z., Dolstra, O., Prins, T., Stam, P. and Visser, P. 2006. Assessment of partial resistance to powdery mildew (Podosphaera pannosa) in a tetraploid rose population using a spore-suspension inoculation method. European Journal of Plant Pathology 114:301-308. (Pubitemid 43881422)