The DOI matches its Crossref record; 4 of the 4 references it cites were found in a registry or an index.
Identification and localisation of the NB-LRR gene family within the potato genome
Open accessAbstract
Background: The potato genome sequence derived from the Solanum tuberosum Group Phureja clone DM1-3 516 R44 provides unparalleled insight into the genome composition and organisation of this important crop. A key class of genes that comprises the vast majority of plant resistance (R) genes contains a nucleotide-binding and leucine-rich repeat domain, and is collectively known as NB-LRRs. Results: As part of an effort to accelerate the process of functional R gene isolation, we performed an amino acid motif based search of the annotated potato genome and identified 438 NB-LRR type genes among the ~39,000 potato gene models. Of the predicted genes, 77 contain an N-terminal toll/interleukin 1 receptor (TIR)-like domain, and 107 of the remaining 361 non-TIR genes contain an N-terminal coiled-coil (CC) domain. Physical map positions were established for 370 predicted NB-LRR genes across all 12 potato chromosomes. The majority of NB-LRRs are physically organised within 63 identified clusters, of which 50 are homogeneous in that they contain NB-LRRs derived from a recent common ancestor. Conclusions: By establishing the phylogenetic and positional relationship of potato NB-LRRs, our analysis offers significant insight into the evolution of potato R genes. Furthermore, the data provide a blueprint for future efforts to identify and more rapidly clone functional NB-LRR genes from Solanum species.
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Jones, J. D. G., & Dangl, J. L. (2006) · Nature · doi:10.1038/nature05286 · Cited by 13,177
Self-citationBiopython: freely available python tools for computational molecular biology and bioinformatics
Cock, P. J. A., Antao, T., Chang, J. T., Chapman, B. A., Cox, C. J., Dalke, A., Friedberg, I., Hamelryck, T., Kauff, F., Wilczynski, B., et al. (2009) · Bioinformatics · doi:10.1093/bioinformatics/btp163 · Cited by 6,080
Self-citationThe Pfam protein families database
Finn, R. D., Mistry, J., Tate, J., Coggill, P., Heger, A., Pollington, J. E., Gavin, O. L., Gunasekaran, P., Ceric, G., Forslund, K., et al. (2010) · Nucleic Acids Research · doi:10.1093/nar/gkp985 · Cited by 2,694
Paircoil2: improved prediction of coiled coils from sequence.
McDonnell, A. V., Jiang, T., Keating, A. E., & Berger, B. (2006) · Bioinformatics · doi:10.1093/bioinformatics/bti797 · Cited by 424
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Crops that feed the world 8: Potato: are the trends of increased global production sustainable?
Birch, P. R. J., Bryan, G., Fenton, B., Gilroy, E. M., Hein, I., Jones, J. T., Prashar, A., Taylor, M. A., Torrance, L., & Toth, I. K. (2012) · Food Security · doi:10.1007/s12571-012-0220-1 · Cited by 441
Self-citationJupe, F., Witek, K., Verweij, W., Śliwka, J., Pritchard, L., Etherington, G. J., Maclean, D., Cock, P. J., Leggett, R. M., Bryan, G. J., et al. (2013) · The Plant Journal · doi:10.1111/tpj.12307 · Cited by 393
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Metadata
- Authors
- Jupe, F., Pritchard, L., Etherington, G. J., MacKenzie, K., Cock, P. J., Wright, F., Sharma, S. K., Bolser, D., Bryan, G. J., Jones, J. D., & Hein, I.
- Venue
- BMC Genomics
- Published
- 2012-02-15
- Volume
- 13
- Issue
- 1
- Pages
- 75-75
- ISSN
- 1471-2164 (ISSN-L)
- OpenAlex
- W2118201962
- Cited by
- 310
- References
- 4
- FWCI
- 28.51
- Type
- journal article
- Language
- en
- Open access
- gold
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- Jupe, F., Pritchard, L., Etherington, G. J., MacKenzie, K., Cock, P. J., Wright, F., Sharma, S. K., Bolser, D., Bryan, G. J., Jones, J. D., & Hein, I. (2012). Identification and localisation of the NB-LRR gene family within the potato genome. BMC Genomics. https://doi.org/10.1186/1471-2164-13-75
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