The DOI matches its Crossref record; 32 of the 32 references it cites were found in a registry or an index.
Construction of Reference Chromosome-Scale Pseudomolecules for Potato: Integrating the Potato Genome with Genetic and Physical Maps
Open accessAbstract
The genome of potato, a major global food crop, was recently sequenced. The work presented here details the integration of the potato reference genome (DM) with a new sequence-tagged site marker−based linkage map and other physical and genetic maps of potato and the closely related species tomato. Primary anchoring of the DM genome assembly was accomplished by the use of a diploid segregating population, which was genotyped with several types of molecular genetic markers to construct a new ~936 cM linkage map comprising 2469 marker loci. In silico anchoring approaches used genetic and physical maps from the diploid potato genotype RH89-039-16 (RH) and tomato. This combined approach has allowed 951 superscaffolds to be ordered into pseudomolecules corresponding to the 12 potato chromosomes. These pseudomolecules represent 674 Mb (~93%) of the 723 Mb genome assembly and 37,482 (~96%) of the 39,031 predicted genes. The superscaffold order and orientation within the pseudomolecules are closely collinear with independently constructed high density linkage maps. Comparisons between marker distribution and physical location reveal regions of greater and lesser recombination, as well as regions exhibiting significant segregation distortion. The work presented here has led to a greatly improved ordering of the potato reference genome superscaffolds into chromosomal “pseudomolecules”.
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Cites
AFLP: a new technique for DNA fingerprinting
Vos, P., Hogers, R., Bleeker, M., Reijans, M., Lee, T. V. D., Hornes, M., Friters, A., Pot, J., Paleman, J., Kuiper, M., et al. (1995) · Nucleic Acids Research · doi:10.1093/nar/23.21.4407 · Cited by 12,401
Analysis of the genome sequence of the flowering plant Arabidopsis thaliana
Initiative, T. A. G. (2000) · Nature · doi:10.1038/35048692 · Cited by 9,301
Genome sequencing in microfabricated high-density picolitre reactors
Margulies, M., Egholm, M., Altman, W. E., Attiya, S., Bader, J. S., Bemben, L. A., Berka, J., Braverman, M. S., Chen, Y.-J., Chen, Z., et al. (2005) · Nature · doi:10.1038/nature03959 · Cited by 7,693
Versatile and open software for comparing large genomes
Kurtz, S., Phillippy, A., Delcher, A. L., Smoot, M., Shumway, M., Antonescu, C., & Salzberg, S. L. (2004) · Genome Biology · doi:10.1186/gb-2004-5-2-r12 · Cited by 5,254
The map-based sequence of the rice genome
International Rice Genome Sequencing Project, & Sasaki, T. (2005) · Nature · doi:10.1038/nature03895 · Cited by 3,797
The grapevine genome sequence suggests ancestral hexaploidization in major angiosperm phyla
The French–Italian Public Consortium for Grapevine Genome Characterization (2007) · Nature · doi:10.1038/nature06148 · Cited by 3,767
The tomato genome sequence provides insights into fleshy fruit evolution
The Tomato Genome Consortium (2012) · Nature · doi:10.1038/nature11119 · Cited by 3,289
Genome sequence and analysis of the tuber crop potato
The Potato Genome Sequencing Consortium (2011) · Nature · doi:10.1038/nature10158 · Cited by 2,065
High density molecular linkage maps of the tomato and potato genomes.
Tanksley, S. D., Ganal, M. W., Prince, J. P., de Vicente, M. C., Bonierbale, M. W., Broun, P., Fulton, T. M., Giovannoni, J. J., Grandillo, S., & Martin, G. B. (1992) · Genetics · doi:10.1093/genetics/132.4.1141 · Cited by 1,588
Self-citationAssembly algorithms for next-generation sequencing data
Miller, J. R., Koren, S., & Sutton, G. (2010) · Genomics · doi:10.1016/j.ygeno.2010.03.001 · Cited by 1,154
Cited by
Finding the genomic basis of local adaptation: pitfalls, practical solutions, and future directions
Hoban, S., Kelley, J. L., Lotterhos, K. E., Antolin, M. F., Bradburd, G., Lowry, D. B., Poss, M. L., Reed, L. K., Storfer, A., & Whitlock, M. C. (2016) · The American Naturalist · doi:10.1086/688018 · Cited by 876
“Genome assembly can also be greatly improved using genetic mapping populations to create a linkage map (Fierst 2015) and/ or through optical mapping that places scaffolds on chromosomes (Sharma et al. 2013; Tang et al. 2015 a , 2015 b ; VanBuren et al. 2015).”
ALLMAPS: robust scaffold ordering based on multiple maps
Tang, H., Zhang, X., Miao, C., Zhang, J., Ming, R., Schnable, J. C., Schnable, P. S., Lyons, E., & Lu, J. (2015) · Genome Biology · doi:10.1186/s13059-014-0573-1 · Cited by 388
Software for Genome‐Wide Association Studies in Autopolyploids and Its Application to Potato
Rosyara, U. R., De Jong, W. S., Douches, D. S., & Endelman, J. B. (2016) · The Plant Genome · doi:10.3835/plantgenome2015.08.0073 · Cited by 293
Self-citationSchreiber, L., Nader-Nieto, A. C., Schönhals, E. M., Walkemeier, B., & Gebhardt, C. (2014) · G3 Genes|Genomes|Genetics · doi:10.1534/g3.114.012377 · Cited by 81
Metadata
- Authors
- Sharma, S. K., Bolser, D., de Boer, J., Sønderkær, M., Amoros, W., Carboni, M. F., D’Ambrosio, J. M., de la Cruz, G., Di Genova, A., Douches, D. S., Eguiluz, M., Guo, X., Guzman, F., Hackett, C. A., Hamilton, J. P., Li, G., Li, Y., Lozano, R., Maass, A., Marshall, D., Martinez, D., McLean, K., Mejía, N., Milne, L., Munive, S., Nagy, I., Ponce, O., Ramirez, M., Simon, R., Thomson, S. J., Torres, Y., Waugh, R., Zhang, Z., Huang, S., Visser, R. G. F., Bachem, C. W. B., Sagredo, B., Feingold, S. E., Orjeda, G., Veilleux, R. E., Bonierbale, M., Jacobs, J. M. E., Milbourne, D., Martin, D. M. A., & Bryan, G. J.
- Venue
- G3 Genes|Genomes|Genetics
- Publisher
- Oxford University Press (OUP)
- Published
- 2013-11-01
- Volume
- 3
- Issue
- 11
- Pages
- 2031-2047
- ISSN
- 2160-1836 (ISSN-L)
- OpenAlex
- W2140110977
- Cited by
- 263
- References
- 32
- FWCI
- 14.16
- Type
- journal article
- Language
- en
- Open access
- gold
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- Sharma, S. K., Bolser, D., de Boer, J., Sønderkær, M., Amoros, W., Carboni, M. F., D’Ambrosio, J. M., de la Cruz, G., Di Genova, A., Douches, D. S., Eguiluz, M., Guo, X., Guzman, F., Hackett, C. A., Hamilton, J. P., Li, G., Li, Y., Lozano, R., Maass, A., . . . Bryan, G. J. (2013). Construction of Reference Chromosome-Scale Pseudomolecules for Potato: Integrating the Potato Genome with Genetic and Physical Maps. G3 Genes|Genomes|Genetics. https://doi.org/10.1534/g3.113.007153
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Contains information from the Semantic Scholar Academic Graph Datasets, made available under the ODC Attribution License (ODC-BY 1.0).
Semantic Scholar’s data is described in: Kinney, R., et al. (2023). The Semantic Scholar Open Data Platform. arXiv:2301.10140.
