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Data released on November 12, 2011

Genomic data from the potato.

Cheng, S; Mu, D; Ni, P; Pan, S; Potato Genome Sequencing Consortium, ; Xu, X; Zhang, B; Zhang, G; Li, R; Yang, S; Wang, J; Orjeda, G; Guzman, F; Lozano, R; Torres, M; Martinez, D; Ponce, O; Chakrabarti, S, K; De La Cruz, G; Patil, V, U; Skryabin, K, G; Kuznetsov, B, B; Ravin, N, V; Kolganova, T, V; Beletsky, A, V; Mardanov, A, V; Di Genova, A; Bolser, D, M; Martin, D, M; Li, G; Yang, Y; Kuang, H; Hu, Q; Xiong, X; Bishop, G, J; Sagredo, B; Mejia, N; Zagorski, W; Gromadka, R; Gawor, J; Szczesny, P; Huang, S; Zhang, Z; Liang, C; He, J; Li, Y; He, Y; Xu, J; Zhang, Y; Xie, B; Du, Y; Qu, D; Bonierbale, M; Ghislain, M; del Rosario Herrera, M; Giuliano, G; Pietrella, M; Perrotta, G; Facella, P; O’Brien, K; Feingold, S, E; Barreiro, L, E; Massa, G, A; Diambra, L; Whitty, B, R; Vaillancourt, B; Lin, H; Massa, A, N; Geoffroy, M; Lundback, S; DellaPenna, D; Buell, C; Sharma, S, K; Marshall, D, F; Waugh, R; Bryan, G, J; Destefanis, M; Nagy, I; Milbourne, D; Thomson, S, J; Fiers, M; Jacobs, J, M; Nielsen, K, L; Sonderkar, M; Iovene, M; Torres, G, A; Jiang, J; Veilleux, R, E; Bachem, C, W; de Boer, J; Borm, T; Kloosterman, B; van Eck, H; Datema, E; Hekkert, B, T; Goverse, A; van Ham, R, C; Visser, R, G (2011): Genomic data from the potato. GigaScience. http://dx.doi.org/10.5524/100016 RIS BibTeX Text

Available here is the genome of the potato (Solanum tuberosum L.), the first genome sequenced from the asterid clade. Potato is a member of the Solanaceae, a plant family that includes many other economically important species, such as tomato, petunia, eggplant, tobacco, and pepper. As the potato is both clonally propagated and the world;s most important non-grain food crop, its genome is a valuable agricultural resource. The Potato Genome Sequencing Consortium sequenced two species: the heterozygous diploid S. tuberosum Group Tuberosum cultivar, RH89-039-16 (RH), and the doubled monoploid S. tuberosum Group Phureja clone DM1-3 516R44 (DM). The potato genome consists of 12 chromosomes, of which over 80% of the homozygous clone’s 844-megabase genome were assembled. Genome analysis revealed evidence of at least two genome duplication events and identified a number of asterid-specific genes. Comparison between the two clones identified frequent gene variations and mutations, which may cause inbreeding depression.

Contact Submitter

Related manuscripts:

doi:10.1038/nature10158 (PubMed: 21743474)

Genome browser:

http://solanaceae.plantbiology.msu.edu/cgi-bin/gbrowse/pgsc-potato-dm/

Accessions (data not in GigaDB):

SRA: SRP007439
ENA: ERP000411
ENA: ERP000627

Projects:


Genomic

http://gigadb.org/images/data/cropped/100016_Solanum.jpg

Samples: Table Settings

Columns:

Common Name
Scienfic Name
Sample Attributes
Taxonomic ID
Genbank Name

Sample IDTaxonomic IDCommon NameGenbank NameScientific NameSample Attributes
DM1-3 516R444113PotatopotatoSolanum tuberosum
Displaying 1-1 of 1 Sample(s).

Files: (FTP site) Table Settings

Columns:

File Description
Sample ID
File Type
File Format
Size
Release Date
Download Link
File Attributes

File NameSample IDFile TypeFile FormatSizeRelease Date 
DM1-3 516R44Sequence assemblyFASTA90.25 MB2011-11-12
DM1-3 516R44Sequence assemblyFASTA66.63 MB2011-11-12
DM1-3 516R44Sequence assemblyFASTA45.66 MB2011-11-12
DM1-3 516R44Sequence assemblyFASTA61.36 MB2011-11-12
DM1-3 516R44Sequence assemblyFASTA58.27 MB2011-11-12
DM1-3 516R44Sequence assemblyFASTA52.43 MB2011-11-12
DM1-3 516R44Sequence assemblyFASTA50.95 MB2011-11-12
DM1-3 516R44Sequence assemblyFASTA41.63 MB2011-11-12
DM1-3 516R44Sequence assemblyFASTA51.16 MB2011-11-12
DM1-3 516R44Sequence assemblyFASTA49.89 MB2011-11-12
Displaying 1-10 of 17 File(s).

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