What's New

May 22, 2020

The Buell Lab at Michigan State University is pleased to make available an updated long-read chromosome-scale genome assembly (v6.1) for the doubled monoploid potato S. tuberosum Group Phureja DM 1-3 516 R44 . The assembly is being released before publication for use by public and private research communities as a resource to facilitate plant biology discoveries and plant breeding programs under a data release agreement. The data release agreement and v6.1 genome assembly are available on the data access page.

March 14, 2020

The haplotype resolved genome assembly and annotation of the heterozygous diploid potato RH89-039-16 is now avaiaible on SpudDB. More information about the assembly, download links, and a Jbrowse instance are available on the data access page.

Feb 5, 2018

The paper Genome sequence of M6, a diploid inbred clone of the high glycoalkaloid-producing tuber-bearing potato species Solanum chacoense, reveals residual heterozygosity been published in The Plant Journal. Thee genome assembly and annotation are available from the Data Dryad data repository.

Feb 1, 2016

The Buell lab at Michigan State have created a new pseudomolecule (chrUn) created from assembled DM reads that did not map to v4.03 and released it as v4.04. The pseudomolecules chr00-chr12 remain the same as v4.03. The v4.04 FASTA file can be downloaded from the PGSC Data Release Page and searched against on the SpudDB BLAST server. More details about chrUn can be found in Hardigan et al. (2016)

Jun 19, 2015

SNPs for the Solanum tuberosum cultivars Atlantic and Superior are now available as tracks on the Spud DB genome browser

September 8, 2014

The BLAST tool has been updated and now uses NCBI BLAST instead of the previous WU-BLAST. The output from the BLAST search now includes a graphical summary and an enhanced output layout as well.

April 4, 2014

An update has been made to the Breeder's Assistant Tools. Searching for SNPs via gene annotation is no longer case sensitive, leading to more complete search results.

March 28, 2014

A paper describing the resources, tools and data available in Spud DB has been published in the journal The Plant Genome.

December 13, 2013

The DM and RH RNA-Seq FPKM summary files were regenerated with the corrected PGSC DM v4.03 Pseudomolecule annotation. Please see the PGSC Data Download Page for more information.

December 5, 2013

The PGSC DM v4.03 Pseudomolecule GFF Files have been updated to correct an error. Please see the PGSC Data Download Page for more information.

November 1, 2013

A paper describing the construction of the PGSC v4.03 pseudomolecules for S. tuberosum Group Phureja DM1-3 has been published in the journal G3: Genes, Genomes, Genetics. The new pseudomolecules can be downloaded from the PGSC Data Download Page

September 4, 2013

Release 1 of Spud DB - Potato Genomics Resource.