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The first in a series of tutorials on SoyBase and soybean genetics and genomics has been posted. This video will walk you through the needed supplies and proper methods in soybean cross-pollination.
A new whole genome display option has been added to the BLAST tool at SoyBase. When chosen, the results of the BLAST are shown for all chromosomes with links to individual zoomed views in the SoyBase sequence viewer.
A Progress Report has been completed by Rich Wilson and David Grant based on responses to a survey sent out in early 2010. A PDF version of the report, SoyGenStratPlan2008-2012-Accomplishments v1.6, is available.
A collection of photos taken by Rich Wilson at the 13th Biennial Molecular & Cellular
Biology of the Soybean held in Durham, NC in August 2010 has been posted.
The Soybean Genetics Newsletter has ceased publication. An archive of the site has been set up at SoyBase and is accessible from the Soybean Genetics Newsletter link on the Resources page.
Information about the gene models has been updated with improved annotations and
enhanced sequence browser views and text reports. Additionally it is now possible to
download the mRNA, CDS or predicted protein sequences for a gene model and all of
its splice isoforms from the text page returned by clicking on a gene model name in the
SoyBase Genome Browser.
We have added a selection of preconfigured views to the SoyBase Genome Browser.
Choosing one of the Example Views in the Search section at the top of the page will
turn on a set of related tracks in the viewer. These examples show some of the kinds
of data available in the genome viewer and can be used as a starting point for
constructing a customized set of tracks.
Explore soybean metabolic pathways using the SoyCyc metabolic pathway interface.
This interface allows users to explore soybean metabolic pathways that have been
electronically annotated with the Glyma 1.01 gene calls from JGI.
BARCSOYSSR 1.0, a collection of 33,065 potential SSRs identified by Qijian Song
and Perry Cregan from the Wm82 genomic sequence has been released. These SSRs are
now available as a track in the SoyBase Genome Browser. The whole dataset is available
for download.
Soybean data at PLEXdb. PLEXdb is now home to 13 more soybean data series
imported from NCBI-GEO. There are now 16 publicly visible experiments associated with
the Soybean Affymetrix chip.
The SoyBase RSS feed is now available. See here for details.
Try the new SoyBase whole genome sequence browser
The Glyma1.0 chromosome-based assembly and annotation of soybean is now available, replacing the preliminary contig-based assembly and annotation.
SoyBase Soybean ontologies are available from the SoyBase site under "Soybean Ontologies" in the SoyBase sub-nav bar. These ontologies cover soybean growth and development. Input from the community is actively encouraged.
The SoyBase and Soybean physical map websites have undergone a user interface upgrade. Please tell us your impressions. You can contact us HERE
A table is now available to convert the soybean linkage group names to chromosome numbers. The table was compiled by Perry Cregan's group at the USDA-ARS Soybean Genomics and Improvement Laboratory.
The annual meeting of the NCERA-200 Soybean Virus Research Group November 9-10, 2010 Iowa State University in Ames, Iowa.
The XIX Plant and Animal Genome Conference January 15-19, 2011 in San Diego, CA.