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Welcome to SubtiWiki! - Bacillus subtilis annotation the "wiki" way!

Contact: General Microbiology, University of Göttingen, send mail

Upcoming events:

• The BACELL meeting 2013 will be held in Newcastle on April 10th and 11th. The meeting will be organized by Leendert Hamoen and Colin Harwood. [mailto: leendert.hamoen@newcastle.ac.uk contact]
• The 7th International Conference on Gram-positive Microorganisms (17th International Conference on Bacilli) organized by Marta Perego, Jim Hoch, and Hendrik Szurmant is going to take place from June 23 - 27, 2013, in Montecatini Terme in lovely Tuscany, Italy, conference website, contact
• Past conferences

New: Subtiwiki is now on Facebook - please give it a +1!

Now online: A description of SubtiWiki, SubtiPathways, and SubtInteract in the 2012 Database issue of Nucleic Acids Research

Paper of the month: November 2012

• Watson and Fedor identify the first ATP-responsive riboswitch. This riboswitch controls the expression of the ydaO gene and the ktrA-ktrB operon. Gene expression is decreased upon binding of ATP to the riboswitch. In consequence, the target genes are induced if the energy charge of the cell is low.
• Relevant SubtiWiki pages: ydaO, ydaO riboswitch, riboswitch, ktrA-ktrB

Peter Y Watson, Martha J Fedor
The ydaO motif is an ATP-sensing riboswitch in Bacillus subtilis.
Nat Chem Biol: 2012, 8(12);963-5
[PubMed:23086297] [WorldCat.org] [DOI] (I p)

• Previous papers of the month

New procedure for account creation:

• Due to massive spam attacks, we had to change our policy for the creation of accounts. If you want to create an account, just send me a mail. We will create the account for you as quickly as possible, then you can change your password. This does not affect existing accounts, which remain active.
  
• Please remember that all members of the Bacillus community are invited to create accounts and to contribute to SubtiWiki!

News in SubtiWiki:

• November 2012: updated Excel files that map all genes to categories and regulons as well as the general updated identity mapping of all genes were uploaded.
• October 2012: the essential genes have been categorized
• September 2012: 300 mutant strains available at the BGSC were added to the corresponding gene pages
• August 2012: SubtiExpress, the new compagnon of SubtiWiki devoted to gene expression is online! Try it out!
• April 2012: Links for expression data under 104 different conditions (based on Nicolas et al., 2012) have been added to the expression section of the individual gene pages
• April 2011: SubtInteract, a presentation of protein-protein interactions in B. subtilis, is online!
• December 2010: SubtiCellPublisher allows the conversion of CellDesigner diagrams to navigatable presentations in the style of SubtiPathways
• December 2010: all genes are linked to regulons, and the pages of the regulons provide an overview on all genes that are members of this specific regulon.
• December 2010: all genes/proteins are linked to categories, and the pages of the categories provide an overview on all genes/proteins that are members of this specific category.

Genes (examples)	Additional pages
spo0A	SubtiPathways
glnA	Lists of genes, proteins and RNAs
rny	Categories
psdA	Regulons
pckA	methods
dnaA	metabolism
rnpA	protein-protein interactions
sigB	genome-wide analyses
ptkA	list of plasmids
mreC	labs working on Bacillus
ccpA	the people behind SubtiWiki
sr1	template

Publications describing SubtiWiki and SubtiPathways:

Lope A Flórez, Sebastian F Roppel, Arne G Schmeisky, Christoph R Lammers, Jörg Stülke
A community-curated consensual annotation that is continuously updated: the Bacillus subtilis centred wiki SubtiWiki.
Database (Oxford): 2009, 2009;bap012
[PubMed:20157485] [WorldCat.org] [DOI] (I p)

Christoph R Lammers, Lope A Flórez, Arne G Schmeisky, Sebastian F Roppel, Ulrike Mäder, Leendert Hamoen, Jörg Stülke
Connecting parts with processes: SubtiWiki and SubtiPathways integrate gene and pathway annotation for Bacillus subtilis.
Microbiology (Reading): 2010, 156(Pt 3);849-859
[PubMed:19959575] [WorldCat.org] [DOI] (I p)