Difference between revisions of "Main Page"

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<big>'''Paper of the month: February 2013'''</big>  
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<big>'''Paper of the month: March 2013'''</big>  
* For many [[essential genes]] of ''B. subtilis'', it is not clear why they are essential in ''B. subtilis'' but not in closely related species. Strikingly, this is the case for [[RNases]] such as RNases [[rnc|III]] and [[rny|Y]]. Now, [http://www.ncbi.nlm.nih.gov/pubmed/23300471 Durand et al..] from the lab of [[Ciaran Condon]] have identified the reason for the essentiality of [[rnc|RNase III]]: This enzyme is required to degrade phage encoded toxin mRNA molecules thus protecting the cell from lysis caused by the encoded toxins. Indeed, [[rnc|RNase III]] is dispensable in a strain lacking the [[Skin element]] and the [[SPß prophage]] that harbor the corresponding toxin genes.
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* The mechanism of membrane fission in bacteria has been a long-standing enigma. Now, [http://www.ncbi.nlm.nih.gov/pubmed/23388828 Doan et al..] from the lab of [[David Rudner]] demonstrate how the [[FisB]] protein (previously [[YunB]]) mediates membrane fission during [[sporulation]] This activity of [[FisB]] is based on its ability to bind to lipids, specifically to cardiolipin..
* '''Relevant ''Subti''Wiki pages:'''  [[Ciaran Condon]], [[rnc|RNase III]], [[essential genes]], ''[[yonT]]'', ''[[txpA]]'', [[toxins, antitoxins and immunity against toxins]]
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* '''Relevant ''Subti''Wiki pages:'''  [[David Rudner]], [[FisB]], [[sporulation]]
<big>''Durand S, Gilet L, Condon C''  </big>
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<pubmed> 23388828 </pubmed>
<big>'''The essential function of ''B. subtilis'' RNase III is to silence foreign toxin genes.''' </big>
 
<big>PLoS Genet. 2012 8(12): e1003181.</big>
 
[http://www.ncbi.nlm.nih.gov/pubmed/23300471 PubMed:23300471]
 
* '''A comment on this paper:'''
 
<pubmed> 23300472 </pubmed>
 
* '''See also:'''
 
<pubmed> 23059907 </pubmed>
 
 
* [[Previous papers of the month]]
 
* [[Previous papers of the month]]
  

Revision as of 09:37, 1 March 2013

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

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Contact: General Microbiology, University of Göttingen, send mail


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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: March 2013

  • The mechanism of membrane fission in bacteria has been a long-standing enigma. Now, Doan et al.. from the lab of David Rudner demonstrate how the FisB protein (previously YunB) mediates membrane fission during sporulation This activity of FisB is based on its ability to bind to lipids, specifically to cardiolipin..
  • Relevant SubtiWiki pages: David Rudner, FisB, sporulation


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:

  • January 2013: 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)