Login

Join for Free!
114117 members


Bacterial Polysaccharides Cellular Localization

About microscopic forms of life, including Bacteria, Archea, protozoans, algae and fungi. Topics relating to viruses, viroids and prions also belong here.

Moderator: BioTeam

Bacterial Polysaccharides Cellular Localization

Postby omereilam » Wed Dec 21, 2011 3:11 pm

Hello all,

I'm currently involved in a research that deals with polysaccharides degradation/utilization by bacteria in the human gut.
I used a tool called pSORTb which predicts the cellular localization of proteins. In the results I get, many enzymes which are known to break polysaccharides are predicted to be intracellular. Because polysaccharides have an enormous molecular weight they cannot enter the cell and so that leads to the conclusion that they are not only degraded but also synthesized by the bacteria. However, based on my biological background, I cannot think of any known *intracellular* polysaccharide synthesized by bacteria, except starch.
So either I am wrong and there are many other bacterial polysaccharides synthesized in the cytoplasm, or pSORTb is giving me false predictions of the enzymes' cellular localization.
Can anyone help me decide on what is more logical?

Thanks much!
omer
omereilam
Garter
Garter
 
Posts: 3
Joined: Wed Dec 21, 2011 2:46 pm

Postby JackBean » Wed Dec 21, 2011 6:04 pm

try some of these services http://www.cbs.dtu.dk/services/
What proteins are you referring to? Those from human or from bacteria?

The predicting servers are not working for 100%. There are some rules for which the servers are looking for, but every rule has some exceptions ;)
http://www.biolib.cz/en/main/

Cis or trans? That's what matters.
User avatar
JackBean
Inland Taipan
Inland Taipan
 
Posts: 5657
Joined: Mon Sep 14, 2009 7:12 pm

Postby omereilam » Thu Dec 22, 2011 12:01 pm

Thanks! But as far as I looked, pSORTb is the leading predictor for bacterial protein subcellular localization. Obviously there are some mistakes, but what I was more interested in finding out is if there is knowledge of bacterial polysaccharides other than starch which are intracellular. Any idea?
omereilam
Garter
Garter
 
Posts: 3
Joined: Wed Dec 21, 2011 2:46 pm


Postby JackBean » Thu Dec 22, 2011 12:19 pm

I don't think that even starch is much abundant in bacteria
http://www.biolib.cz/en/main/

Cis or trans? That's what matters.
User avatar
JackBean
Inland Taipan
Inland Taipan
 
Posts: 5657
Joined: Mon Sep 14, 2009 7:12 pm

Postby JorgeLobo » Thu Dec 29, 2011 2:15 pm

Examine your assumption that this is a valid protocol. pSORTb bills itself as the leading predictor - there aren;t a whole lot of 'em. So challenge its authors with your disconnect at psort-mail@sfu.ca.
JorgeLobo
Coral
Coral
 
Posts: 424
Joined: Mon Nov 17, 2008 12:12 am

Postby neobe110 » Tue Jan 10, 2012 11:54 am

Alginic Acid
neobe110
Garter
Garter
 
Posts: 2
Joined: Tue Jan 10, 2012 11:48 am


Return to Microbiology

Who is online

Users browsing this forum: No registered users and 1 guest

cron