So - see the comments for this posting but also see FriendFeed where Jason Stajich and I posted many comments. Here are some links:
- My FriendFeed
- Jason Stajich on one talk
- Jason on another talk
- Jason on another talk
- Jason friend feed
Wednesday, March 25, 2009
Live Blogging the JGI Users Meeting
Well, I am at the JGI (Joint Genome Institute) User Meeting - and I am going to try and do some live blogging right here. I am going to do it differently than I have previously and do things in the comments not in the main page here. If it works, great. If not I might switch to FriendFeed. So check out the comments for new updates ....
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I have a new friend in Google Scholar Updates I have written about the Updates system before and if you want more information please see... -
See Isolation and sequence-based characterization of a koala symbiont: Lonepinella koalarum Paper based on PhD thesis work of Katie Dahlha...
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Just got this press release by email. I am sick of receiving dozens of unsolicited press releases, especially those in topics not related ...
Eddy Rubin just gave a very brief introduction to the meeting and encouraged everyone to come on the tours of JGI over the next few days.
ReplyDeleteJeff Dangl is now talking about Comparative genomics of P. syringae. I note Dangl has a pretty cool new paper on sequencing and assembling microbial genomes -
ReplyDeleteDe novo assembly using low-coverage short read sequence data from the rice pathogen Pseudomonas syringae pv. oryzae.
Reinhardt JA, Baltrus DA, Nishimura MT, Jeck WR, Jones CD, Dangl JL.
Genome Res. 2009 Feb;19(2):294-305. Epub 2008 Nov 17.
Dangl is now talking about the work in that paper -- he says the cost of doing a bacterial genome with a 454/Illumina hybrid method is only about $1000 per genome and it will go down
ReplyDeleteDangl says the scaffoloidng that comes from 454 longer reads is VERY important
ReplyDeleteDangl now says that for many purposes you have to have high coverage assembled sequence ... I could not agree more
ReplyDeleteDangl is now talking about studying what host genes are involved in influencing the assembly of plant associated microbial communities.
ReplyDeleteThey are doing soil metagenomics of Arabidopsis roots. Then they want to do some QTL mapping studies regarding the interactions of host genes with the microbes
ReplyDeleteIt is by the way packed to the gills here ...
ReplyDeleteJames Cate is now going to talk about reverse engineering cellulosomes in CLostridia.
ReplyDeleteHe says his goal here is to basically make cellulosomes into some sort of swiss army knife equivalent --- to be able to mix and match different subunits to produce different activities
He is now discussing how they are using proteomics in combination with the genomic data to try and ID various cellulosome components
There is a possibly commercial talk now - Bryan O'Neill from Sapphire Energy talking about Algal Engineering ... hope he avoids too much promotion
ReplyDeleteOh well - too late for that - seems way way too self promotional in the first few minutes. Not sure why he is here
ReplyDeleteSorry -correction it is Mike Mendez talking
ReplyDeleteHe is saying the most important chemical reaction on the planet is plants converting CO2 into sugar. I disagree. Yeast converting sugar into alcohol is much more important -
ReplyDeleteHe is now saying some convincing things about algae being important ...
He says genetic engineering will have to be used on the algae since he does not have 7000 years to sort it out -
He says he has to grow in monoculture because all farming works that way --- this baffles me and makes him sound pretty lame
ReplyDeletehe is proposing some genome sequencing to help him get his production strain online --- not sure why he would not sequence them himself -
ReplyDeleteif JGI sequences them, how does he manage the patentability aspects too?
ReplyDeleteI think it is completely ridiculous to think a public entity like JGI would sequence these genomes for free for his company
ReplyDeleteCameron Curre is now talking about leaf cutting ants
ReplyDeletehe is showing side by side trees of the ants and the fungus that they farm and since the trees are very similar it suggests that this is an ancient symbiosis - go phylogeny
ReplyDeleteI have had my computer compromised --- sneaky prankster(s) posted something from my laptop while we were on break (I left it out) ... I cannot imagine why people would pull a prank on me ... pranks are very very bad things
ReplyDelete