Comments on: Hacking the genome with a MAGE and a CAGE http://blogs.discovermagazine.com/notrocketscience/2011/07/14/hacking-the-genome-with-a-mage-and-a-cage/ Mon, 26 Nov 2012 12:00:51 +0000 hourly 1 http://wordpress.org/?v=3.4.2 By: Causio http://blogs.discovermagazine.com/notrocketscience/2011/07/14/hacking-the-genome-with-a-mage-and-a-cage/#comment-12496 Causio Wed, 29 Aug 2012 21:09:03 +0000 http://blogs.discovermagazine.com/notrocketscience/?p=4917#comment-12496 [OT] "and it’s integration with " please remove the apostrophe... ugly error! [OT] “and it’s integration with ” please remove the apostrophe… ugly error!

]]> By: Phil Ashton http://blogs.discovermagazine.com/notrocketscience/2011/07/14/hacking-the-genome-with-a-mage-and-a-cage/#comment-12495 Phil Ashton Tue, 11 Oct 2011 09:50:23 +0000 http://blogs.discovermagazine.com/notrocketscience/?p=4917#comment-12495 A post on this great microbiology blog goes into a bit more detail if anyone is interested in the genetics of this approach. http://schaechter.asmblog.org/schaechter/2011/10/whats-old-is-new-genome-wide-manipulation-of-the-bacterial-chromosome-in-vivo.html A post on this great microbiology blog goes into a bit more detail if anyone is interested in the genetics of this approach.

http://schaechter.asmblog.org/schaechter/2011/10/whats-old-is-new-genome-wide-manipulation-of-the-bacterial-chromosome-in-vivo.html

]]> By: erplus http://blogs.discovermagazine.com/notrocketscience/2011/07/14/hacking-the-genome-with-a-mage-and-a-cage/#comment-12494 erplus Sun, 17 Jul 2011 18:12:48 +0000 http://blogs.discovermagazine.com/notrocketscience/?p=4917#comment-12494 not as original as it sounds since every mol.biology student has to learn that organisms use stop codons already in some instances to encode the 21st and the 22nd amino-acids: selenocysteine and pyrrolysine. so all the useful ideas here are already in the natural examples... plus ca change plus these harvard frauds try to appear non-plus-ultrish... not as original as it sounds since every mol.biology student has to learn that organisms use stop codons already in some instances to encode the 21st and the 22nd amino-acids: selenocysteine and pyrrolysine.

so all the useful ideas here are already in the natural examples…

plus ca change plus these harvard frauds try to appear non-plus-ultrish…

]]> By: Lucas http://blogs.discovermagazine.com/notrocketscience/2011/07/14/hacking-the-genome-with-a-mage-and-a-cage/#comment-12493 Lucas Fri, 15 Jul 2011 20:17:06 +0000 http://blogs.discovermagazine.com/notrocketscience/?p=4917#comment-12493 Great write-up Ed. I am a bit confused by Isaacs' standpoint on publishing though.. What does the number of papers in which you publish your method have to do with anything? If there really are two more papers in the methods section of this one, I think it would serve science if they had published them separately! Great write-up Ed. I am a bit confused by Isaacs’ standpoint on publishing though.. What does the number of papers in which you publish your method have to do with anything? If there really are two more papers in the methods section of this one, I think it would serve science if they had published them separately!

]]> By: Ed Yong http://blogs.discovermagazine.com/notrocketscience/2011/07/14/hacking-the-genome-with-a-mage-and-a-cage/#comment-12492 Ed Yong Fri, 15 Jul 2011 15:21:58 +0000 http://blogs.discovermagazine.com/notrocketscience/?p=4917#comment-12492 @Phil - HA! Good spot! Yes, it's <strong>really bloody complicated</strong>. It would have really dragged down an already quite long piece. Check out the paper ;-) @Phil – HA! Good spot! Yes, it’s really bloody complicated. It would have really dragged down an already quite long piece. Check out the paper ;-)

]]> By: Phil Ashton http://blogs.discovermagazine.com/notrocketscience/2011/07/14/hacking-the-genome-with-a-mage-and-a-cage/#comment-12491 Phil Ashton Fri, 15 Jul 2011 13:44:48 +0000 http://blogs.discovermagazine.com/notrocketscience/?p=4917#comment-12491 Ed, An excellent explanation of a complex paper. The part which is really mind boggling is... 'the incoming genes were designed to merge with those of the recipient in specific ways' I havent read the paper yet but im guessing this is where it gets down and dirty - did you have any more commentary on this part which you left out for brevity or am i going to have to do some thinking for myself? ;-) Ed,

An excellent explanation of a complex paper. The part which is really mind boggling is…

‘the incoming genes were designed to merge with those of the recipient in specific ways’

I havent read the paper yet but im guessing this is where it gets down and dirty – did you have any more commentary on this part which you left out for brevity or am i going to have to do some thinking for myself? ;-)

]]> By: Dale Sheldon-Hess http://blogs.discovermagazine.com/notrocketscience/2011/07/14/hacking-the-genome-with-a-mage-and-a-cage/#comment-12490 Dale Sheldon-Hess Thu, 14 Jul 2011 20:30:02 +0000 http://blogs.discovermagazine.com/notrocketscience/?p=4917#comment-12490 As I understand it, sometimes organisms have entirely different genes encoded by reading over the same sequence, but offset by 1 or 2 bases, or by reading it backwards. Is that not as much of a problem in the E. coli genome, or do the 314 changes not run across an such complications, or is the possibility of this the reason the researchers fear that the fully-modified organism will not survive? As I understand it, sometimes organisms have entirely different genes encoded by reading over the same sequence, but offset by 1 or 2 bases, or by reading it backwards. Is that not as much of a problem in the E. coli genome, or do the 314 changes not run across an such complications, or is the possibility of this the reason the researchers fear that the fully-modified organism will not survive?

]]> By: Ed Yong http://blogs.discovermagazine.com/notrocketscience/2011/07/14/hacking-the-genome-with-a-mage-and-a-cage/#comment-12489 Ed Yong Thu, 14 Jul 2011 20:18:50 +0000 http://blogs.discovermagazine.com/notrocketscience/?p=4917#comment-12489 @Guy - D'oh! Yes, obviously. Have amended the text accordingly. Thanks. @Guy – D’oh! Yes, obviously. Have amended the text accordingly. Thanks.

]]> By: Guy Plunkett III http://blogs.discovermagazine.com/notrocketscience/2011/07/14/hacking-the-genome-with-a-mage-and-a-cage/#comment-12488 Guy Plunkett III Thu, 14 Jul 2011 20:14:14 +0000 http://blogs.discovermagazine.com/notrocketscience/?p=4917#comment-12488 "TAG appears in 314 places throughout the E. coli genome" AS A STOP CODON ... it of course appears many more times as string of three bases in non-coding sequences, in other reading frames, or on the opposite strand. The trick is not replacing every instance of “genome” with “cake” but only specific instances. ;-) “TAG appears in 314 places throughout the E. coli genome” AS A STOP CODON … it of course appears many more times as string of three bases in non-coding sequences, in other reading frames, or on the opposite strand. The trick is not replacing every instance of “genome” with “cake” but only specific instances. ;-)

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