tag:blogger.com,1999:blog-37148773.post1685662635328165599..comments2024-03-27T14:50:47.345-04:00Comments on <center>Sandwalk</center>: The surprising (?) conservation of noncoding DNALarry Moranhttp://www.blogger.com/profile/05756598746605455848noreply@blogger.comBlogger10125tag:blogger.com,1999:blog-37148773.post-43872090271635232192022-08-17T19:47:16.354-04:002022-08-17T19:47:16.354-04:00Hey, if that article got through review by, presum...Hey, if that article got through review by, presumably, molecular biologists, that means that they must not have read the textbooks. Go figure. (Or perhaps the article was reviewed by physicists or dermatologists.)John Harshmanhttps://www.blogger.com/profile/04478895397136729867noreply@blogger.comtag:blogger.com,1999:blog-37148773.post-28065216114607889942022-08-17T19:45:39.165-04:002022-08-17T19:45:39.165-04:00This comment has been removed by the author.John Harshmanhttps://www.blogger.com/profile/04478895397136729867noreply@blogger.comtag:blogger.com,1999:blog-37148773.post-41593727372235203762022-08-17T16:42:34.171-04:002022-08-17T16:42:34.171-04:00... and must have forgotten to have their students...... and must have forgotten to have their students read molecular biology or cell biology textbooks that talk about it.Joe Felsensteinhttps://www.blogger.com/profile/06359126552631140000noreply@blogger.comtag:blogger.com,1999:blog-37148773.post-66813213882020603632022-08-16T09:42:59.097-04:002022-08-16T09:42:59.097-04:00Here's just one example of published work by f...Here's just one example of published work by former colleagues from the early 1990's making the observation of conserved non-coding regulatory regions regions (their model was globin gene clusters) part of the argument for fully sequencing the mouse genome:<br />Hardison, RC, Oeltjen, J and Miller, W. "Long human-mouse sequence alignments reveal novel regulatory elements: a reason to sequence the mouse genome." Genome Res. 1997. 7: 959-966 (doi: 10.1101/gr.7.10.959).<br />As is clear in their work from this time, conservation of non-coding regions flanking genes became apparent from their pioneering multi-pairwise alignment methods. Regulatory and transcription factor binding activities of these regions were then confirmed experimentally. This approach developed apace for a decade to follow. How this knowledge was forgotten is a mystery.Brian Shewchuknoreply@blogger.comtag:blogger.com,1999:blog-37148773.post-69776986695267181802022-08-15T18:12:36.068-04:002022-08-15T18:12:36.068-04:00Joe, if his colleagues had heard of it, and if we ...Joe, if his colleagues had heard of it, and if we believe that review, they apparently forgot to tell their students about it.John Harshmanhttps://www.blogger.com/profile/04478895397136729867noreply@blogger.comtag:blogger.com,1999:blog-37148773.post-40019170974042104542022-08-15T17:08:19.281-04:002022-08-15T17:08:19.281-04:00Correction: a guy who I knew in our Genetics Depar...Correction: a guy who I knew in our Genetics Department had *earlier* discovered ... Joe Felsensteinhttps://www.blogger.com/profile/06359126552631140000noreply@blogger.comtag:blogger.com,1999:blog-37148773.post-15863324841767784312022-08-15T16:38:01.892-04:002022-08-15T16:38:01.892-04:00It's also odd that they haven't heard of t...It's also odd that they haven't heard of tRNA, miRNA, snRNA, snoRNA, or 3' and 5' UTR's. That's even before we get to gene promoters. Surely they learned about the lac promoter at some point in their schooling?Anonymousnoreply@blogger.comtag:blogger.com,1999:blog-37148773.post-46238569158139138482022-08-15T15:29:44.348-04:002022-08-15T15:29:44.348-04:00A guy in what was then our Genetics Department was...A guy in what was then our Genetics Department was the one who discovered 28s rRNA (and 18s rRNA). So I suspect his colleagues had heard of it.Joe Felsensteinhttps://www.blogger.com/profile/06359126552631140000noreply@blogger.comtag:blogger.com,1999:blog-37148773.post-62832893639615611552022-08-13T09:43:09.403-04:002022-08-13T09:43:09.403-04:00It seems odd that most biologists haven't hear...It seems odd that most biologists haven't heard of, for example, 28s rRNA.John Harshmanhttps://www.blogger.com/profile/04478895397136729867noreply@blogger.comtag:blogger.com,1999:blog-37148773.post-15382473931618399022022-08-12T19:22:05.207-04:002022-08-12T19:22:05.207-04:00Because biologists don't appreciate that there...Because biologists don't appreciate that there is error correction in the DNA codes. <br /><br />I suspect that the 'error correction feature', is to make the actual functional DNA resistant to breaks, where stuff that is not 'error corrected', like homing endonucleases, and viruses get degraded over evolutionary time, while 'important' stuff does not get degraded. <br /><br />https://en.wikipedia.org/wiki/Noisy-channel_coding_theoremdaedalus2uhttps://www.blogger.com/profile/10416564922288784455noreply@blogger.com