--- Log opened Fri Mar 10 00:00:54 2017
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05:14 < kanzure> .title http://science.sciencemag.org/content/355/6329/1038
05:14 < yoleaux> Building on nature's design | Science
05:14 < kanzure> synthrtic chromosome synthesis stuff from jef boeke on cover
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05:24 < kanzure> *synthetic
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06:20 < kanzure> https://www.reddit.com/r/todayilearned/comments/5yj2h2/til_a_nurse_wanted_to_know_if_her_farts_were/
06:21 < kanzure> i bet you could select for ecoli that survive clothed farts, and then you can go around farting in labs infecting all their petri dishes
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06:49 < JayDugger> Also select for little odor while indulging in such artificial evolution.
06:49 < yoleaux> 00:22Z <kanzure> JayDugger: what is the best airline checklist you've ever seen? ideally one that you can link me to.
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08:59 < kanzure> "Fast radio bursts from extragalactic light sails" https://arxiv.org/abs/1701.01109 https://news.ycombinator.com/item?id=13837992
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09:17 < superkuh> I was not convinced by the arguments supporting using the typical FRB frequency range in light sails. It seems like there are far better arguments for using >> frequency than 1-2 GHz.
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13:20 < nmz787_i> that email on diybio about that biocuration thing has some interesting writing... like "Email Camping"
13:24 < nmz787_i> I am really intrigued by the idea of "Email Camping".... as I enjoy both email and camping... and have probably enjoyed them simultaneously
13:24 < nmz787_i> but cannot understand what it could possibly mean in this context
13:27 < kanzure> camping like camping the outlets- or ask any gamer
13:27 < nmz787_i> like getting to BestBuy the night before a game system launches?
13:32 < nmz787_i> there are no first-page hits for "camping the outlets"
13:36 < kanzure> SEC decision on winklevoss ETF https://www.sec.gov/rules/sro/batsbzx/2017/34-80206.pdf (basically they want a CFTC-regulated bitcoin derivatives market to exist first)
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14:21 < nmz787_i> sweet, ETA on my bio supplies is tomorrow
14:21 < nmz787_i> so might actually be able to zap an e.coli with this electroporator by next week :)
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14:42 < chris_99> nice
14:42 < chris_99> GFP?
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15:21 < nmz787_i> chris_99: yep!
15:21 < nmz787_i> chris_99: actually, no
15:21 < nmz787_i> chris_99: vibrio phosphoreum bioluminescent
15:22 < nmz787_i> I can't remember the word for many related genes all near each other
15:22 < nmz787_i> not cluster
15:22 < nmz787_i> ...
15:23 < chris_99> oh does that mean it doesn't need UV?
15:24 < nmz787_i> right
15:25 < chris_99> neat
15:25 < nmz787_i> it if was an engineered cluster, they might term it a 'cassette'
15:25 < nmz787_i> but that isn't the term for if the cluster was naturally formed
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15:58 < kanzure> some combinatorial protein design software stuff https://www.youtube.com/watch?v=-5oqyBLAWWs
16:39 < streety> nmz787_i: I have often read cluster used in that context so although there may be another term I think it could be used
16:39 < streety> island is sometimes seen
16:40 < nmz787_i> mm, no
16:45 < streety> On that biocuration site any links to resources redirect to payumoney.com - seems incredibly spammy
16:52 < streety> if the genes are under the control of a single promoter you may be thinking of an operon nmz787_i
16:52 < streety> I can't think of anything else
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17:58 < nmz787_i> operon
17:59 < nmz787_i> that is it, I think
18:00 < nmz787_i> lux operon is specifically the case here
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18:28 < kanzure> blooop
18:39 < kanzure> "Design of a synthetic yeast genome" http://science.sciencemag.org/content/355/6329/1040
18:40 < kanzure> "Synthesis, debugging, and effects of synthetic chromosome consolidation: synVI and beyond" http://science.sciencemag.org/content/355/6329/eaaf4831
18:40 < kanzure> "Deep functional analysis of synII, a 770-kilobase synthetic yeast chromosome" http://science.sciencemag.org/content/355/6329/eaaf4791
18:40 < kanzure> "Bug mapping and fitness testing of chemically synthesized chromosome X" http://science.sciencemag.org/content/355/6329/eaaf4706
18:40 < kanzure> "Engineering the ribosomal DNA in a megabase synthetic chromosome" http://science.sciencemag.org/content/355/6329/eaaf3981
18:40 < kanzure> "3D organization of synthetic and scrambled chromosomes" http://science.sciencemag.org/content/355/6329/eaaf4597
18:41 < kanzure> "Yeast genome, by design" http://science.sciencemag.org/content/355/6329/1024
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20:31 < fenn> i've seen "cassette" refer to wild-type bacteria swapping antibiotic resistance genes
20:32 < kanzure> .wik gene casette
20:32 < yoleaux> "A gene cassette is a type of mobile genetic element that contains a gene and a recombination site. Since each cassette usually only contains a single gene these genetic elements tend to be very small; 500-1000 base pairs. They may exist incorporated into an integron or freely as circular DNA." -- https://en.wikipedia.org/wiki/Gene_cassette
20:34 < kanzure> i wonder how many names for "molecule of DNA" they can come up with.
20:35 < kanzure> i think it's jus ta holdover from not being able to manipulate or make DNA molecules, so they just give different names to the lab materials they are working with or something
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22:52 < nmz787_> yeah
22:53 < nmz787_> fenn: hmm, I wonder if the recombination site is a key feature for the engineered versions I was thinking of... since that would be like a common restriction site, or a cluster of restriction sites, etc... some common zone of swappability (pseudo recombination)
23:00 < fenn> apparently, if i'm reading this wikipedia page right, the genetic engineering "cassette" uses restriction enzymes to cut and paste the DNA of interest, whereas the wild bacterial version uses site-specific recombinase to do the same thing
23:00 < fenn> one wonders why they didn't just use site-specific recombinase in genetic engineering
23:01 < fenn> maybe they hadn't discovered recombinases yet
23:01 < nmz787_> maybe lack of the ratios found
23:01 < nmz787_> restriction enzymes maybe more common because they are defense mechanisms for chopping foreign DNA
23:02 < nmz787_> so you'd end up with more variation?
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23:44 < fenn> .title http://www.bbc.com/news/science-environment-31500883
23:44 < yoleaux> Limpet teeth set new strength record - BBC News
23:44 < fenn> 5GPa
23:44 < fenn> = 725ksi
--- Log closed Sat Mar 11 00:00:55 2017