From: Charles Plessy Date: Sat, 3 Jun 2023 00:34:45 +0000 (+0900) Subject: Café X-Git-Url: https://source.charles.plessy.org/?a=commitdiff_plain;h=d1ea30432722684cbc18444380d39fe2c0d47fc0;p=source%2B%2B%2F.git Café --- diff --git a/biblio/37137302.mdwn b/biblio/37137302.mdwn new file mode 100644 index 00000000..5b0ccce0 --- /dev/null +++ b/biblio/37137302.mdwn @@ -0,0 +1,29 @@ +[[!meta title="Functional analysis of a random-sequence chromosome reveals a high level and the molecular nature of transcriptional noise in yeast cells"]] +[[!tag yeast synthetic]] + +Gvozdenov Z, Barcutean Z, Struhl K + +Mol Cell. 2023 Apr 24:S1097-2765(23)00254-X. 10.1016/j.molcel.2023.04.010 + +Functional analysis of a random-sequence chromosome reveals a high level and the molecular nature of transcriptional noise in yeast cells + +[[!pmid 37137302 desc="Circular chromosome of 27 kbp comprising 18 kbp of random +sequences. “the major class of nucleosomes average 147 bp (range 143–180), +i.e., the expected size” “nucleosome occupancy on [the artificial chromosome] +is 1.42-fold higher than on yeast genomic DNA” “when compared with yeast +genomic chromatin, [artificial] chro- matin is characterized by fewer +[nucleotide-depleted regions], fewer highly positioned nucleosomes, and little +nucleosome phasing, although nucleosome positioning is nonrandom.” +“Transcription from all regions of random-sequence DNA leads to similar RNA +levels that are roughly comparable to that of the majority of mRNA expressed +from yeast genomic DNA” “transcription from randomsequence DNA is more +variable than from genomic DNA” “decay rates of RNAs expressed from +randomsequence DNA are 3-fold faster” “RNAs expressed from [the artificial +chrmosome] are polyadenylated throughout the entire region of random-sequence +DNA” “the choice of poly(A) sites by the cleavage/polyadenylation machinery is +roughly similar for RNAs expressed from random-sequence and genomic DNAs.” “The +50 isoform pattern from random-sequence DNA resembles that observed from yeast +genomic regions not corresponding to 50 UTRs” “The level of newly synthesized +RNA from random-sequence DNA is in excellent accord with calculated estimates +that only 10%–20% of elongating RNA Pol II molecules generate mRNAs, such the +remaining 80%–90% represent transcriptional noise”"]] diff --git a/tags/synthetic.mdwn b/tags/synthetic.mdwn index 120fc94d..07a6d002 100644 --- a/tags/synthetic.mdwn +++ b/tags/synthetic.mdwn @@ -12,8 +12,12 @@ Example of neochromosome synthesis in yeast: [[Postma and coll., 2021|biblio/334 Artificial genome scrambling in yeast 2.0 with loxPsym sites: [[Brooks and coll, 2022|biblio/35239377]]. +Artificial 18 kbp random chromosome in yeast: [[Gvozdenov, Barcutean and Struhl, 2023|biblio/37137302]]. + ## Pathway -Increasing the copy number of the endogenous aldehyde dehydrogenase Hfd1 allowed [[Hu, Yu and Ye, 2022|biblio/35880393]] to obtain the best yield of conversion of retinol to retinoic acid.. +Increasing the copy number of the endogenous aldehyde dehydrogenase Hfd1 +allowed [[Hu, Yu and Ye, 2022|biblio/35880393]] to obtain the best yield of +conversion of retinol to retinoic acid. [[!inline pages="tagged(synthethic)" limit=0]]