From: Charles Plessy Date: Tue, 20 Oct 2020 04:41:59 +0000 (+0900) Subject: PETase et Hi-C X-Git-Url: https://source.charles.plessy.org/?a=commitdiff_plain;h=d625fff3398f7f43c009cfcf859c8c8aacc59b06;p=source%2F.git PETase et Hi-C --- diff --git a/biblio/32968280.mdwn b/biblio/32968280.mdwn new file mode 100644 index 00000000..a9106713 --- /dev/null +++ b/biblio/32968280.mdwn @@ -0,0 +1,10 @@ +[[!meta title="Conformation of sister chromatids in the replicated human genome."]] +[[!tag H3K27me3 method tags chromosome structure]] + +Mitter M, Gasser C, Takacs Z, Langer CCH, Tang W, Jessberger G, Beales CT, Neuner E, Ameres SL, Peters JM, Goloborodko A, Micura R, Gerlich DW. + +Nature. 2020 Oct;586(7827):139-144. doi:10.1038/s41586-020-2744-4 + +Conformation of sister chromatids in the replicated human genome. + +[[!pmid 32968280 desc="Sister-chromatid-sensitive Hi-C (scsHi-C) “4-thio-thymidine (4sT) converted into 5mC by OsO4/NH4Cl” “A read was assigned to the Watson strand if it contained two or more A-to-G mutations and no T-to-C mutations. Similarly, if a read contained two or more T-to-C mutations, but no A-to-G mutations it was assigned to the Crick strand. Then, contacts were classified as cis sister contacts if (after correcting for the opposite read-strandedness of Illumina sequencing of the two mates) both mates mapped to the same strand. Conversely, contacts were classified as trans sister contacts if the two mates mapped to opposing strands.”“Highly paired TADs were markedly enriched in trimethylation of lysine 27 of histone 3 (H3K27me3).” “Trans sister contacts were particularly enriched at many TAD boundaries.“ The cohesin loading factor NIPBL was homozygously tagged with auxin-inducible degrons to deplete loop-forming cohesin. “Loop-forming cohesin is necessary to separate sister chromatids within TADs, resulting in locally enriched sister-chromatid contacts at TAD boundaries.” Sororin was homozygously tagged with AID to deplete the pool of cohesin that mediates sister-chromatid cohesion. “The sororin-stabilized pool of cohesin is [...] not required to form intra-chromatid loops or TADs in G2, but it is required to prevent the separation of sister chromatids and to maintain their global alignment during the G2 phase.”"]] diff --git a/biblio/32989159.mdwn b/biblio/32989159.mdwn new file mode 100644 index 00000000..0ae5dbff --- /dev/null +++ b/biblio/32989159.mdwn @@ -0,0 +1,10 @@ +[[!meta title="Characterization and engineering of a two-enzyme system for plastics depolymerization."]] +[[!tag microplastic structure]] + +Knott BC, Erickson E, Allen MD, Gado JE, Graham R, Kearns FL, Pardo I, Topuzlu E, Anderson JJ, Austin HP, Dominick G, Johnson CW, Rorrer NA, Szostkiewicz CJ, Copié V, Payne CM, Woodcock HL, Donohoe BS, Beckham GT, McGeehan JE. + +Proc Natl Acad Sci U S A. 2020 Oct 13;117(41):25476-25485. doi:10.1073/pnas.2006753117 + +Characterization and engineering of a two-enzyme system for plastics depolymerization. + +[[!pmid 32989159 desc="“No MHETase activity was detected for [mono(2-hydroxyethyl)-isophthalate (MHEI) and mono(2-hydroxyethyl)-furanoate (MHEF)].” “Degradation scales with PETase loading and the presence of MHETase, even at low concentrations relative to PETase, improves total degradation.” “Chimeric proteins covalently linking the C terminus of MHETase to the N terminus of PETase, using flexible glycine-serine linkers of 8, 12, and 20 total glycine and serine residues, were generated.” “When comparing the extent of degradation achieved by PETase alone, MHETase alone, and an equimolar mix of PETase and MHETase, the chimeric proteins outperform PETase, as well as the mixed reaction containing both PETase and MHETase unlinked in solution.”"]] diff --git a/tags/microplastic.mdwn b/tags/microplastic.mdwn index b94dae10..a788a748 100644 --- a/tags/microplastic.mdwn +++ b/tags/microplastic.mdwn @@ -12,4 +12,7 @@ Hiraga, Taniguchi, Yoshida, Kimura and Oda K proposed in a biological recycling of plastic. They also underlined that salt-tolerating enzymes would be needed for bioremediation of oceans. +[[Knott and coll, 2020|biblio/32989159]] showed that a chimeric MHETase:PETase +protein is more efficient than the two free enzymes. + [[!inline pages="tagged(microplastic)" limit=0]]