Conformation and segregation
of the bacterial chromosome

Publications

3888256 OCB 2024 1 chicago-author-date 50 creator asc year 7686 https://www.i2bc.paris-saclay.fr/wp-content/plugins/zotpress/

%7B%22status%22%3A%22success%22%2C%22updateneeded%22%3Afalse%2C%22instance%22%3Afalse%2C%22meta%22%3A%7B%22request_last%22%3A0%2C%22request_next%22%3A0%2C%22used_cache%22%3Atrue%7D%2C%22data%22%3A%5B%7B%22key%22%3A%225CCYS2WN%22%2C%22library%22%3A%7B%22id%22%3A3888256%7D%2C%22meta%22%3A%7B%22creatorSummary%22%3A%22Haas%20et%20al.%22%2C%22parsedDate%22%3A%222024-06-01%22%2C%22numChildren%22%3A2%7D%2C%22bib%22%3A%22%3Cdiv%20class%3D%5C%22csl-bib-body%5C%22%20style%3D%5C%22line-height%3A%201.35%3B%20padding-left%3A%201em%3B%20text-indent%3A-1em%3B%5C%22%3E%5Cn%20%20%3Cdiv%20class%3D%5C%22csl-entry%5C%22%3EHaas%2C%20Drago%2C%20Matthieu%20Barba%2C%20Cl%26%23xE1%3Budia%26%23xA0%3BM%20Vicente%2C%20%26%23x160%3Bark%26%23xE1%3B%20Nezbedov%26%23xE1%3B%2C%20Am%26%23xE9%3Blie%20Gar%26%23xE9%3Bnaux%2C%20St%26%23xE9%3Bphanie%20Bury-Mon%26%23xE9%3B%2C%20Jean-No%26%23xEB%3Bl%20Lorenzi%2C%20et%20al.%202024.%20%26%23x201C%3BSynteruptor%3A%20Mining%20Genomic%20Islands%20for%20Non-Classical%20Specialized%20Metabolite%20Gene%20Clusters.%26%23x201D%3B%20%3Ci%3ENAR%20Genomics%20and%20Bioinformatics%3C%5C%2Fi%3E%206%20%282%29%3A%20lqae069.%20%3Ca%20class%3D%27zp-ItemURL%27%20href%3D%27https%3A%5C%2F%5C%2Fdoi.org%5C%2F10.1093%5C%2Fnargab%5C%2Flqae069%27%3Ehttps%3A%5C%2F%5C%2Fdoi.org%5C%2F10.1093%5C%2Fnargab%5C%2Flqae069%3C%5C%2Fa%3E.%3C%5C%2Fdiv%3E%5Cn%3C%5C%2Fdiv%3E%22%2C%22data%22%3A%7B%22itemType%22%3A%22journalArticle%22%2C%22title%22%3A%22Synteruptor%3A%20mining%20genomic%20islands%20for%20non-classical%20specialized%20metabolite%20gene%20clusters%22%2C%22creators%22%3A%5B%7B%22creatorType%22%3A%22author%22%2C%22firstName%22%3A%22Drago%22%2C%22lastName%22%3A%22Haas%22%7D%2C%7B%22creatorType%22%3A%22author%22%2C%22firstName%22%3A%22Matthieu%22%2C%22lastName%22%3A%22Barba%22%7D%2C%7B%22creatorType%22%3A%22author%22%2C%22firstName%22%3A%22Cl%5Cu00e1udia%5Cu00a0M%22%2C%22lastName%22%3A%22Vicente%22%7D%2C%7B%22creatorType%22%3A%22author%22%2C%22firstName%22%3A%22%5Cu0160ark%5Cu00e1%22%2C%22lastName%22%3A%22Nezbedov%5Cu00e1%22%7D%2C%7B%22creatorType%22%3A%22author%22%2C%22firstName%22%3A%22Am%5Cu00e9lie%22%2C%22lastName%22%3A%22Gar%5Cu00e9naux%22%7D%2C%7B%22creatorType%22%3A%22author%22%2C%22firstName%22%3A%22St%5Cu00e9phanie%22%2C%22lastName%22%3A%22Bury-Mon%5Cu00e9%22%7D%2C%7B%22creatorType%22%3A%22author%22%2C%22firstName%22%3A%22Jean-No%5Cu00ebl%22%2C%22lastName%22%3A%22Lorenzi%22%7D%2C%7B%22creatorType%22%3A%22author%22%2C%22firstName%22%3A%22Laurence%22%2C%22lastName%22%3A%22H%5Cu00f4tel%22%7D%2C%7B%22creatorType%22%3A%22author%22%2C%22firstName%22%3A%22Luisa%22%2C%22lastName%22%3A%22Laureti%22%7D%2C%7B%22creatorType%22%3A%22author%22%2C%22firstName%22%3A%22Annabelle%22%2C%22lastName%22%3A%22Thibessard%22%7D%2C%7B%22creatorType%22%3A%22author%22%2C%22firstName%22%3A%22G%5Cu00e9raldine%22%2C%22lastName%22%3A%22Le%5Cu00a0Goff%22%7D%2C%7B%22creatorType%22%3A%22author%22%2C%22firstName%22%3A%22Jamal%22%2C%22lastName%22%3A%22Ouazzani%22%7D%2C%7B%22creatorType%22%3A%22author%22%2C%22firstName%22%3A%22Pierre%22%2C%22lastName%22%3A%22Leblond%22%7D%2C%7B%22creatorType%22%3A%22author%22%2C%22firstName%22%3A%22Bertrand%22%2C%22lastName%22%3A%22Aigle%22%7D%2C%7B%22creatorType%22%3A%22author%22%2C%22firstName%22%3A%22Jean-Luc%22%2C%22lastName%22%3A%22Pernodet%22%7D%2C%7B%22creatorType%22%3A%22author%22%2C%22firstName%22%3A%22Olivier%22%2C%22lastName%22%3A%22Lespinet%22%7D%2C%7B%22creatorType%22%3A%22author%22%2C%22firstName%22%3A%22Sylvie%22%2C%22lastName%22%3A%22Lautru%22%7D%5D%2C%22abstractNote%22%3A%22Microbial%20specialized%20metabolite%20biosynthetic%20gene%20clusters%20%28SMBGCs%29%20are%20a%20formidable%20source%20of%20natural%20products%20of%20pharmaceutical%20interest.%20With%20the%20multiplication%20of%20genomic%20data%20available%2C%20very%20efficient%20bioinformatic%20tools%20for%20automatic%20SMBGC%20detection%20have%20been%20developed.%20Nevertheless%2C%20most%20of%20these%20tools%20identify%20SMBGCs%20based%20on%20sequence%20similarity%20with%20enzymes%20typically%20involved%20in%20specialised%20metabolism%20and%20thus%20may%20miss%20SMBGCs%20coding%20for%20undercharacterised%20enzymes.%20Here%20we%20present%20Synteruptor%20%28https%3A%5C%2F%5C%2Fbioi2.i2bc.paris-saclay.fr%5C%2Fsynteruptor%29%2C%20a%20program%20that%20identifies%20genomic%20islands%2C%20known%20to%20be%20enriched%20in%20SMBGCs%2C%20in%20the%20genomes%20of%20closely%20related%20species.%20With%20this%20tool%2C%20we%20identified%20a%20SMBGC%20in%20the%20genome%20of%20Streptomyces%20ambofaciens%20ATCC23877%2C%20undetected%20by%20antiSMASH%20versions%20prior%20to%20antiSMASH%205%2C%20and%20experimentally%20demonstrated%20that%20it%20directs%20the%20biosynthesis%20of%20two%20metabolites%2C%20one%20of%20which%20was%20identified%20as%20sphydrofuran.%20Synteruptor%20is%20also%20a%20valuable%20resource%20for%20the%20delineation%20of%20individual%20SMBGCs%20within%20antiSMASH%20regions%20that%20may%20encompass%20multiple%20clusters%2C%20and%20for%20refining%20the%20boundaries%20of%20these%20SMBGCs.%22%2C%22date%22%3A%222024-06-01%22%2C%22language%22%3A%22%22%2C%22DOI%22%3A%2210.1093%5C%2Fnargab%5C%2Flqae069%22%2C%22ISSN%22%3A%222631-9268%22%2C%22url%22%3A%22https%3A%5C%2F%5C%2Fdoi.org%5C%2F10.1093%5C%2Fnargab%5C%2Flqae069%22%2C%22collections%22%3A%5B%5D%2C%22dateModified%22%3A%222025-02-24T12%3A01%3A44Z%22%7D%7D%2C%7B%22key%22%3A%22THSDTYNL%22%2C%22library%22%3A%7B%22id%22%3A3888256%7D%2C%22meta%22%3A%7B%22creatorSummary%22%3A%22Jaffal%20et%20al.%22%2C%22parsedDate%22%3A%222024%22%2C%22numChildren%22%3A1%7D%2C%22bib%22%3A%22%3Cdiv%20class%3D%5C%22csl-bib-body%5C%22%20style%3D%5C%22line-height%3A%201.35%3B%20padding-left%3A%201em%3B%20text-indent%3A-1em%3B%5C%22%3E%5Cn%20%20%3Cdiv%20class%3D%5C%22csl-entry%5C%22%3EJaffal%2C%20Hoda%2C%20Mounia%20Kortebi%2C%20Pauline%20Misson%2C%20Paulo%20Tavares%2C%20Malika%20Ouldali%2C%20Herv%26%23xE9%3B%20Leh%2C%20Sylvie%20Lautru%2C%20Virginia%20S.%20Lioy%2C%20Fran%26%23xE7%3Bois%20Lecointe%2C%20and%20St%26%23xE9%3Bphanie%20G.%20Bury-Mon%26%23xE9%3B.%202024.%20%26%23x201C%3BProphage%20Induction%20Can%20Facilitate%20the%20in%20Vitro%20Dispersal%20of%20Multicellular%20Streptomyces%20Structures.%26%23x201D%3B%20%3Ci%3EPLOS%20Biology%3C%5C%2Fi%3E%2022%20%287%29%3A%20e3002725.%20%3Ca%20class%3D%27zp-DOIURL%27%20href%3D%27https%3A%5C%2F%5C%2Fdoi.org%5C%2F10.1371%5C%2Fjournal.pbio.3002725%27%3Ehttps%3A%5C%2F%5C%2Fdoi.org%5C%2F10.1371%5C%2Fjournal.pbio.3002725%3C%5C%2Fa%3E.%3C%5C%2Fdiv%3E%5Cn%3C%5C%2Fdiv%3E%22%2C%22data%22%3A%7B%22itemType%22%3A%22journalArticle%22%2C%22title%22%3A%22Prophage%20induction%20can%20facilitate%20the%20in%20vitro%20dispersal%20of%20multicellular%20Streptomyces%20structures%22%2C%22creators%22%3A%5B%7B%22creatorType%22%3A%22author%22%2C%22firstName%22%3A%22Hoda%22%2C%22lastName%22%3A%22Jaffal%22%7D%2C%7B%22creatorType%22%3A%22author%22%2C%22firstName%22%3A%22Mounia%22%2C%22lastName%22%3A%22Kortebi%22%7D%2C%7B%22creatorType%22%3A%22author%22%2C%22firstName%22%3A%22Pauline%22%2C%22lastName%22%3A%22Misson%22%7D%2C%7B%22creatorType%22%3A%22author%22%2C%22firstName%22%3A%22Paulo%22%2C%22lastName%22%3A%22Tavares%22%7D%2C%7B%22creatorType%22%3A%22author%22%2C%22firstName%22%3A%22Malika%22%2C%22lastName%22%3A%22Ouldali%22%7D%2C%7B%22creatorType%22%3A%22author%22%2C%22firstName%22%3A%22Herv%5Cu00e9%22%2C%22lastName%22%3A%22Leh%22%7D%2C%7B%22creatorType%22%3A%22author%22%2C%22firstName%22%3A%22Sylvie%22%2C%22lastName%22%3A%22Lautru%22%7D%2C%7B%22creatorType%22%3A%22author%22%2C%22firstName%22%3A%22Virginia%20S.%22%2C%22lastName%22%3A%22Lioy%22%7D%2C%7B%22creatorType%22%3A%22author%22%2C%22firstName%22%3A%22Fran%5Cu00e7ois%22%2C%22lastName%22%3A%22Lecointe%22%7D%2C%7B%22creatorType%22%3A%22author%22%2C%22firstName%22%3A%22St%5Cu00e9phanie%20G.%22%2C%22lastName%22%3A%22Bury-Mon%5Cu00e9%22%7D%5D%2C%22abstractNote%22%3A%22Streptomyces%20are%20renowned%20for%20their%20prolific%20production%20of%20specialized%20metabolites%20with%20applications%20in%20medicine%20and%20agriculture.%20These%20multicellular%20bacteria%20present%20a%20sophisticated%20developmental%20cycle%20and%20play%20a%20key%20role%20in%20soil%20ecology.%20Little%20is%20known%20about%20the%20impact%20of%20Streptomyces%20phage%20on%20bacterial%20physiology.%20In%20this%20study%2C%20we%20investigated%20the%20conditions%20governing%20the%20expression%20and%20production%20of%20%5Cu201cSamy%5Cu201d%2C%20a%20prophage%20found%20in%20Streptomyces%20ambofaciens%20ATCC%2023877.%20This%20siphoprophage%20is%20produced%20simultaneously%20with%20the%20activation%20of%20other%20mobile%20genetic%20elements.%20Remarkably%2C%20the%20presence%20and%20production%20of%20Samy%20increases%20bacterial%20dispersal%20under%20in%20vitro%20stress%20conditions.%20Altogether%2C%20this%20study%20unveiled%20a%20new%20property%20of%20a%20bacteriophage%20infection%20in%20the%20context%20of%20multicellular%20aggregate%20dynamics.%22%2C%22date%22%3A%2225%20juil.%202024%22%2C%22language%22%3A%22en%22%2C%22DOI%22%3A%2210.1371%5C%2Fjournal.pbio.3002725%22%2C%22ISSN%22%3A%221545-7885%22%2C%22url%22%3A%22https%3A%5C%2F%5C%2Fjournals.plos.org%5C%2Fplosbiology%5C%2Farticle%3Fid%3D10.1371%5C%2Fjournal.pbio.3002725%22%2C%22collections%22%3A%5B%5D%2C%22dateModified%22%3A%222025-02-24T12%3A08%3A56Z%22%7D%7D%2C%7B%22key%22%3A%22VX6WUKPN%22%2C%22library%22%3A%7B%22id%22%3A3888256%7D%2C%22meta%22%3A%7B%22creatorSummary%22%3A%22Ponndara%20et%20al.%22%2C%22parsedDate%22%3A%222024-06-22%22%2C%22numChildren%22%3A1%7D%2C%22bib%22%3A%22%3Cdiv%20class%3D%5C%22csl-bib-body%5C%22%20style%3D%5C%22line-height%3A%201.35%3B%20padding-left%3A%201em%3B%20text-indent%3A-1em%3B%5C%22%3E%5Cn%20%20%3Cdiv%20class%3D%5C%22csl-entry%5C%22%3EPonndara%2C%20Sokrich%2C%20Mounia%20Kortebi%2C%20Fr%26%23xE9%3Bd%26%23xE9%3Bric%20Boccard%2C%20St%26%23xE9%3Bphanie%20Bury-Mon%26%23xE9%3B%2C%20and%20Virginia%20S.%20Lioy.%202024.%20%26%23x201C%3BPrinciples%20of%20Bacterial%20Genome%20Organization%2C%20a%20Conformational%20Point%20of%20View.%26%23x201D%3B%20%3Ci%3EMolecular%20Microbiology%3C%5C%2Fi%3E%2C%20June.%20%3Ca%20class%3D%27zp-DOIURL%27%20href%3D%27https%3A%5C%2F%5C%2Fdoi.org%5C%2F10.1111%5C%2Fmmi.15290%27%3Ehttps%3A%5C%2F%5C%2Fdoi.org%5C%2F10.1111%5C%2Fmmi.15290%3C%5C%2Fa%3E.%3C%5C%2Fdiv%3E%5Cn%3C%5C%2Fdiv%3E%22%2C%22data%22%3A%7B%22itemType%22%3A%22journalArticle%22%2C%22title%22%3A%22Principles%20of%20bacterial%20genome%20organization%2C%20a%20conformational%20point%20of%20view%22%2C%22creators%22%3A%5B%7B%22creatorType%22%3A%22author%22%2C%22firstName%22%3A%22Sokrich%22%2C%22lastName%22%3A%22Ponndara%22%7D%2C%7B%22creatorType%22%3A%22author%22%2C%22firstName%22%3A%22Mounia%22%2C%22lastName%22%3A%22Kortebi%22%7D%2C%7B%22creatorType%22%3A%22author%22%2C%22firstName%22%3A%22Fr%5Cu00e9d%5Cu00e9ric%22%2C%22lastName%22%3A%22Boccard%22%7D%2C%7B%22creatorType%22%3A%22author%22%2C%22firstName%22%3A%22St%5Cu00e9phanie%22%2C%22lastName%22%3A%22Bury-Mon%5Cu00e9%22%7D%2C%7B%22creatorType%22%3A%22author%22%2C%22firstName%22%3A%22Virginia%20S.%22%2C%22lastName%22%3A%22Lioy%22%7D%5D%2C%22abstractNote%22%3A%22Bacterial%20chromosomes%20are%20large%20molecules%20that%20need%20to%20be%20highly%20compacted%20to%20fit%20inside%20the%20cells.%20Chromosome%20compaction%20must%20facilitate%20and%20maintain%20key%20biological%20processes%20such%20as%20gene%20expression%20and%20DNA%20transactions%20%28replication%2C%20recombination%2C%20repair%2C%20and%20segregation%29.%20Chromosome%20and%20chromatin%203D-organization%20in%20bacteria%20has%20been%20a%20puzzle%20for%20decades.%20Chromosome%20conformation%20capture%20coupled%20to%20deep%20sequencing%20%28Hi-C%29%20in%20combination%20with%20other%20%5C%22omics%5C%22%20approaches%20has%20allowed%20dissection%20of%20the%20structural%20layers%20that%20shape%20bacterial%20chromosome%20organization%2C%20from%20DNA%20topology%20to%20global%20chromosome%20architecture.%20Here%20we%20review%20the%20latest%20findings%20using%20Hi-C%20and%20discuss%20the%20main%20features%20of%20bacterial%20genome%20folding.%22%2C%22date%22%3A%222024-06-22%22%2C%22language%22%3A%22eng%22%2C%22DOI%22%3A%2210.1111%5C%2Fmmi.15290%22%2C%22ISSN%22%3A%221365-2958%22%2C%22url%22%3A%22%22%2C%22collections%22%3A%5B%22VH2H4I9M%22%5D%2C%22dateModified%22%3A%222024-06-28T15%3A07%3A27Z%22%7D%7D%2C%7B%22key%22%3A%2248QT7ZX3%22%2C%22library%22%3A%7B%22id%22%3A3888256%7D%2C%22meta%22%3A%7B%22creatorSummary%22%3A%22Seba%20et%20al.%22%2C%22parsedDate%22%3A%222024-02-05%22%2C%22numChildren%22%3A2%7D%2C%22bib%22%3A%22%3Cdiv%20class%3D%5C%22csl-bib-body%5C%22%20style%3D%5C%22line-height%3A%201.35%3B%20padding-left%3A%201em%3B%20text-indent%3A-1em%3B%5C%22%3E%5Cn%20%20%3Cdiv%20class%3D%5C%22csl-entry%5C%22%3ESeba%2C%20Mohammed%2C%20Frederic%20Boccard%2C%20and%20St%26%23xE9%3Bphane%20Duigou.%202024.%20%26%23x201C%3BActivity%20of%20MukBEF%20for%20Chromosome%20Management%20in%20E.%20Coli%20and%20Its%20Inhibition%20by%20MatP.%26%23x201D%3B%20%3Ci%3EELife%3C%5C%2Fi%3E%2012%20%28February%29%3ARP91185.%20%3Ca%20class%3D%27zp-DOIURL%27%20href%3D%27https%3A%5C%2F%5C%2Fdoi.org%5C%2F10.7554%5C%2FeLife.91185%27%3Ehttps%3A%5C%2F%5C%2Fdoi.org%5C%2F10.7554%5C%2FeLife.91185%3C%5C%2Fa%3E.%3C%5C%2Fdiv%3E%5Cn%3C%5C%2Fdiv%3E%22%2C%22data%22%3A%7B%22itemType%22%3A%22journalArticle%22%2C%22title%22%3A%22Activity%20of%20MukBEF%20for%20chromosome%20management%20in%20E.%20coli%20and%20its%20inhibition%20by%20MatP%22%2C%22creators%22%3A%5B%7B%22creatorType%22%3A%22author%22%2C%22firstName%22%3A%22Mohammed%22%2C%22lastName%22%3A%22Seba%22%7D%2C%7B%22creatorType%22%3A%22author%22%2C%22firstName%22%3A%22Frederic%22%2C%22lastName%22%3A%22Boccard%22%7D%2C%7B%22creatorType%22%3A%22author%22%2C%22firstName%22%3A%22St%5Cu00e9phane%22%2C%22lastName%22%3A%22Duigou%22%7D%5D%2C%22abstractNote%22%3A%22Structural%20maintenance%20of%20chromosomes%20%28SMC%29%20complexes%20share%20conserved%20structures%20and%20serve%20a%20common%20role%20in%20maintaining%20chromosome%20architecture.%20In%20the%20bacterium%20Escherichia%20coli%2C%20the%20SMC%20complex%20MukBEF%20is%20necessary%20for%20rapid%20growth%20and%20the%20accurate%20segregation%20and%20positioning%20of%20the%20chromosome%2C%20although%20the%20specific%20molecular%20mechanisms%20involved%20are%20still%20unknown.%20Here%2C%20we%20used%20a%20number%20of%20in%20vivo%20assays%20to%20reveal%20how%20MukBEF%20controls%20chromosome%20conformation%20and%20how%20the%20MatP%5C%2FmatS%20system%20prevents%20MukBEF%20activity.%20Our%20results%20indicate%20that%20the%20loading%20of%20MukBEF%20occurs%20preferentially%20on%20newly%20replicated%20DNA%2C%20at%20multiple%20loci%20on%20the%20chromosome%20where%20it%20can%20promote%20long-range%20contacts%20in%20cis%20even%20though%20MukBEF%20can%20promote%20long-range%20contacts%20in%20the%20absence%20of%20replication.%20Using%20Hi-C%20and%20ChIP-seq%20analyses%20in%20strains%20with%20rearranged%20chromosomes%2C%20the%20prevention%20of%20MukBEF%20activity%20increases%20with%20the%20number%20of%20matS%20sites%20and%20this%20effect%20likely%20results%20from%20the%20unloading%20of%20MukBEF%20by%20MatP.%20Altogether%2C%20our%20results%20reveal%20how%20MukBEF%20operates%20to%20control%20chromosome%20folding%20and%20segregation%20in%20E.%20coli.%22%2C%22date%22%3A%222024-02-05%22%2C%22language%22%3A%22eng%22%2C%22DOI%22%3A%2210.7554%5C%2FeLife.91185%22%2C%22ISSN%22%3A%222050-084X%22%2C%22url%22%3A%22%22%2C%22collections%22%3A%5B%22VH2H4I9M%22%5D%2C%22dateModified%22%3A%222024-02-06T16%3A04%3A40Z%22%7D%7D%5D%7D

Haas, Drago, Matthieu Barba, Cláudia M Vicente, Šarká Nezbedová, Amélie Garénaux, Stéphanie Bury-Moné, Jean-Noël Lorenzi, et al. 2024. “Synteruptor: Mining Genomic Islands for Non-Classical Specialized Metabolite Gene Clusters.” NAR Genomics and Bioinformatics 6 (2): lqae069. https://doi.org/10.1093/nargab/lqae069.

Jaffal, Hoda, Mounia Kortebi, Pauline Misson, Paulo Tavares, Malika Ouldali, Hervé Leh, Sylvie Lautru, Virginia S. Lioy, François Lecointe, and Stéphanie G. Bury-Moné. 2024. “Prophage Induction Can Facilitate the in Vitro Dispersal of Multicellular Streptomyces Structures.” PLOS Biology 22 (7): e3002725. https://doi.org/10.1371/journal.pbio.3002725.

Ponndara, Sokrich, Mounia Kortebi, Frédéric Boccard, Stéphanie Bury-Moné, and Virginia S. Lioy. 2024. “Principles of Bacterial Genome Organization, a Conformational Point of View.” Molecular Microbiology, June. https://doi.org/10.1111/mmi.15290.

Seba, Mohammed, Frederic Boccard, and Stéphane Duigou. 2024. “Activity of MukBEF for Chromosome Management in E. Coli and Its Inhibition by MatP.” ELife 12 (February):RP91185. https://doi.org/10.7554/eLife.91185.

3888256 OCB 2023 1 chicago-author-date 50 creator asc year 7686 https://www.i2bc.paris-saclay.fr/wp-content/plugins/zotpress/

Bury-Moné, Stéphanie, Annabelle Thibessard, Virginia S. Lioy, and Pierre Leblond. 2023. “Dynamics of the Streptomyces Chromosome: Chance and Necessity.” Trends in Genetics: TIG, September, S0168-9525(23)00166-X. https://doi.org/10.1016/j.tig.2023.07.008.

3888256 OCB 2022 1 chicago-author-date 50 creator asc year 7686 https://www.i2bc.paris-saclay.fr/wp-content/plugins/zotpress/

Lorenzi, Jean-Noël, Annabelle Thibessard, Virginia S Lioy, Frédéric Boccard, Pierre Leblond, Jean-Luc Pernodet, and Stéphanie Bury-Moné. 2022. “Ribosomal RNA Operons Define a Central Functional Compartment in the Streptomyces Chromosome.” Nucleic Acids Research, November, gkac1076. https://doi.org/10.1093/nar/gkac1076.

3888256 OCB 2021 1 chicago-author-date 50 creator asc year 7686 https://www.i2bc.paris-saclay.fr/wp-content/plugins/zotpress/

%7B%22status%22%3A%22success%22%2C%22updateneeded%22%3Afalse%2C%22instance%22%3Afalse%2C%22meta%22%3A%7B%22request_last%22%3A0%2C%22request_next%22%3A0%2C%22used_cache%22%3Atrue%7D%2C%22data%22%3A%5B%7B%22key%22%3A%22INRMV6J8%22%2C%22library%22%3A%7B%22id%22%3A3888256%7D%2C%22meta%22%3A%7B%22creatorSummary%22%3A%22Anchimiuk%20et%20al.%22%2C%22parsedDate%22%3A%222021-08-04%22%2C%22numChildren%22%3A2%7D%2C%22bib%22%3A%22%3Cdiv%20class%3D%5C%22csl-bib-body%5C%22%20style%3D%5C%22line-height%3A%201.35%3B%20padding-left%3A%201em%3B%20text-indent%3A-1em%3B%5C%22%3E%5Cn%20%20%3Cdiv%20class%3D%5C%22csl-entry%5C%22%3EAnchimiuk%2C%20Anna%2C%20Virginia%20S.%20Lioy%2C%20Florian%20Patrick%20Bock%2C%20Anita%20Minnen%2C%20Frederic%20Boccard%2C%20and%20Stephan%20Gruber.%202021.%20%26%23x201C%3BA%20Low%20Smc%20Flux%20Avoids%20Collisions%20and%20Facilitates%20Chromosome%20Organization%20in%20Bacillus%20Subtilis.%26%23x201D%3B%20%3Ci%3EELife%3C%5C%2Fi%3E%2010%20%28August%29%3Ae65467.%20%3Ca%20class%3D%27zp-DOIURL%27%20href%3D%27https%3A%5C%2F%5C%2Fdoi.org%5C%2F10.7554%5C%2FeLife.65467%27%3Ehttps%3A%5C%2F%5C%2Fdoi.org%5C%2F10.7554%5C%2FeLife.65467%3C%5C%2Fa%3E.%3C%5C%2Fdiv%3E%5Cn%3C%5C%2Fdiv%3E%22%2C%22data%22%3A%7B%22itemType%22%3A%22journalArticle%22%2C%22title%22%3A%22A%20low%20Smc%20flux%20avoids%20collisions%20and%20facilitates%20chromosome%20organization%20in%20Bacillus%20subtilis%22%2C%22creators%22%3A%5B%7B%22creatorType%22%3A%22author%22%2C%22firstName%22%3A%22Anna%22%2C%22lastName%22%3A%22Anchimiuk%22%7D%2C%7B%22creatorType%22%3A%22author%22%2C%22firstName%22%3A%22Virginia%20S.%22%2C%22lastName%22%3A%22Lioy%22%7D%2C%7B%22creatorType%22%3A%22author%22%2C%22firstName%22%3A%22Florian%20Patrick%22%2C%22lastName%22%3A%22Bock%22%7D%2C%7B%22creatorType%22%3A%22author%22%2C%22firstName%22%3A%22Anita%22%2C%22lastName%22%3A%22Minnen%22%7D%2C%7B%22creatorType%22%3A%22author%22%2C%22firstName%22%3A%22Frederic%22%2C%22lastName%22%3A%22Boccard%22%7D%2C%7B%22creatorType%22%3A%22author%22%2C%22firstName%22%3A%22Stephan%22%2C%22lastName%22%3A%22Gruber%22%7D%5D%2C%22abstractNote%22%3A%22SMC%20complexes%20are%20widely%20conserved%20ATP-powered%20DNA-loop-extrusion%20motors%20indispensable%20for%20organizing%20and%20faithfully%20segregating%20chromosomes.%20How%20SMC%20complexes%20translocate%20along%20DNA%20for%20loop%20extrusion%20and%20what%20happens%20when%20two%20complexes%20meet%20on%20the%20same%20DNA%20molecule%20is%20largely%20unknown.%20Revealing%20the%20origins%20and%20the%20consequences%20of%20SMC%20encounters%20is%20crucial%20for%20understanding%20the%20folding%20process%20not%20only%20of%20bacterial%2C%20but%20also%20of%20eukaryotic%20chromosomes.%20Here%2C%20we%20uncover%20several%20factors%20that%20influence%20bacterial%20chromosome%20organization%20by%20modulating%20the%20probability%20of%20such%20clashes.%20These%20factors%20include%20the%20number%2C%20the%20strength%2C%20and%20the%20distribution%20of%20Smc%20loading%20sites%2C%20the%20residency%20time%20on%20the%20chromosome%2C%20the%20translocation%20rate%2C%20and%20the%20cellular%20abundance%20of%20Smc%20complexes.%20By%20studying%20various%20mutants%2C%20we%20show%20that%20these%20parameters%20are%20fine-tuned%20to%20reduce%20the%20frequency%20of%20encounters%20between%20Smc%20complexes%2C%20presumably%20as%20a%20risk%20mitigation%20strategy.%20Mild%20perturbations%20hamper%20chromosome%20organization%20by%20causing%20Smc%20collisions%2C%20implying%20that%20the%20cellular%20capacity%20to%20resolve%20them%20is%20limited.%20Altogether%2C%20we%20identify%20mechanisms%20that%20help%20to%20avoid%20Smc%20collisions%20and%20their%20resolution%20by%20Smc%20traversal%20or%20other%20potentially%20risky%20molecular%20transactions.%22%2C%22date%22%3A%222021-08-04%22%2C%22language%22%3A%22eng%22%2C%22DOI%22%3A%2210.7554%5C%2FeLife.65467%22%2C%22ISSN%22%3A%222050-084X%22%2C%22url%22%3A%22%22%2C%22collections%22%3A%5B%22UJL3AMMZ%22%5D%2C%22dateModified%22%3A%222024-01-08T07%3A40%3A23Z%22%7D%7D%2C%7B%22key%22%3A%22MR37MIF6%22%2C%22library%22%3A%7B%22id%22%3A3888256%7D%2C%22meta%22%3A%7B%22creatorSummary%22%3A%22Lioy%20et%20al.%22%2C%22parsedDate%22%3A%222021-09-01%22%2C%22numChildren%22%3A2%7D%2C%22bib%22%3A%22%3Cdiv%20class%3D%5C%22csl-bib-body%5C%22%20style%3D%5C%22line-height%3A%201.35%3B%20padding-left%3A%201em%3B%20text-indent%3A-1em%3B%5C%22%3E%5Cn%20%20%3Cdiv%20class%3D%5C%22csl-entry%5C%22%3ELioy%2C%20Virginia%20S.%2C%20Jean-No%26%23xEB%3Bl%20Lorenzi%2C%20Soumaya%20Najah%2C%20Thibault%20Poinsignon%2C%20Herv%26%23xE9%3B%20Leh%2C%20Corinne%20Saulnier%2C%20Bertrand%20Aigle%2C%20et%20al.%202021.%20%26%23x201C%3BDynamics%20of%20the%20Compartmentalized%20Streptomyces%20Chromosome%20during%20Metabolic%20Differentiation.%26%23x201D%3B%20%3Ci%3ENature%20Communications%3C%5C%2Fi%3E%2012%20%281%29%3A%205221.%20%3Ca%20class%3D%27zp-DOIURL%27%20href%3D%27https%3A%5C%2F%5C%2Fdoi.org%5C%2F10.1038%5C%2Fs41467-021-25462-1%27%3Ehttps%3A%5C%2F%5C%2Fdoi.org%5C%2F10.1038%5C%2Fs41467-021-25462-1%3C%5C%2Fa%3E.%3C%5C%2Fdiv%3E%5Cn%3C%5C%2Fdiv%3E%22%2C%22data%22%3A%7B%22itemType%22%3A%22journalArticle%22%2C%22title%22%3A%22Dynamics%20of%20the%20compartmentalized%20Streptomyces%20chromosome%20during%20metabolic%20differentiation%22%2C%22creators%22%3A%5B%7B%22creatorType%22%3A%22author%22%2C%22firstName%22%3A%22Virginia%20S.%22%2C%22lastName%22%3A%22Lioy%22%7D%2C%7B%22creatorType%22%3A%22author%22%2C%22firstName%22%3A%22Jean-No%5Cu00ebl%22%2C%22lastName%22%3A%22Lorenzi%22%7D%2C%7B%22creatorType%22%3A%22author%22%2C%22firstName%22%3A%22Soumaya%22%2C%22lastName%22%3A%22Najah%22%7D%2C%7B%22creatorType%22%3A%22author%22%2C%22firstName%22%3A%22Thibault%22%2C%22lastName%22%3A%22Poinsignon%22%7D%2C%7B%22creatorType%22%3A%22author%22%2C%22firstName%22%3A%22Herv%5Cu00e9%22%2C%22lastName%22%3A%22Leh%22%7D%2C%7B%22creatorType%22%3A%22author%22%2C%22firstName%22%3A%22Corinne%22%2C%22lastName%22%3A%22Saulnier%22%7D%2C%7B%22creatorType%22%3A%22author%22%2C%22firstName%22%3A%22Bertrand%22%2C%22lastName%22%3A%22Aigle%22%7D%2C%7B%22creatorType%22%3A%22author%22%2C%22firstName%22%3A%22Sylvie%22%2C%22lastName%22%3A%22Lautru%22%7D%2C%7B%22creatorType%22%3A%22author%22%2C%22firstName%22%3A%22Annabelle%22%2C%22lastName%22%3A%22Thibessard%22%7D%2C%7B%22creatorType%22%3A%22author%22%2C%22firstName%22%3A%22Olivier%22%2C%22lastName%22%3A%22Lespinet%22%7D%2C%7B%22creatorType%22%3A%22author%22%2C%22firstName%22%3A%22Pierre%22%2C%22lastName%22%3A%22Leblond%22%7D%2C%7B%22creatorType%22%3A%22author%22%2C%22firstName%22%3A%22Yan%22%2C%22lastName%22%3A%22Jaszczyszyn%22%7D%2C%7B%22creatorType%22%3A%22author%22%2C%22firstName%22%3A%22Kevin%22%2C%22lastName%22%3A%22Gorrichon%22%7D%2C%7B%22creatorType%22%3A%22author%22%2C%22firstName%22%3A%22Nelle%22%2C%22lastName%22%3A%22Varoquaux%22%7D%2C%7B%22creatorType%22%3A%22author%22%2C%22firstName%22%3A%22Ivan%22%2C%22lastName%22%3A%22Junier%22%7D%2C%7B%22creatorType%22%3A%22author%22%2C%22firstName%22%3A%22Fr%5Cu00e9d%5Cu00e9ric%22%2C%22lastName%22%3A%22Boccard%22%7D%2C%7B%22creatorType%22%3A%22author%22%2C%22firstName%22%3A%22Jean-Luc%22%2C%22lastName%22%3A%22Pernodet%22%7D%2C%7B%22creatorType%22%3A%22author%22%2C%22firstName%22%3A%22St%5Cu00e9phanie%22%2C%22lastName%22%3A%22Bury-Mon%5Cu00e9%22%7D%5D%2C%22abstractNote%22%3A%22Bacteria%20of%20the%20genus%20Streptomyces%20are%20prolific%20producers%20of%20specialized%20metabolites%2C%20including%20antibiotics.%20The%20linear%20chromosome%20includes%20a%20central%20region%20harboring%20core%20genes%2C%20as%20well%20as%20extremities%20enriched%20in%20specialized%20metabolite%20biosynthetic%20gene%20clusters.%20Here%2C%20we%20show%20that%20chromosome%20structure%20in%20Streptomyces%20ambofaciens%20correlates%20with%20genetic%20compartmentalization%20during%20exponential%20phase.%20Conserved%2C%20large%20and%20highly%20transcribed%20genes%20form%20boundaries%20that%20segment%20the%20central%20part%20of%20the%20chromosome%20into%20domains%2C%20whereas%20the%20terminal%20ends%20tend%20to%20be%20transcriptionally%20quiescent%20compartments%20with%20different%20structural%20features.%20The%20onset%20of%20metabolic%20differentiation%20is%20accompanied%20by%20a%20rearrangement%20of%20chromosome%20architecture%2C%20from%20a%20rather%20%27open%27%20to%20a%20%27closed%27%20conformation%2C%20in%20which%20highly%20expressed%20specialized%20metabolite%20biosynthetic%20genes%20form%20new%20boundaries.%20Thus%2C%20our%20results%20indicate%20that%20the%20linear%20chromosome%20of%20S.%20ambofaciens%20is%20partitioned%20into%20structurally%20distinct%20entities%2C%20suggesting%20a%20link%20between%20chromosome%20folding%2C%20gene%20expression%20and%20genome%20evolution.%22%2C%22date%22%3A%222021-09-01%22%2C%22language%22%3A%22eng%22%2C%22DOI%22%3A%2210.1038%5C%2Fs41467-021-25462-1%22%2C%22ISSN%22%3A%222041-1723%22%2C%22url%22%3A%22%22%2C%22collections%22%3A%5B%22R7I3GKDL%22%2C%222FBUFWW8%22%2C%2254WS7MX2%22%2C%22D373TGAV%22%5D%2C%22dateModified%22%3A%222021-09-29T12%3A05%3A21Z%22%7D%7D%2C%7B%22key%22%3A%22DG5FZMPP%22%2C%22library%22%3A%7B%22id%22%3A3888256%7D%2C%22meta%22%3A%7B%22creatorSummary%22%3A%22Lioy%20et%20al.%22%2C%22parsedDate%22%3A%222021-08-03%22%2C%22numChildren%22%3A1%7D%2C%22bib%22%3A%22%3Cdiv%20class%3D%5C%22csl-bib-body%5C%22%20style%3D%5C%22line-height%3A%201.35%3B%20padding-left%3A%201em%3B%20text-indent%3A-1em%3B%5C%22%3E%5Cn%20%20%3Cdiv%20class%3D%5C%22csl-entry%5C%22%3ELioy%2C%20Virginia%20S.%2C%20Ivan%20Junier%2C%20and%20Fr%26%23xE9%3Bd%26%23xE9%3Bric%20Boccard.%202021.%20%26%23x201C%3BMultiscale%20Dynamic%20Structuring%20of%20Bacterial%20Chromosomes.%26%23x201D%3B%20%3Ci%3EAnnual%20Review%20of%20Microbiology%3C%5C%2Fi%3E%2C%20August.%20%3Ca%20class%3D%27zp-DOIURL%27%20href%3D%27https%3A%5C%2F%5C%2Fdoi.org%5C%2F10.1146%5C%2Fannurev-micro-033021-113232%27%3Ehttps%3A%5C%2F%5C%2Fdoi.org%5C%2F10.1146%5C%2Fannurev-micro-033021-113232%3C%5C%2Fa%3E.%3C%5C%2Fdiv%3E%5Cn%3C%5C%2Fdiv%3E%22%2C%22data%22%3A%7B%22itemType%22%3A%22journalArticle%22%2C%22title%22%3A%22Multiscale%20Dynamic%20Structuring%20of%20Bacterial%20Chromosomes%22%2C%22creators%22%3A%5B%7B%22creatorType%22%3A%22author%22%2C%22firstName%22%3A%22Virginia%20S.%22%2C%22lastName%22%3A%22Lioy%22%7D%2C%7B%22creatorType%22%3A%22author%22%2C%22firstName%22%3A%22Ivan%22%2C%22lastName%22%3A%22Junier%22%7D%2C%7B%22creatorType%22%3A%22author%22%2C%22firstName%22%3A%22Fr%5Cu00e9d%5Cu00e9ric%22%2C%22lastName%22%3A%22Boccard%22%7D%5D%2C%22abstractNote%22%3A%22Since%20the%20nucleoid%20was%20isolated%20from%20bacteria%20in%20the%201970s%2C%20two%20fundamental%20questions%20emerged%20and%20are%20still%20in%20the%20spotlight%3A%20how%20bacteria%20organize%20their%20chromosomes%20to%20fit%20inside%20the%20cell%20and%20how%20nucleoid%20organization%20enables%20essential%20biological%20processes.%20During%20the%20last%20decades%2C%20knowledge%20of%20bacterial%20chromosome%20organization%20has%20advanced%20considerably%2C%20and%20today%2C%20such%20chromosomes%20are%20considered%20to%20be%20highly%20organized%20and%20dynamic%20structures%20that%20are%20shaped%20by%20multiple%20factors%20in%20a%20multiscale%20manner.%20Here%20we%20review%20not%20only%20the%20classical%20well-known%20factors%20involved%20in%20chromosome%20organization%20but%20also%20novel%20components%20that%20have%20recently%20been%20shown%20to%20dynamically%20shape%20the%203D%20structuring%20of%20the%20bacterial%20genome.%20We%20focus%20on%20the%20different%20functional%20elements%20that%20control%20short-range%20organization%20and%20describe%20how%20they%20collaborate%20in%20the%20establishment%20of%20the%20higher-order%20folding%20and%20disposition%20of%20the%20chromosome.%20Recent%20advances%20have%20opened%20new%20avenues%20for%20a%20deeper%20understanding%20of%20the%20principles%20and%20mechanisms%20of%20chromosome%20organization%20in%20bacteria.%20Expected%20final%20online%20publication%20date%20for%20the%20Annual%20Review%20of%20Microbiology%2C%20Volume%2075%20is%20October%202021.%20Please%20see%20http%3A%5C%2F%5C%2Fwww.annualreviews.org%5C%2Fpage%5C%2Fjournal%5C%2Fpubdates%20for%20revised%20estimates.%22%2C%22date%22%3A%222021-08-03%22%2C%22language%22%3A%22eng%22%2C%22DOI%22%3A%2210.1146%5C%2Fannurev-micro-033021-113232%22%2C%22ISSN%22%3A%221545-3251%22%2C%22url%22%3A%22%22%2C%22collections%22%3A%5B%22UJL3AMMZ%22%5D%2C%22dateModified%22%3A%222024-01-08T07%3A40%3A23Z%22%7D%7D%2C%7B%22key%22%3A%22F96HU5P2%22%2C%22library%22%3A%7B%22id%22%3A3888256%7D%2C%22meta%22%3A%7B%22creatorSummary%22%3A%22Vingadassalon%20et%20al.%22%2C%22parsedDate%22%3A%222021-09-29%22%2C%22numChildren%22%3A1%7D%2C%22bib%22%3A%22%3Cdiv%20class%3D%5C%22csl-bib-body%5C%22%20style%3D%5C%22line-height%3A%201.35%3B%20padding-left%3A%201em%3B%20text-indent%3A-1em%3B%5C%22%3E%5Cn%20%20%3Cdiv%20class%3D%5C%22csl-entry%5C%22%3EVingadassalon%2C%20Audrey%2C%20Florence%20Lorieux%2C%20Maud%20Juguet%2C%20Alba%20No%26%23xEB%3Bl%2C%20Luisa%20D.%20F.%20Santos%2C%20Laura%20Marin%20Fernandez%2C%20Jean-Luc%20Pernodet%2C%20St%26%23xE9%3Bphanie%20Bury-Mon%26%23xE9%3B%2C%20and%20Sylvie%20Lautru.%202021.%20%26%23x201C%3BTranscriptional%20Regulation%20of%20Congocidine%20%28Netropsin%29%20Biosynthesis%20and%20Resistance.%26%23x201D%3B%20%3Ci%3EApplied%20and%20Environmental%20Microbiology%3C%5C%2Fi%3E%2C%20September%2C%20AEM0138021.%20%3Ca%20class%3D%27zp-DOIURL%27%20href%3D%27https%3A%5C%2F%5C%2Fdoi.org%5C%2F10.1128%5C%2FAEM.01380-21%27%3Ehttps%3A%5C%2F%5C%2Fdoi.org%5C%2F10.1128%5C%2FAEM.01380-21%3C%5C%2Fa%3E.%3C%5C%2Fdiv%3E%5Cn%3C%5C%2Fdiv%3E%22%2C%22data%22%3A%7B%22itemType%22%3A%22journalArticle%22%2C%22title%22%3A%22Transcriptional%20regulation%20of%20congocidine%20%28netropsin%29%20biosynthesis%20and%20resistance%22%2C%22creators%22%3A%5B%7B%22creatorType%22%3A%22author%22%2C%22firstName%22%3A%22Audrey%22%2C%22lastName%22%3A%22Vingadassalon%22%7D%2C%7B%22creatorType%22%3A%22author%22%2C%22firstName%22%3A%22Florence%22%2C%22lastName%22%3A%22Lorieux%22%7D%2C%7B%22creatorType%22%3A%22author%22%2C%22firstName%22%3A%22Maud%22%2C%22lastName%22%3A%22Juguet%22%7D%2C%7B%22creatorType%22%3A%22author%22%2C%22firstName%22%3A%22Alba%22%2C%22lastName%22%3A%22No%5Cu00ebl%22%7D%2C%7B%22creatorType%22%3A%22author%22%2C%22firstName%22%3A%22Luisa%20D.%20F.%22%2C%22lastName%22%3A%22Santos%22%7D%2C%7B%22creatorType%22%3A%22author%22%2C%22firstName%22%3A%22Laura%20Marin%22%2C%22lastName%22%3A%22Fernandez%22%7D%2C%7B%22creatorType%22%3A%22author%22%2C%22firstName%22%3A%22Jean-Luc%22%2C%22lastName%22%3A%22Pernodet%22%7D%2C%7B%22creatorType%22%3A%22author%22%2C%22firstName%22%3A%22St%5Cu00e9phanie%22%2C%22lastName%22%3A%22Bury-Mon%5Cu00e9%22%7D%2C%7B%22creatorType%22%3A%22author%22%2C%22firstName%22%3A%22Sylvie%22%2C%22lastName%22%3A%22Lautru%22%7D%5D%2C%22abstractNote%22%3A%22The%20production%20of%20specialized%20metabolites%20by%20Streptomyces%20bacteria%20is%20usually%20temporally%20regulated.%20This%20regulation%20is%20complex%20and%20frequently%20involves%20both%20global%20and%20pathway-specific%20mechanisms.%20Streptomyces%20ambofaciens%20ATCC23877%20produces%20several%20specialized%20metabolites%2C%20including%20spiramycins%2C%20stambomycins%2C%20kinamycins%20and%20congocidine.%20The%20production%20of%20the%20first%20three%20molecules%20has%20been%20shown%20to%20be%20controlled%20by%20one%20or%20several%20cluster-situated%20transcriptional%20regulators.%20However%2C%20nothing%20is%20known%20regarding%20the%20regulation%20of%20congocidine%20biosynthesis.%20Congocidine%20%28netropsin%29%20belongs%20to%20the%20family%20of%20pyrrolamide%20metabolites%2C%20which%20also%20includes%20distamycin%20and%20anthelvencins.%20Most%20pyrrolamides%20bind%20into%20the%20minor%20groove%20of%20DNA%2C%20specifically%20in%20A%5C%2FT-rich%20regions%2C%20which%20gives%20them%20numerous%20biological%20activities%2C%20such%20as%20antimicrobial%20and%20antitumoral%20activities.%20We%20previously%20reported%20the%20characterization%20of%20the%20pyrrolamide%20biosynthetic%20gene%20clusters%20of%20congocidine%20%28cgc%29%20in%20S.%20ambofaciens%20ATCC23877%2C%20distamycin%20%28dst%29%20in%20Streptomyces%20netropsis%20DSM40846%20and%20anthelvencins%20%28ant%29%20in%20Streptomyces%20venezuelae%20ATCC14583.%20The%20three%20gene%20clusters%20contain%20a%20gene%20encoding%20a%20putative%20transcriptional%20regulator%2C%20cgc1%2C%20dst1%20and%20ant1%20respectively.%20Cgc1%2C%20Dst1%20and%20Ant1%20present%20a%20high%20percentage%20of%20amino%20acid%20sequence%20similarity.%20We%20demonstrate%20here%20that%20Cgc1%2C%20an%20atypical%20orphan%20response%20regulator%2C%20activates%20the%20transcription%20of%20all%20cgc%20genes%20in%20the%20stationary%20phase%20of%20S.%20ambofaciens%20growth.%20We%20also%20show%20that%20the%20cgc%20cluster%20is%20constituted%20of%20eight%20main%20transcriptional%20units.%20Finally%2C%20we%20show%20that%20congocidine%20induces%20the%20expression%20of%20the%20transcriptional%20regulator%20Cgc1%20and%20of%20the%20operon%20containing%20the%20resistance%20genes%20%28cgc20%20and%20cgc21%2C%20coding%20for%20an%20ABC%20transporter%29%2C%20and%20propose%20a%20model%20for%20the%20transcriptional%20regulation%20of%20the%20cgc%20gene%20cluster.%20Importance%20Understanding%20the%20mechanisms%20of%20regulation%20of%20specialized%20metabolite%20production%20can%20have%20important%20implications%20both%20at%20the%20level%20of%20specialized%20metabolism%20study%20%28expression%20of%20silent%20gene%20clusters%29%20and%20the%20biotechnological%20level%20%28increase%20of%20the%20production%20of%20a%20metabolite%20of%20interest%29.%20We%20report%20here%20a%20study%20on%20the%20regulation%20of%20the%20biosynthesis%20of%20a%20metabolite%20from%20the%20pyrrolamide%20family%2C%20congocidine.%20We%20show%20that%20congocidine%20biosynthesis%20and%20resistance%20is%20controlled%20by%20Cgc1%2C%20a%20cluster-situated%20regulator.%20As%20the%20gene%20clusters%20directing%20the%20biosynthesis%20of%20the%20pyrrolamides%20distamycin%20and%20anthelvencin%20encode%20a%20homolog%20of%20Cgc1%2C%20our%20findings%20may%20be%20relevant%20for%20the%20biosynthesis%20of%20other%20pyrrolamides.%20In%20addition%2C%20our%20results%20reveal%20a%20new%20type%20of%20feed-forward%20induction%20mechanism%2C%20in%20which%20congocidine%20induces%20its%20own%20biosynthesis%20through%20the%20induction%20of%20the%20transcription%20of%20cgc1.%22%2C%22date%22%3A%222021-09-29%22%2C%22language%22%3A%22eng%22%2C%22DOI%22%3A%2210.1128%5C%2FAEM.01380-21%22%2C%22ISSN%22%3A%221098-5336%22%2C%22url%22%3A%22%22%2C%22collections%22%3A%5B%22R7I3GKDL%22%2C%222FBUFWW8%22%2C%2254WS7MX2%22%2C%22D373TGAV%22%5D%2C%22dateModified%22%3A%222021-10-27T13%3A32%3A32Z%22%7D%7D%5D%7D

Anchimiuk, Anna, Virginia S. Lioy, Florian Patrick Bock, Anita Minnen, Frederic Boccard, and Stephan Gruber. 2021. “A Low Smc Flux Avoids Collisions and Facilitates Chromosome Organization in Bacillus Subtilis.” ELife 10 (August):e65467. https://doi.org/10.7554/eLife.65467.

Lioy, Virginia S., Jean-Noël Lorenzi, Soumaya Najah, Thibault Poinsignon, Hervé Leh, Corinne Saulnier, Bertrand Aigle, et al. 2021. “Dynamics of the Compartmentalized Streptomyces Chromosome during Metabolic Differentiation.” Nature Communications 12 (1): 5221. https://doi.org/10.1038/s41467-021-25462-1.

Lioy, Virginia S., Ivan Junier, and Frédéric Boccard. 2021. “Multiscale Dynamic Structuring of Bacterial Chromosomes.” Annual Review of Microbiology, August. https://doi.org/10.1146/annurev-micro-033021-113232.

Vingadassalon, Audrey, Florence Lorieux, Maud Juguet, Alba Noël, Luisa D. F. Santos, Laura Marin Fernandez, Jean-Luc Pernodet, Stéphanie Bury-Moné, and Sylvie Lautru. 2021. “Transcriptional Regulation of Congocidine (Netropsin) Biosynthesis and Resistance.” Applied and Environmental Microbiology, September, AEM0138021. https://doi.org/10.1128/AEM.01380-21.

3888256 OCB 2020 1 chicago-author-date 50 creator asc year 7686 https://www.i2bc.paris-saclay.fr/wp-content/plugins/zotpress/

Lioy, Virginia S., Ivan Junier, Valentine Lagage, Isabelle Vallet, and Frédéric Boccard. 2020. “Distinct Activities of Bacterial Condensins for Chromosome Management in Pseudomonas Aeruginosa.” Cell Reports 33 (5): 108344. https://doi.org/10.1016/j.celrep.2020.108344.

Varoquaux, Nelle, Virginia S. Lioy, Frédéric Boccard, and Ivan Junier. 2020. “Computational Tools for the Multiscale Analysis of Hi-C Data in Bacterial Chromosomes.” Methods in Molecular Biology (Clifton, N.J.) 2301:197–207. https://doi.org/10.1007/978-1-0716-1390-0_10.

3888256 OCB 2018 1 chicago-author-date 50 creator asc year 7686 https://www.i2bc.paris-saclay.fr/wp-content/plugins/zotpress/

Kretsch, Ashley M., Gina L. Morgan, Jillian Tyne, Emily Meyers, Isabelle Vallet-Gely, and Bo Li. 2018. “Discovery of (Dihydro)Pyrazine N-Oxides via Genome Mining in Pseudomonas.” Organic Letters 20 (16): 4791–95. https://doi.org/10.1021/acs.orglett.8b01944.

Lioy, Virginia S., and Frédéric Boccard. 2018. “Conformational Studies of Bacterial Chromosomes by High-Throughput Sequencing Methods.” Methods in Enzymology 612:25–45. https://doi.org/10.1016/bs.mie.2018.07.007.

Lioy, Virginia S., Axel Cournac, Martial Marbouty, Stéphane Duigou, Julien Mozziconacci, Olivier Espéli, Frédéric Boccard, and Romain Koszul. 2018. “Multiscale Structuring of the E. Coli Chromosome by Nucleoid-Associated and Condensin Proteins.” Cell 172 (4): 771-783.e18. https://doi.org/10.1016/j.cell.2017.12.027.

3888256 OCB 2017 1 chicago-author-date 50 creator asc year 7686 https://www.i2bc.paris-saclay.fr/wp-content/plugins/zotpress/

Brézellec, Pierre, Marie-Agnès Petit, Sophie Pasek, Isabelle Vallet-Gely, Christophe Possoz, and Jean-Luc Ferat. 2017. “Domestication of Lambda Phage Genes into a Putative Third Type of Replicative Helicase Matchmaker.” Genome Biology and Evolution 9 (6): 1561–66. https://doi.org/10.1093/gbe/evx111.

Duigou, Stéphane, and Frédéric Boccard. 2017. “Long Range Chromosome Organization in Escherichia Coli: The Position of the Replication Origin Defines the Non-Structured Regions and the Right and Left Macrodomains.” PLoS Genetics 13 (5): e1006758. https://doi.org/10.1371/journal.pgen.1006758.

3888256 OCB 2016 1 chicago-author-date 50 creator asc year 7686 https://www.i2bc.paris-saclay.fr/wp-content/plugins/zotpress/

Brézellec, Pierre, Isabelle Vallet-Gely, Christophe Possoz, Sophie Quevillon-Cheruel, and Jean-Luc Ferat. 2016. “DciA Is an Ancestral Replicative Helicase Operator Essential for Bacterial Replication Initiation.” Nature Communications 7 (November):13271. https://doi.org/10.1038/ncomms13271.

Lagage, Valentine, Frédéric Boccard, and Isabelle Vallet-Gely. 2016. “Regional Control of Chromosome Segregation in Pseudomonas Aeruginosa.” PLoS Genetics 12 (11): e1006428. https://doi.org/10.1371/journal.pgen.1006428.

Valens, Michèle, Axel Thiel, and Frédéric Boccard. 2016. “The MaoP/MaoS Site-Specific System Organizes the Ori Region of the E. Coli Chromosome into a Macrodomain.” PLoS Genetics 12 (9): e1006309. https://doi.org/10.1371/journal.pgen.1006309.

Conformation and segregation of the bacterial chromosome

Publications

Conformation and segregation
of the bacterial chromosome