Dynamics of the compartmentalized Streptomyces chromosome during metabolic differentiation

Virginia S. Lioy (), Jean-Noël Lorenzi, Soumaya Najah, Thibault Poinsignon, Hervé Leh, Corinne Saulnier, Bertrand Aigle, Sylvie Lautru, Annabelle Thibessard, Olivier Lespinet, Pierre Leblond, Yan Jaszczyszyn, Kevin Gorrichon, Nelle Varoquaux, Ivan Junier, Frédéric Boccard, Jean-Luc Pernodet and Stéphanie Bury-Moné ()
Additional contact information
Virginia S. Lioy: Institute for Integrative Biology of the Cell (I2BC)
Jean-Noël Lorenzi: Institute for Integrative Biology of the Cell (I2BC)
Soumaya Najah: Institute for Integrative Biology of the Cell (I2BC)
Thibault Poinsignon: Institute for Integrative Biology of the Cell (I2BC)
Hervé Leh: Institute for Integrative Biology of the Cell (I2BC)
Corinne Saulnier: Institute for Integrative Biology of the Cell (I2BC)
Bertrand Aigle: DynAMic
Sylvie Lautru: Institute for Integrative Biology of the Cell (I2BC)
Annabelle Thibessard: DynAMic
Olivier Lespinet: Institute for Integrative Biology of the Cell (I2BC)
Pierre Leblond: DynAMic
Yan Jaszczyszyn: Institute for Integrative Biology of the Cell (I2BC)
Kevin Gorrichon: Institute for Integrative Biology of the Cell (I2BC)
Nelle Varoquaux: CNRS, Grenoble INP, TIMC-IMAG
Ivan Junier: CNRS, Grenoble INP, TIMC-IMAG
Frédéric Boccard: Institute for Integrative Biology of the Cell (I2BC)
Jean-Luc Pernodet: Institute for Integrative Biology of the Cell (I2BC)
Stéphanie Bury-Moné: Institute for Integrative Biology of the Cell (I2BC)

Nature Communications, 2021, vol. 12, issue 1, 1-14

Abstract: Abstract Bacteria of the genus Streptomyces are prolific producers of specialized metabolites, including antibiotics. The linear chromosome includes a central region harboring core genes, as well as extremities enriched in specialized metabolite biosynthetic gene clusters. Here, we show that chromosome structure in Streptomyces ambofaciens correlates with genetic compartmentalization during exponential phase. Conserved, large and highly transcribed genes form boundaries that segment the central part of the chromosome into domains, whereas the terminal ends tend to be transcriptionally quiescent compartments with different structural features. The onset of metabolic differentiation is accompanied by a rearrangement of chromosome architecture, from a rather ‘open’ to a ‘closed’ conformation, in which highly expressed specialized metabolite biosynthetic genes form new boundaries. Thus, our results indicate that the linear chromosome of S. ambofaciens is partitioned into structurally distinct entities, suggesting a link between chromosome folding, gene expression and genome evolution.

Date: 2021
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DOI: 10.1038/s41467-021-25462-1

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