Extensive translational regulation through the proliferative transition of Trypanosoma cruzi revealed by Multi-Omics

Chávez, Santiago - Urbaniak, Michael D - Benz, Corinna - Smircich, Pablo - Garat, Beatriz - Sotelo Silveira, José Roberto - Duhagon, María Ana

Resumen:

Trypanosoma cruzi is the etiological agent for Chagas disease, a neglected parasitic disease in Latin America. Gene transcription control governs the eukaryotic cell replication but is absent in trypanosomatids; thus, it must be replaced by posttranscriptional regulatory events. We investigated the entrance into the T. cruzi replicative cycle using ribosome profiling and proteomics on G1/S epimastigote cultures synchronized with hydroxyurea. We identified 1,784 translationally regulated genes (change > 2, false-discovery rate [FDR] < 0.05) and 653 differentially expressed proteins (change > 1.5, FDR < 0.05), respectively. A major translational remodeling accompanied by an extensive proteome change is found, while the transcriptome remains largely unperturbed at the replicative entrance of the cell cycle. The differentially expressed genes comprise specific cell cycle processes, confirming previous findings while revealing candidate cell cycle regulators that undergo previously unnoticed translational regulation. Clusters of genes showing a coordinated regulation at translation and protein abundance share related biological functions such as cytoskeleton organization and mitochondrial metabolism; thus, they may represent posttranscriptional regulons. The translatome and proteome of the coregulated clusters change in both coupled and uncoupled directions, suggesting that complex cross talk between the two processes is required to achieve adequate protein levels of different regulons. This is the first simultaneous assessment of the transcriptome, translatome, and proteome of trypanosomatids, which represent a paradigm for the absence of transcriptional control. The findings suggest that gene expression chronology along the T. cruzi cell cycle is controlled mainly by translatome and proteome changes coordinated using different mechanisms for specific gene groups.


Detalles Bibliográficos
2021
Chagas’ disease
Trypanosoma
Trypanosoma cruzi
Cell cycle
Cell proliferation
Genomics
Mass spectrometry
Posttranscription
Proteomics
Regulon
Ribosome profiling
Translational control
Inglés
Universidad de la República
COLIBRI
https://hdl.handle.net/20.500.12008/34955
Acceso abierto
Licencia Creative Commons Atribución (CC - By 4.0)
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author Chávez, Santiago
author2 Urbaniak, Michael D
Benz, Corinna
Smircich, Pablo
Garat, Beatriz
Sotelo Silveira, José Roberto
Duhagon, María Ana
author2_role author
author
author
author
author
author
author_facet Chávez, Santiago
Urbaniak, Michael D
Benz, Corinna
Smircich, Pablo
Garat, Beatriz
Sotelo Silveira, José Roberto
Duhagon, María Ana
author_role author
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dc.contributor.filiacion.none.fl_str_mv Chávez Santiago, Universidad de la República (Uruguay). Facultad de Ciencias. Instituto de Biología.
Urbaniak Michael D
Benz Corinna
Smircich Pablo, Universidad de la República (Uruguay). Facultad de Ciencias. Instituto de Biología.
Garat Beatriz, Universidad de la República (Uruguay). Facultad de Ciencias. Instituto de Biología.
Sotelo Silveira José Roberto, Universidad de la República (Uruguay). Facultad de Ciencias. Instituto de Biología.
Duhagon María Ana, Universidad de la República (Uruguay). Facultad de Ciencias. Instituto de Biología.
dc.creator.none.fl_str_mv Chávez, Santiago
Urbaniak, Michael D
Benz, Corinna
Smircich, Pablo
Garat, Beatriz
Sotelo Silveira, José Roberto
Duhagon, María Ana
dc.date.accessioned.none.fl_str_mv 2022-11-22T11:56:51Z
dc.date.available.none.fl_str_mv 2022-11-22T11:56:51Z
dc.date.issued.none.fl_str_mv 2021
dc.description.abstract.none.fl_txt_mv Trypanosoma cruzi is the etiological agent for Chagas disease, a neglected parasitic disease in Latin America. Gene transcription control governs the eukaryotic cell replication but is absent in trypanosomatids; thus, it must be replaced by posttranscriptional regulatory events. We investigated the entrance into the T. cruzi replicative cycle using ribosome profiling and proteomics on G1/S epimastigote cultures synchronized with hydroxyurea. We identified 1,784 translationally regulated genes (change > 2, false-discovery rate [FDR] < 0.05) and 653 differentially expressed proteins (change > 1.5, FDR < 0.05), respectively. A major translational remodeling accompanied by an extensive proteome change is found, while the transcriptome remains largely unperturbed at the replicative entrance of the cell cycle. The differentially expressed genes comprise specific cell cycle processes, confirming previous findings while revealing candidate cell cycle regulators that undergo previously unnoticed translational regulation. Clusters of genes showing a coordinated regulation at translation and protein abundance share related biological functions such as cytoskeleton organization and mitochondrial metabolism; thus, they may represent posttranscriptional regulons. The translatome and proteome of the coregulated clusters change in both coupled and uncoupled directions, suggesting that complex cross talk between the two processes is required to achieve adequate protein levels of different regulons. This is the first simultaneous assessment of the transcriptome, translatome, and proteome of trypanosomatids, which represent a paradigm for the absence of transcriptional control. The findings suggest that gene expression chronology along the T. cruzi cell cycle is controlled mainly by translatome and proteome changes coordinated using different mechanisms for specific gene groups.
dc.format.extent.es.fl_str_mv 21 h
dc.format.mimetype.es.fl_str_mv application/pdf
dc.identifier.citation.es.fl_str_mv Chávez, S, Urbaniak, M, Benz, C [y otros autores] "Extensive translational regulation through the proliferative transition of Trypanosoma cruzi revealed by Multi-Omics". mSphere. [en línea] 2021, 6(5): e00366-21. 21 h. DOI: 10.1128/mSphere.00366-21.
dc.identifier.doi.none.fl_str_mv 10.1128/mSphere.00366-21
dc.identifier.issn.none.fl_str_mv 2379-5042
dc.identifier.uri.none.fl_str_mv https://hdl.handle.net/20.500.12008/34955
dc.language.iso.none.fl_str_mv en
eng
dc.publisher.es.fl_str_mv American Society for Microbiology
dc.relation.ispartof.es.fl_str_mv mSphere, 2021, 6(5): e00366-21.
dc.rights.license.none.fl_str_mv Licencia Creative Commons Atribución (CC - By 4.0)
dc.rights.none.fl_str_mv info:eu-repo/semantics/openAccess
dc.source.none.fl_str_mv reponame:COLIBRI
instname:Universidad de la República
instacron:Universidad de la República
dc.subject.es.fl_str_mv Chagas’ disease
Trypanosoma
Trypanosoma cruzi
Cell cycle
Cell proliferation
Genomics
Mass spectrometry
Posttranscription
Proteomics
Regulon
Ribosome profiling
Translational control
dc.title.none.fl_str_mv Extensive translational regulation through the proliferative transition of Trypanosoma cruzi revealed by Multi-Omics
dc.type.es.fl_str_mv Artículo
dc.type.none.fl_str_mv info:eu-repo/semantics/article
dc.type.version.none.fl_str_mv info:eu-repo/semantics/publishedVersion
description Trypanosoma cruzi is the etiological agent for Chagas disease, a neglected parasitic disease in Latin America. Gene transcription control governs the eukaryotic cell replication but is absent in trypanosomatids; thus, it must be replaced by posttranscriptional regulatory events. We investigated the entrance into the T. cruzi replicative cycle using ribosome profiling and proteomics on G1/S epimastigote cultures synchronized with hydroxyurea. We identified 1,784 translationally regulated genes (change > 2, false-discovery rate [FDR] < 0.05) and 653 differentially expressed proteins (change > 1.5, FDR < 0.05), respectively. A major translational remodeling accompanied by an extensive proteome change is found, while the transcriptome remains largely unperturbed at the replicative entrance of the cell cycle. The differentially expressed genes comprise specific cell cycle processes, confirming previous findings while revealing candidate cell cycle regulators that undergo previously unnoticed translational regulation. Clusters of genes showing a coordinated regulation at translation and protein abundance share related biological functions such as cytoskeleton organization and mitochondrial metabolism; thus, they may represent posttranscriptional regulons. The translatome and proteome of the coregulated clusters change in both coupled and uncoupled directions, suggesting that complex cross talk between the two processes is required to achieve adequate protein levels of different regulons. This is the first simultaneous assessment of the transcriptome, translatome, and proteome of trypanosomatids, which represent a paradigm for the absence of transcriptional control. The findings suggest that gene expression chronology along the T. cruzi cell cycle is controlled mainly by translatome and proteome changes coordinated using different mechanisms for specific gene groups.
eu_rights_str_mv openAccess
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identifier_str_mv Chávez, S, Urbaniak, M, Benz, C [y otros autores] "Extensive translational regulation through the proliferative transition of Trypanosoma cruzi revealed by Multi-Omics". mSphere. [en línea] 2021, 6(5): e00366-21. 21 h. DOI: 10.1128/mSphere.00366-21.
2379-5042
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instname_str Universidad de la República
language eng
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publishDate 2021
reponame_str COLIBRI
repository.mail.fl_str_mv mabel.seroubian@seciu.edu.uy
repository.name.fl_str_mv COLIBRI - Universidad de la República
repository_id_str 4771
rights_invalid_str_mv Licencia Creative Commons Atribución (CC - By 4.0)
spelling Chávez Santiago, Universidad de la República (Uruguay). Facultad de Ciencias. Instituto de Biología.Urbaniak Michael DBenz CorinnaSmircich Pablo, Universidad de la República (Uruguay). Facultad de Ciencias. Instituto de Biología.Garat Beatriz, Universidad de la República (Uruguay). Facultad de Ciencias. Instituto de Biología.Sotelo Silveira José Roberto, Universidad de la República (Uruguay). Facultad de Ciencias. Instituto de Biología.Duhagon María Ana, Universidad de la República (Uruguay). Facultad de Ciencias. Instituto de Biología.2022-11-22T11:56:51Z2022-11-22T11:56:51Z2021Chávez, S, Urbaniak, M, Benz, C [y otros autores] "Extensive translational regulation through the proliferative transition of Trypanosoma cruzi revealed by Multi-Omics". mSphere. [en línea] 2021, 6(5): e00366-21. 21 h. DOI: 10.1128/mSphere.00366-21.2379-5042https://hdl.handle.net/20.500.12008/3495510.1128/mSphere.00366-21Trypanosoma cruzi is the etiological agent for Chagas disease, a neglected parasitic disease in Latin America. Gene transcription control governs the eukaryotic cell replication but is absent in trypanosomatids; thus, it must be replaced by posttranscriptional regulatory events. We investigated the entrance into the T. cruzi replicative cycle using ribosome profiling and proteomics on G1/S epimastigote cultures synchronized with hydroxyurea. We identified 1,784 translationally regulated genes (change > 2, false-discovery rate [FDR] < 0.05) and 653 differentially expressed proteins (change > 1.5, FDR < 0.05), respectively. A major translational remodeling accompanied by an extensive proteome change is found, while the transcriptome remains largely unperturbed at the replicative entrance of the cell cycle. The differentially expressed genes comprise specific cell cycle processes, confirming previous findings while revealing candidate cell cycle regulators that undergo previously unnoticed translational regulation. Clusters of genes showing a coordinated regulation at translation and protein abundance share related biological functions such as cytoskeleton organization and mitochondrial metabolism; thus, they may represent posttranscriptional regulons. The translatome and proteome of the coregulated clusters change in both coupled and uncoupled directions, suggesting that complex cross talk between the two processes is required to achieve adequate protein levels of different regulons. This is the first simultaneous assessment of the transcriptome, translatome, and proteome of trypanosomatids, which represent a paradigm for the absence of transcriptional control. The findings suggest that gene expression chronology along the T. cruzi cell cycle is controlled mainly by translatome and proteome changes coordinated using different mechanisms for specific gene groups.Submitted by Parodi Mónica (mparodi@fcien.edu.uy) on 2022-11-21T14:42:49Z No. of bitstreams: 2 license_rdf: 19875 bytes, checksum: 9fdbed07f52437945402c4e70fa4773e (MD5) 101128mSphere0036621.pdf: 2849253 bytes, checksum: caf1eb2cbb15bc5722e5b498b10d192c (MD5)Approved for entry into archive by Faget Cecilia (lfaget@fcien.edu.uy) on 2022-11-21T18:27:24Z (GMT) No. of bitstreams: 2 license_rdf: 19875 bytes, checksum: 9fdbed07f52437945402c4e70fa4773e (MD5) 101128mSphere0036621.pdf: 2849253 bytes, checksum: caf1eb2cbb15bc5722e5b498b10d192c (MD5)Made available in DSpace by Luna Fabiana (fabiana.luna@seciu.edu.uy) on 2022-11-22T11:56:51Z (GMT). No. of bitstreams: 2 license_rdf: 19875 bytes, checksum: 9fdbed07f52437945402c4e70fa4773e (MD5) 101128mSphere0036621.pdf: 2849253 bytes, checksum: caf1eb2cbb15bc5722e5b498b10d192c (MD5) Previous issue date: 202121 happlication/pdfenengAmerican Society for MicrobiologymSphere, 2021, 6(5): e00366-21.Las obras depositadas en el Repositorio se rigen por la Ordenanza de los Derechos de la Propiedad Intelectual de la Universidad de la República.(Res. Nº 91 de C.D.C. de 8/III/1994 – D.O. 7/IV/1994) y por la Ordenanza del Repositorio Abierto de la Universidad de la República (Res. Nº 16 de C.D.C. de 07/10/2014)info:eu-repo/semantics/openAccessLicencia Creative Commons Atribución (CC - By 4.0)Chagas’ diseaseTrypanosomaTrypanosoma cruziCell cycleCell proliferationGenomicsMass spectrometryPosttranscriptionProteomicsRegulonRibosome profilingTranslational controlExtensive translational regulation through the proliferative transition of Trypanosoma cruzi revealed by Multi-OmicsArtículoinfo:eu-repo/semantics/articleinfo:eu-repo/semantics/publishedVersionreponame:COLIBRIinstname:Universidad de la Repúblicainstacron:Universidad de la RepúblicaChávez, SantiagoUrbaniak, Michael DBenz, CorinnaSmircich, PabloGarat, BeatrizSotelo Silveira, José RobertoDuhagon, María AnaLICENSElicense.txtlicense.txttext/plain; charset=utf-84267http://localhost:8080/xmlui/bitstream/20.500.12008/34955/5/license.txt6429389a7df7277b72b7924fdc7d47a9MD55CC-LICENSElicense_urllicense_urltext/plain; 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- Universidad de la Repúblicafalse
spellingShingle Extensive translational regulation through the proliferative transition of Trypanosoma cruzi revealed by Multi-Omics
Chávez, Santiago
Chagas’ disease
Trypanosoma
Trypanosoma cruzi
Cell cycle
Cell proliferation
Genomics
Mass spectrometry
Posttranscription
Proteomics
Regulon
Ribosome profiling
Translational control
status_str publishedVersion
title Extensive translational regulation through the proliferative transition of Trypanosoma cruzi revealed by Multi-Omics
title_full Extensive translational regulation through the proliferative transition of Trypanosoma cruzi revealed by Multi-Omics
title_fullStr Extensive translational regulation through the proliferative transition of Trypanosoma cruzi revealed by Multi-Omics
title_full_unstemmed Extensive translational regulation through the proliferative transition of Trypanosoma cruzi revealed by Multi-Omics
title_short Extensive translational regulation through the proliferative transition of Trypanosoma cruzi revealed by Multi-Omics
title_sort Extensive translational regulation through the proliferative transition of Trypanosoma cruzi revealed by Multi-Omics
topic Chagas’ disease
Trypanosoma
Trypanosoma cruzi
Cell cycle
Cell proliferation
Genomics
Mass spectrometry
Posttranscription
Proteomics
Regulon
Ribosome profiling
Translational control
url https://hdl.handle.net/20.500.12008/34955