One high quality genome and two transcriptome datasets for new species of Mantamonas, a deep-branching eukaryote clade
Mantamonads were long considered to represent an “orphan” lineage in the tree of eukaryotes, likely branching near the most frequently assumed position for the root of eukaryotes. Recent phylogenomic analyses have placed them as part of the “CRuMs” supergroup, along with collodictyonids and rigifili...
| Autores: | , , , , |
|---|---|
| Tipo de recurso: | artículo |
| Fecha de publicación: | 2023 |
| País: | España |
| Institución: | Universitat Politècnica de Catalunya (UPC) |
| Repositorio: | UPCommons. Portal del coneixement obert de la UPC |
| Idioma: | inglés |
| OAI Identifier: | oai:upcommons.upc.edu:2117/404020 |
| Acceso en línea: | https://hdl.handle.net/2117/404020 https://dx.doi.org/10.1038/s41597-023-02488-2 |
| Access Level: | acceso abierto |
| Palabra clave: | Eukaryotic cell genetics Evolution Microbiology Genòmica Àrees temàtiques de la UPC::Informàtica::Aplicacions de la informàtica::Bioinformàtica |
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One high quality genome and two transcriptome datasets for new species of Mantamonas, a deep-branching eukaryote cladeBlaz, JazminGalindo, Luis JavierHeiss, Aaron A.Kaur, HarpreetTorruella, GuifreEukaryotic cell geneticsEvolutionMicrobiologyGenòmicaÀrees temàtiques de la UPC::Informàtica::Aplicacions de la informàtica::BioinformàticaMantamonads were long considered to represent an “orphan” lineage in the tree of eukaryotes, likely branching near the most frequently assumed position for the root of eukaryotes. Recent phylogenomic analyses have placed them as part of the “CRuMs” supergroup, along with collodictyonids and rigifilids. This supergroup appears to branch at the base of Amorphea, making it of special importance for understanding the deep evolutionary history of eukaryotes. However, the lack of representative species and complete genomic data associated with them has hampered the investigation of their biology and evolution. Here, we isolated and described two new species of mantamonads, Mantamonas vickermani sp. nov. and Mantamonas sphyraenae sp. nov., for each of which we generated transcriptomic sequence data, as well as a high-quality genome for the latter. The estimated size of the M. sphyraenae genome is 25 Mb; our de novo assembly appears to be highly contiguous and complete with 9,416 predicted protein-coding genes. This near-chromosome-scale genome assembly is the first described for the CRuMs supergroup.The authors thank Drs. J.Z. Xiang, D. Xu, and H. Shang at the Weill Cornell’s Genome Resources Core Facility for their assistance with Illumina sequencing. We also thank Dr. S. Goodwin in the NGS sequencing core at Cold Spring Harbor Laboratory for her help with PacBio sequencing, Drs. J.A. Burns and A.A. Pittis for their initial data analysis efforts and K. Lukacs for her help with maintaining the M. sphyraenae cultures. This work was funded by the Simons Foundation Grant awards to EK (SF-382790 & SF-876199). This project has received funding from the European Research Council (ERC) under the European Union’s Horizon 2020 research and innovation programme (ERC Starting Grant No 803151 to L.E., and ERC Advanced Grants No 322669 and 787904 to P.L.-G. and D.M., respectively). L.J.G. was funded by the Horizon 2020 research and innovation programme under the European Marie Skłodowska-Curie Individual Fellowship H2020-MSCA-IF-2020 (grant agreement no. 101022101 - FungEye). GT was supported by the 2019 BP 00208 Beatriu de Pinos-3 Postdoctoral Program (BP3; 801370). Work in the Dacks lab is supported by Discovery Grants from the Natural Sciences and Engineering Research Council of Canada (RES0043758, RES0046091).Peer Reviewed"Article signat per 17 autors/es: Jazmin Blaz, Luis Javier Galindo, Aaron A. Heiss, Harpreet Kaur, Guifré Torruella, Ashley Yang, L. Alexa Thompson, Alexander Filbert, Sally Warring, Apurva Narechania, Takashi Shiratori, Ken-ichiro Ishida, Joel B. Dacks, Purificación López-García, David Moreira, Eunsoo Kim & Laura Eme"Nature Research20232023-01-0120242024-03-08journal articlehttp://purl.org/coar/resource_type/c_6501VoRhttp://purl.org/coar/version/c_970fb48d4fbd8a85info:eu-repo/semantics/articleapplication/pdfhttps://hdl.handle.net/2117/404020https://dx.doi.org/10.1038/s41597-023-02488-2reponame:UPCommons. Portal del coneixement obert de la UPCinstname:Universitat Politècnica de Catalunya (UPC)Inglésengopen accesshttp://purl.org/coar/access_right/c_abf2Attribution 4.0 Internationalhttp://creativecommons.org/licenses/by/4.0/info:eu-repo/semantics/openAccessoai:upcommons.upc.edu:2117/4040202026-05-27T15:37:01Z |
| dc.title.none.fl_str_mv |
One high quality genome and two transcriptome datasets for new species of Mantamonas, a deep-branching eukaryote clade |
| title |
One high quality genome and two transcriptome datasets for new species of Mantamonas, a deep-branching eukaryote clade |
| spellingShingle |
One high quality genome and two transcriptome datasets for new species of Mantamonas, a deep-branching eukaryote clade Blaz, Jazmin Eukaryotic cell genetics Evolution Microbiology Genòmica Àrees temàtiques de la UPC::Informàtica::Aplicacions de la informàtica::Bioinformàtica |
| title_short |
One high quality genome and two transcriptome datasets for new species of Mantamonas, a deep-branching eukaryote clade |
| title_full |
One high quality genome and two transcriptome datasets for new species of Mantamonas, a deep-branching eukaryote clade |
| title_fullStr |
One high quality genome and two transcriptome datasets for new species of Mantamonas, a deep-branching eukaryote clade |
| title_full_unstemmed |
One high quality genome and two transcriptome datasets for new species of Mantamonas, a deep-branching eukaryote clade |
| title_sort |
One high quality genome and two transcriptome datasets for new species of Mantamonas, a deep-branching eukaryote clade |
| dc.creator.none.fl_str_mv |
Blaz, Jazmin Galindo, Luis Javier Heiss, Aaron A. Kaur, Harpreet Torruella, Guifre |
| author |
Blaz, Jazmin |
| author_facet |
Blaz, Jazmin Galindo, Luis Javier Heiss, Aaron A. Kaur, Harpreet Torruella, Guifre |
| author_role |
author |
| author2 |
Galindo, Luis Javier Heiss, Aaron A. Kaur, Harpreet Torruella, Guifre |
| author2_role |
author author author author |
| dc.subject.none.fl_str_mv |
Eukaryotic cell genetics Evolution Microbiology Genòmica Àrees temàtiques de la UPC::Informàtica::Aplicacions de la informàtica::Bioinformàtica |
| topic |
Eukaryotic cell genetics Evolution Microbiology Genòmica Àrees temàtiques de la UPC::Informàtica::Aplicacions de la informàtica::Bioinformàtica |
| description |
Mantamonads were long considered to represent an “orphan” lineage in the tree of eukaryotes, likely branching near the most frequently assumed position for the root of eukaryotes. Recent phylogenomic analyses have placed them as part of the “CRuMs” supergroup, along with collodictyonids and rigifilids. This supergroup appears to branch at the base of Amorphea, making it of special importance for understanding the deep evolutionary history of eukaryotes. However, the lack of representative species and complete genomic data associated with them has hampered the investigation of their biology and evolution. Here, we isolated and described two new species of mantamonads, Mantamonas vickermani sp. nov. and Mantamonas sphyraenae sp. nov., for each of which we generated transcriptomic sequence data, as well as a high-quality genome for the latter. The estimated size of the M. sphyraenae genome is 25 Mb; our de novo assembly appears to be highly contiguous and complete with 9,416 predicted protein-coding genes. This near-chromosome-scale genome assembly is the first described for the CRuMs supergroup. |
| publishDate |
2023 |
| dc.date.none.fl_str_mv |
2023 2023-01-01 2024 2024-03-08 |
| dc.type.none.fl_str_mv |
journal article http://purl.org/coar/resource_type/c_6501 VoR http://purl.org/coar/version/c_970fb48d4fbd8a85 |
| dc.type.openaire.fl_str_mv |
info:eu-repo/semantics/article |
| format |
article |
| dc.identifier.none.fl_str_mv |
https://hdl.handle.net/2117/404020 https://dx.doi.org/10.1038/s41597-023-02488-2 |
| url |
https://hdl.handle.net/2117/404020 https://dx.doi.org/10.1038/s41597-023-02488-2 |
| dc.language.none.fl_str_mv |
Inglés eng |
| language_invalid_str_mv |
Inglés |
| language |
eng |
| dc.rights.none.fl_str_mv |
open access http://purl.org/coar/access_right/c_abf2 Attribution 4.0 International http://creativecommons.org/licenses/by/4.0/ |
| dc.rights.openaire.fl_str_mv |
info:eu-repo/semantics/openAccess |
| rights_invalid_str_mv |
open access http://purl.org/coar/access_right/c_abf2 Attribution 4.0 International http://creativecommons.org/licenses/by/4.0/ |
| eu_rights_str_mv |
openAccess |
| dc.format.none.fl_str_mv |
application/pdf |
| dc.publisher.none.fl_str_mv |
Nature Research |
| publisher.none.fl_str_mv |
Nature Research |
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reponame:UPCommons. Portal del coneixement obert de la UPC instname:Universitat Politècnica de Catalunya (UPC) |
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Universitat Politècnica de Catalunya (UPC) |
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UPCommons. Portal del coneixement obert de la UPC |
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UPCommons. Portal del coneixement obert de la UPC |
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15,301603 |