Pedro H. Oliveira

Lab Head / Research Director
73 %
Libre accès
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Documents
Affiliations actuelles
  • Genoscope - Centre national de séquençage [Evry] (GENOSCOPE)
  • Génomique métabolique (UMR 8030)
  • Université Paris-Saclay
Identifiants chercheurs
Contact

Compétences

Genomics Computational Biology Multiscale Biology Biotechnology Epigenetics

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Publications

Straight from the Horse’s Mouth: Timing and Zoogeography of Domesticated Horse Arrivals in Mongolia and China

William Honeychurch , Rong Fan , Leland Rogers , Mark E. Hall , Chunag Amartuvshin et al.

Journal of Archaeological Method and Theory, 2025, 32 (1), pp.27. ⟨10.1007/s10816-024-09691-4⟩

Article dans une revue cea-05047023v1
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Bacillus paralicheniformis strain H12 from saline soil for the management of gray mold in cherry tomatoes

Amina Ghozlani , Fatma Driss , Duong Huy Nguyen , Hanane Boumerdassi , Fairouz El Aichar et al.

World Journal of Microbiology and Biotechnology, 2025, 41, pp.386. ⟨10.1007/s11274-025-04629-8⟩

Article dans une revue hal-05398882v1

ERGA-BGE reference genome of Eunicella cavolini, an IUCN Near Threatened Gorgonian of the Mediterranean Sea

Didier Aurelle , Dorian Guillemain , Frédéric Zuberer , Denys Malengros , Astrid Böhne et al.

Open Research Europe, 2025, 5, pp.323. ⟨10.12688/openreseurope.21514.1⟩

Article dans une revue hal-05505155v1
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Sustainability insights from Late Pleistocene climate change and horse migration patterns

Yvette Running Horse Collin , Clément Bataille , Samantha Hershauer , Mila Hunska Tašunke Icu , Akil Nujipi et al.

Science, 2025, 388 (6748), pp.748-755. ⟨10.1126/science.adr2355⟩

Article dans une revue hal-05343796v1

Sustainability insights from Late Pleistocene climate change and horse migration patterns

Yvette Running Horse Collin , Clément Bataille , Samantha Hershauer , Mila Hunska Tašunke Icu , Akil Nujipi et al.

Science, 2025, 388 (6748), pp.748-755. ⟨10.1126/science.adr2355⟩

Article dans une revue hal-05216355v1
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Complete genome sequence of Nitratireductor aquimarinus strain MNA2.1 isolated from sediments of the Berre lagoon, France

Nathalie Pradel , Stéphanie Fouteau , Manon Bartoli , Zoé Rouy , Corinne Cruaud et al.

Microbiology Resource Announcements, 2025, 14, ⟨10.1128/mra.00259-25⟩

Article dans une revue hal-05394740v1

ERGA-BGE genome of Xanthium orientale subsp. italicum (Moretti) Greuter. A plant of American origin, now widespread and, in some cases, invasive in Europe

Salvatore Tomasello , Eleonora Manzo , Rita Monteiro , Astrid Böhne , Thomas Marcussen et al.

Open Research Europe, 2025, 5, pp.367. ⟨10.12688/openreseurope.21891.1⟩

Article dans une revue hal-05464158v1
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Complete genome sequence of $Hyphomicrobium/ sp$ . strain 1Nfss2.1 from marine sediments of the Berre lagoon, France

Manon Bartoli , Nathalie Pradel , Stéphanie Fouteau , Zoé Rouy , Corinne Cruaud et al.

Microbiology Resource Announcements, 2025, ⟨10.1128/mra.00254-25⟩

Article dans une revue cea-05163110v1

ERGA-BGE reference genome of Lewinskya acuminata, a common epiphytic Mediterranean moss with disjunct populations in California and Ethiopia

Pablo Aguado-Ramsay , Francisco Lara , Isabel Draper , Maria Conejero , Astrid Böhne et al.

Open Research Europe, 2025, 5, pp.357. ⟨10.12688/openreseurope.21670.1⟩

Article dans une revue cea-05483813v1
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Genome-wide population affinities and signatures of adaptation in hydruntines, sussemiones and Asian wild asses

Jianfei Pan , Xuexue Liu , Mateusz Baca , Laure Calvière-Tonasso , Stéphanie Schiavinato et al.

Molecular Ecology, 2024, 33 (19), pp.e17527. ⟨10.1111/mec.17527⟩

Article dans une revue hal-04729863v1

High altitude horse use and early horse transport in eastern Eurasia: New evidence from melting ice

William Timothy Treal Taylor , Isaac Hart , Tumurbaatar Tuvshinjargal , Jamsranjav Bayarsaikhan , Nicholas Jarman et al.

The Holocene, 2024, 34 (9), pp.1204-1213. ⟨10.1177/09596836241254484⟩

Article dans une revue hal-04780801v1
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$Tepidibacter\ aestuarii$ sp. nov., isolated from the Bach Dang Estuary, Haiphong, Vietnam

Nathalie Pradel , Sandrine Chifflet , Angelina Beavogui , Manon Bartoli , Thuoc Chu Van et al.

International Journal of Systematic and Evolutionary Microbiology, 2024, 74 (1), ⟨10.1099/ijsem.0.006237⟩

Article dans une revue cea-04610770v1
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Diversity of the Pacific Ocean coral reef microbiome

Pierre Galand , Hans-Joachim Ruscheweyh , Guillem Salazar , Corentin Hochart , Nicolas Henry et al.

Nature Communications, 2023, 14 (1), pp.3039. ⟨10.1038/s41467-023-38500-x⟩

Article dans une revue hal-04176291v1
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The defensome of complex bacterial communities

Angelina Beavogui , Auriane Lacroix , Nicolas Wiart , Julie Poulain , Tom O Delmont et al.

Nature Communications, 2023, 15, pp.2146. ⟨10.1101/2023.08.12.553040⟩

Article dans une revue hal-04406189v2
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Integrative omics framework for characterization of coral reef ecosystems from the Tara Pacific expedition

Caroline Belser , Julie Poulain , Karine Labadie , Frederick Gavory , Adriana Alberti et al.

Scientific Data , 2023, 10 (1), pp.326. ⟨10.1038/s41597-023-02204-0⟩

Article dans une revue hal-04176297v3
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Complete Genome Sequence of Tepidibacter sp. Strain 8C15b, Isolated from Bank Sediments of Haiphong Bay, Vietnam

Stéphanie Fouteau , Vuong Bui Van , Zoé Rouy , Mélanie Beraud , Corinne Cruaud et al.

Microbiology Resource Announcements, 2022, 11 (7), ⟨10.1128/mra.00132-22⟩

Article dans une revue hal-03778996v1
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Conserved DNA Methyltransferases: A Window into Fundamental Mechanisms of Epigenetic Regulation in Bacteria

Pedro H. Oliveira , Gang Fang

Trends in Microbiology, 2021, 29 (1), pp.28-40. ⟨10.1016/j.tim.2020.04.007⟩

Article dans une revue hal-04325259v1
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Bacterial epigenomics: coming of age

Pedro H. Oliveira

mSystems, 2021, 6 (4), pp.e00747-21. ⟨10.1128/mSystems.00747-21⟩

Article dans une revue hal-04288989v1

Gnaiger E and the MitoEAGLE task group. Mitochondrial physiology

Erich Gnaiger , Eleonor Aasander Frostner , Norwahidah Abdul Karim , Engy Ali Abdel-Rahman , Nada Abumrad et al.

Bioenergetics Communications , 2020, ⟨10.26124/bec:2020-0001.v1⟩

Article dans une revue hal-04614093v1
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Epigenomic characterization of Clostridioides difficile finds a conserved DNA methyltransferase that mediates sporulation and pathogenesis

Pedro Oliveira , John Ribis , Elizabeth Garrett , Dominika Trzilova , Alex Kim et al.

Nature Microbiology, 2020, 5 (1), pp.166-180. ⟨10.1038/s41564-019-0613-4⟩

Article dans une revue hal-02988691v1
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The chromosomal organization of horizontal gene transfer in bacteria

Pedro H. Oliveira , Marie Touchon , Jean Cury , Eduardo P C Rocha

Nature Communications, 2017, 8 (1), pp.841. ⟨10.1038/s41467-017-00808-w⟩

Article dans une revue hal-04325283v1
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Regulation of genetic flux between bacteria by restriction–modification systems

Pedro H. Oliveira , Marie Touchon , Eduardo P. C. Rocha

Proceedings of the National Academy of Sciences of the United States of America, 2016, 113 (20), pp.5658 - 5663. ⟨10.1073/pnas.1603257113⟩

Article dans une revue pasteur-01374969v1
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The interplay of restriction-modification systems with mobile genetic elements and their prokaryotic hosts

P. H. Oliveira , M. Touchon , E. P. C. Rocha

Nucleic Acids Research, 2014, 42 (16), pp.10618 - 10631. ⟨10.1093/nar/gku734⟩

Article dans une revue pasteur-01374960v1

Concise Review: Genomic Instability in Human Stem Cells: Current Status and Future Challenges

Pedro H Oliveira , Cláudia Lobato Silva , Joaquim M S Cabral

STEM CELLS, 2014, 32, pp.2824 - 2832. ⟨10.1002/stem.1796⟩

Article dans une revue hal-04406078v1

Marker-free plasmids for biotechnological applications – implications and perspectives

Pedro Oliveira , Juergen Mairhofer

Trends in Biotechnology, 2013, 31 (9), pp.539-547. ⟨10.1016/j.tibtech.2013.06.001⟩

Article dans une revue istex hal-04328020v1
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Impact of hypoxia and long-term cultivation on the genomic stability and mitochondrial performance of ex vivo expanded human stem/stromal cells

Pedro H Oliveira , Joana S Boura , Manuel M Abecasis , Jeffrey M Gimble , Cláudia Lobato da Silva et al.

Stem Cell Research, 2012, 9 (3), pp.225-236. ⟨10.1016/j.scr.2012.07.001⟩

Article dans une revue hal-04328032v1

Analysis of DNA repeats in bacterial plasmids reveals the potential for recurrent instability events

Pedro H Oliveira , Kristala Jones Prather , Duarte M F Prazeres , Gabriel A Monteiro

Applied Microbiology and Biotechnology, 2010, 87, pp.2157 - 2167. ⟨10.1007/s00253-010-2671-7⟩

Article dans une revue hal-04406004v1

Structural instability of plasmid biopharmaceuticals: challenges and implications

Pedro Oliveira , Kristala Jones Prather , Duarte M.F. Prazeres , Gabriel A Monteiro

Trends in Biotechnology, 2009, 27 (9), pp.503-511. ⟨10.1016/j.tibtech.2009.06.004⟩

Article dans une revue istex hal-04325314v1

Recombination frequency in plasmid DNA containing direct repeats—predictive correlation with repeat and intervening sequence length

Pedro H Oliveira , Francisco Lemos , Gabriel A Monteiro , Duarte M F Prazeres

Plasmid, 2008, 60, pp.159 - 165. ⟨10.1016/j.plasmid.2008.06.004⟩

Article dans une revue istex hal-04406241v1
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European mink (Mustela lutreola) reference genome and population genomics

Alice Mouton , Christine Fournier-Chambrillon , Pascal Fournier , Jakub Skorupski , Przemysław Śmietana et al.

34th European Mustelid Colloquium, Sep 2022, Online conference, France

Communication dans un congrès hal-03787589v1

The anti-phage defensome of ocean, soil, and human gut microbiomes

Pedro H. Oliveira

Microbiome Meeting, Cold Spring Harbor, Oct 2022, New York, NY, United States

Communication dans un congrès hal-04406266v1

Conserved DNA methyltransferases as keystones of epigenetic regulation in Bacteria

Pedro H. Oliveira

26th Boston Bacterial Meeting, Jul 2020, Boston (MA), United States

Communication dans un congrès hal-04406307v1