EukProt: A database of genome-scale predicted proteins across the diversity of eukaryotes

Authors: Richter, Daniel J., Berney, Cédric, Strassert, Jürgen F. H., Poh, Yu-Ping, Herman, Emily K., Muñoz-Gómez, Sergio A., Wideman, Jeremy G., Burki, Fabien, de Vargas, Colomban

Source: Peer Community Journal, Vol 2, Iss , Pp - (2022)

Subject Terms: Archaeology, CC1-960, Science

File Description: electronic resource

Relation: https://peercommunityjournal.org/articles/10.24072/pcjournal.173/; https://doaj.org/toc/2804-3871

Access URL: https://doaj.org/article/0aaaccdebcfb402f82b983a426590c9f

The protist cultural renaissance

Authors: del Campo, Javier, Carlos-Oliveira, Maria, Čepička, Ivan, Hehenberger, Elisabeth, Horák, Aleš, Karnkowska, Anna, Kolisko, Martin, Lara, Enrique, Lukeš, Julius, Pánek, Tomáš, Piwosz, Kasia, Richter, Daniel J., Škaloud, Pavel, Sutak, Robert, Tachezy, Jan, Hampl, Vladimír

Source: In Trends in Microbiology February 2024 32(2):128-131

Reconstructing the last common ancestor of all eukaryotes.

Authors: Richards, Thomas A.¹, thomas.richards@biology.ox.ac.uk, Eme, Laura^2,3, laura.eme@universite-paris-saclay.fr, Archibald, John M.⁴, jmarchib@dal.ca, Leonard, Guy¹, Coelho, Susana M.⁵, de Mendoza, Alex⁶, Dessimoz, Christophe^7,8, Dolezal, Pavel⁹, Fritz-Laylin, Lillian K.¹⁰, Gabaldón, Toni^11,12,13,14, Hampl, Vladimír⁹, Kops, Geert J. P. L.¹⁵, Leger, Michelle M.^16,17, Lopez-Garcia, Purificacion², McInerney, James O.¹⁸, Moreira, David², Muñoz-Gómez, Sergio A.¹⁹, Richter, Daniel J.¹⁶, Ruiz-Trillo, Iñaki^13,16, Santoro, Alyson E.²⁰

Source: PLoS Biology; 11/25/2024, Vol. 22 Issue 11, p1-24, 24p

Characterization of Allobodo yubaba sp. nov. and Novijibodo darinka gen. et sp. nov., cultivable free‐living species of the phylogenetically enigmatic kinetoplastid taxon Allobodonidae.

Authors: Packer, Julia A., Zavadska, Daryna, Weston, Elizabeth J., Eglit, Yana, Richter, Daniel J., Simpson, Alastair G. B.

Source: Journal of Eukaryotic Microbiology; Jan/Feb2025, Vol. 72 Issue 1, p1-14, 14p

The origin and evolution of cell-intrinsic antibacterial defenses in eukaryotes

Authors: Richter, Daniel J, Levin, Tera C

Source: In Current Opinion in Genetics & Development October 2019 58-59:111-122

Taxonomic composition, community structure and molecular novelty of microeukaryotes in a temperate oligomesotrophic lake as revealed by metabarcoding.

Authors: Mitsi, Konstantina¹ (AUTHOR) kcmitsi@gmail.com, Richter, Daniel J.¹ (AUTHOR), Arroyo, Alicia S.¹ (AUTHOR), López-Escardó, David² (AUTHOR), Antó, Meritxell¹ (AUTHOR), Oterino, Antonio Guillén³ (AUTHOR), Ruiz-Trillo, Iñaki^1,4 (AUTHOR)

Source: Scientific Reports. 2/22/2023, Vol. 13 Issue 1, p1-14. 14p.

Subject Terms: *MOLECULAR structure, *COMMUNITIES, *GENETIC barcoding, *MICROBIAL diversity, *HYPERVARIABLE regions, *FRESHWATER habitats, *ECOSYSTEMS

Comparison of Fine-Scale Recombination Rates in Humans and Chimpanzees

Authors: Winckler, Wendy, Myers, Simon R., Richter, Daniel J., Onofrio, Robert C., McDonald, Gavin J., Bontrop, Ronald E., Gabriel, Stacey B., Reich, David, Donnelly, Peter, Altshuler, David

Source: Science, 2005 Apr 01. 308(5718), 107-111.

Access URL: https://www.jstor.org/stable/3841405

A Large and Consistent Phylogenomic Dataset Supports Sponges as the Sister Group to All Other Animals

Authors: Simion, Paul, Philippe, Hervé, Baurain, Denis, Jager, Muriel, Richter, Daniel J., Di Franco, Arnaud, Roure, Béatrice, Satoh, Nori, Quéinnec, Éric, Ereskovsky, Alexander, Lapébie, Pascal, Corre, Erwan, Delsuc, Frédéric, King, Nicole, Wörheide, Gert, Manuel, Michaël

Source: In Current Biology 3 April 2017 27(7):958-967

Diverse patterns of correspondence between protist metabarcodes and protist metagenome-assembled genomes.

Authors: Zavadska, Daryna, Henry, Nicolas, Auladell, Adrià, Berney, Cédric, Richter, Daniel J.

Source: PLoS ONE; 6/6/2024, Vol. 19 Issue 6, p1-14, 14p

Subject Terms: GENOMES, DATA structures, METAGENOMICS, EUKARYOTES, GENETIC barcoding, STATISTICAL correlation

Dollo Parsimony Overestimates Ancestral Gene Content Reconstructions.

Authors: Gàlvez-Morante, Alex¹, alex.galvez@ibe.upf-csic.es, Guéguen, Laurent², Natsidis, Paschalis³, Telford, Maximilian J³, Richter, Daniel J¹, alex.galvez@ibe.upf-csic.es

Source: Genome Biology & Evolution; Apr2024, Vol. 16 Issue 4, p1-11, 11p

A six-gene phylogeny provides new insights into choanoflagellate evolution

Authors: Carr, Martin, Richter, Daniel J., Fozouni, Parinaz, Smith, Timothy J., Jeuck, Alexandra, Leadbeater, Barry S.C., Nitsche, Frank

Source: In Molecular Phylogenetics and Evolution February 2017 107:166-178

Seasonal Occurrence of Loricate Choanoflagellates in Danish Inner Waters

Authors: Thomsen, Helge Abildhauge, Nitsche, Frank, Richter, Daniel J.

Source: In Protist December 2016 167(6):622-638

Drug-Sensitive FGFR2 Mutations in Endometrial Carcinoma

Authors: Dutt, Amit, Salvesen, Helga B., Chen, Tzu-Hsiu, Ramos, Alex H., Onofrio, Robert C., Hatton, Charlie, Nicoletti, Richard, Winckler, Wendy, Grewal, Rupinder, Hanna, Megan, Wyhs, Nicolas, Ziaugra, Liuda, Richter, Daniel J., Trovik, Jone, Engelsen, Ingeborg B., Stefansson, Ingunn M., Fennell, Tim, Cibulskis, Kristian, Zody, Michael C., Akslen, Lars A., Gabriel, Stacey, Wong, Kwok-Kin, Sellers, William R., Meyerson, Matthew, Greulich, Heidi

Source: Proceedings of the National Academy of Sciences of the United States of America, 2008 Jun . 105(25), 8713-8717.

Access URL: https://www.jstor.org/stable/25462852

A global ocean atlas of eukaryotic genes

Authors: Carradec, Quentin, Pelletier, Eric, Da Silva, Corinne, Alberti, Adriana, Seeleuthner, Yoann, Blanc-Mathieu, Romain, Lima-Mendez, Gipsi, Rocha, Fabio, Tirichine, Leila, Labadie, Karine, Kirilovsky, Amos, Bertrand, Alexis, Engelen, Stefan, Madoui, Mohammed-Amin, Méheust, Raphaël, Poulain, Julie, Romac, Sarah, Richter, Daniel J., Yoshikawa, Genki, Dimier, Céline, Kandels-Lewis, Stefanie, Picheral, Marc, Searson, Sarah, Jaillon, Olivier, Aury, Jean-Marc, Karsenti, Eric, Sullivan, Matthew B., Sunagawa, Shinichi, Bork, Peer, Not, Fabrice, Hingamp, Pascal, Raes, Jeroen, Guidi, Lionel, Ogata, Hiroyuki, de Vargas, Colomban, Iudicone, Daniele, Bowler, Chris, Wincker, Patrick

Source: Nature communications. 9(1)

Availability: http://explore.bl.uk/primo_library/libweb/action/display.do?tabs=detailsTab&gathStatTab=true&ct=display&fn=search&doc=ETOCvdc_100129937896.0x000001&indx=1&recIds=ETOCvdc_100129937896.0x000001

Transcriptome sequencing and delimitation of sympatric Oscarella species (O. carmela and O. pearsei sp. nov) from California, USA.

Authors: Ereskovsky, Alexander V.^1,2, Richter, Daniel J.^3,4, Lavrov, Dennis V.⁵, Schippers, Klaske J.⁶, Nichols, Scott A.⁶ scott.nichols@du.edu

Source: PLoS ONE. 9/11/2017, Vol. 12 Issue 9, p1-25. 25p.

Subject Terms: *SPONGES (Invertebrates), *INVERTEBRATE morphology, *INVERTEBRATE phylogeny, *RIBOSOMAL DNA

Geographic Terms: CALIFORNIA

Genomic evidence for global ocean plankton biogeography shaped by large-scale current systems.

Authors: Richter, Daniel J.^1,2, Watteaux, Romain^3,4, Vannier, Thomas^5,6,7, Leconte, Jade^5,6, Frémont, Paul^5,6, Reygondeau, Gabriel^8,9, Maillet, Nicolas¹⁰, Henry, Nicolas^1,6, Benoit, Gaëtan¹¹, Da Silva, Ophélie^6,12, Delmont, Tom O.^5,6, Fernàndez-Guerra, Antonio^13,14,15, Suweis, Samir¹⁶, Narci, Romain¹⁷, Berney, Cédric^1,6, Eveillard, Damien^6,18, Gavory, Frederick⁵, Guidi, Lionel^6,12, Labadie, Karine¹⁹, Mahieu, Eric¹⁹

Source: eLife. 8/3/2022, p1-30. 30p.

Subject Terms: *BIOGEOGRAPHY, *PLANKTON, *COMMUNITIES, *OCEAN currents, *MICROORGANISMS

Two levels of protection for the B cell genome during somatic hypermutation.

Authors: Liu, Man, Duke, Jamie L., Richter, Daniel J.

Source: Nature; February 14 2008, Vol. 451, p841-845, 5p

Genetic evidence for complex speciation of humans and chimpanzees.

Authors: Patterson, Nick, Richter, Daniel J., Gnerre, Sante

Source: Nature; June 29 2006, Vol. 441, p1103-1108, 6p

Identification and Characterization of Genes Required for Compensatory Growth in Drosophila.

Authors: Gerhold, Abigail R.¹, Richter, Daniel J.¹, Yu, Albert S.¹, Hariharan, Iswar K.¹

Source: Genetics; Dec2011, Vol. 189 Issue 4, p1309-1326, 25p

Analysis of Chimpanzee History Based on Genome Sequence Alignments.

Authors: Caswell, Jennifer L., Mallick, Swapan, Richter, Daniel J.

Source: PLoS Genetics; April 2008, Vol. 4 Issue 4, p137-150, 14p