S
Simon E. Prochnik
Researcher at United States Department of Energy
Publications - 18
Citations - 7653
Simon E. Prochnik is an academic researcher from United States Department of Energy. The author has contributed to research in topics: Gene & Genome. The author has an hindex of 17, co-authored 18 publications receiving 6771 citations.
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Journal ArticleDOI
The Chlamydomonas Genome Reveals the Evolution of Key Animal and Plant Functions
Sabeeha S. Merchant,Simon E. Prochnik,Olivier Vallon,Elizabeth H. Harris,Steven J. Karpowicz,George B. Witman,Astrid Terry,Asaf Salamov,Lillian K. Fritz-Laylin,Laurence Maréchal-Drouard,Wallace F. Marshall,Liang-Hu Qu,David R. Nelson,Anton A. Sanderfoot,Martin H. Spalding,Vladimir V. Kapitonov,Qinghu Ren,Patrick J. Ferris,Erika Lindquist,Harris Shapiro,Susan Lucas,Jane Grimwood,Jeremy Schmutz,Pierre Cardol,Pierre Cardol,Heriberto Cerutti,Guillaume Chanfreau,Chun-Long Chen,Valérie Cognat,Martin T. Croft,Rachel M. Dent,Susan K. Dutcher,Emilio Fernández,Hideya Fukuzawa,David González-Ballester,Diego González-Halphen,Armin Hallmann,Marc Hanikenne,Michael Hippler,William Inwood,Kamel Jabbari,Ming Kalanon,Richard Kuras,Paul A. Lefebvre,Stéphane D. Lemaire,Alexey V. Lobanov,Martin Lohr,Andrea L Manuell,Iris Meier,Laurens Mets,Maria Mittag,Telsa M. Mittelmeier,James V. Moroney,Jeffrey L. Moseley,Carolyn A. Napoli,Aurora M. Nedelcu,Krishna K. Niyogi,Sergey V. Novoselov,Ian T. Paulsen,Greg Pazour,Saul Purton,Jean-Philippe Ral,Diego Mauricio Riaño-Pachón,Wayne R. Riekhof,Linda A. Rymarquis,Michael Schroda,David B. Stern,James G. Umen,Robert D. Willows,Nedra F. Wilson,Sara L. Zimmer,Jens Allmer,Janneke Balk,Katerina Bisova,Chong-Jian Chen,Marek Eliáš,Karla C Gendler,Charles R. Hauser,Mary Rose Lamb,Heidi K. Ledford,Joanne C. Long,Jun Minagawa,M. Dudley Page,Junmin Pan,Wirulda Pootakham,Sanja Roje,Annkatrin Rose,Eric Stahlberg,Aimee M. Terauchi,Pinfen Yang,Steven G. Ball,Chris Bowler,Carol L. Dieckmann,Vadim N. Gladyshev,Pamela J. Green,Richard A. Jorgensen,Stephen P. Mayfield,Bernd Mueller-Roeber,Sathish Rajamani,Richard T. Sayre,Peter Brokstein,Inna Dubchak,David Goodstein,Leila Hornick,Y. Wayne Huang,Jinal Jhaveri,Yigong Luo,Diego Martinez,Wing Chi Abby Ngau,Bobby Otillar,Alexander Poliakov,Aaron Porter,Lukasz Szajkowski,Gregory Werner,Kemin Zhou,Igor V. Grigoriev,Daniel S. Rokhsar,Daniel S. Rokhsar,Arthur R. Grossman +118 more
TL;DR: Analyses of the Chlamydomonas genome advance the understanding of the ancestral eukaryotic cell, reveal previously unknown genes associated with photosynthetic and flagellar functions, and establish links between ciliopathy and the composition and function of flagella.
Journal ArticleDOI
The high-quality draft genome of peach ( Prunus persica ) identifies unique patterns of genetic diversity, domestication and genome evolution
Ignazio Verde,Albert G. Abbott,Simone Scalabrin,Sook Jung,Shengqiang Shu,Fabio Marroni,Tatyana Zhebentyayeva,Maria Teresa Dettori,Jane Grimwood,Federica Cattonaro,Andrea Zuccolo,Laura Rossini,Jerry Jenkins,Elisa Vendramin,Lee A. Meisel,Véronique Decroocq,Bryon Sosinski,Simon E. Prochnik,Therese Mitros,Alberto Policriti,Guido Cipriani,Luca Dondini,Stephen P. Ficklin,David Goodstein,Pengfei Xuan,Cristian Del Fabbro,Valeria Aramini,Dario Copetti,Susana González,David S. Horner,Rachele Falchi,Susan Lucas,Erica Mica,Jonathan Maldonado,Barbara Lazzari,Douglas G. Bielenberg,Raul Pirona,Mara Miculan,Abdelali Barakat,Raffaele Testolin,Alessandra Stella,Stefano Tartarini,Pietro Tonutti,Pere Arús,Ariel Orellana,Christina E. Wells,Dorrie Main,Giannina Vizzotto,Herman Silva,Francesco Salamini,Jeremy Schmutz,Michele Morgante,Daniel S. Rokhsar +52 more
TL;DR: Comparisons showed that peach has not undergone recent whole-genome duplication, and even though the ancestral triplicated blocks in peach are fragmentary compared to those in grape, all seven paleosets of paralogs from the putative paleoancestor are detectable.
Journal ArticleDOI
The dynamic genome of Hydra
Jarrod Chapman,Ewen F. Kirkness,Oleg Simakov,Oleg Simakov,Steven E. Hampson,Therese Mitros,Thomas Weinmaier,Thomas Rattei,Prakash G. Balasubramanian,Jon Borman,Dana A. Busam,Kathryn Disbennett,Cynthia Pfannkoch,Nadezhda Sumin,Granger G. Sutton,Lakshmi D. Viswanathan,Brian P. Walenz,David Goodstein,Uffe Hellsten,Takeshi Kawashima,Simon E. Prochnik,Nicholas H. Putnam,Nicholas H. Putnam,Nicholas H. Putnam,Shengquiang Shu,Bruce Blumberg,Catherine E. Dana,Lydia Gee,Dennis F. Kibler,Lee Law,Dirk Lindgens,Daniel E. Martínez,Jisong Peng,Philip A. Wigge,Philip A. Wigge,Bianca Bertulat,Corina Guder,Yukio Nakamura,Suat Özbek,Hiroshi Watanabe,Konstantin Khalturin,Georg Hemmrich,Andre Franke,René Augustin,Sebastian Fraune,Eisuke Hayakawa,Shiho Hayakawa,Mamiko Hirose,Jung Shan Hwang,Kazuho Ikeo,Chiemi Nishimiya-Fujisawa,Atshushi Ogura,Atshushi Ogura,Toshio Takahashi,Patrick R. H. Steinmetz,Xiaoming Zhang,Roland Aufschnaiter,Marie Kristin Eder,Anne Kathrin Gorny,Anne Kathrin Gorny,Willi Salvenmoser,Alysha M. Heimberg,Benjamin M. Wheeler,Kevin J. Peterson,Angelika Böttger,Patrick Tischler,Alexander Wolf,Takashi Gojobori,Karin A. Remington,Karin A. Remington,Robert L. Strausberg,J. Craig Venter,Ulrich Technau,Bert Hobmayer,Thomas C. G. Bosch,Thomas W. Holstein,Toshitaka Fujisawa,Hans R. Bode,Charles N. David,Daniel S. Rokhsar,Daniel S. Rokhsar,Robert Steele +81 more
TL;DR: Comparisons of the Hydra genome to the genomes of other animals shed light on the evolution of epithelia, contractile tissues, developmentally regulated transcription factors, the Spemann–Mangold organizer, pluripotency genes and the neuromuscular junction.
Journal ArticleDOI
Sequencing of diverse mandarin, pummelo and orange genomes reveals complex history of admixture during citrus domestication
G Albert Wu,Simon E. Prochnik,Jerry Jenkins,Jérôme Salse,Uffe Hellsten,Florent Murat,Xavier Perrier,Manuel Ruiz,Simone Scalabrin,Javier Terol,Marco Aurélio Takita,Karine Labadie,Julie Poulain,Arnaud Couloux,Kamel Jabbari,Federica Cattonaro,Cristian Del Fabbro,Sara Pinosio,Andrea Zuccolo,Jarrod Chapman,Jane Grimwood,Francisco R. Tadeo,Leandro H. Estornell,Juan V. Munoz-Sanz,Victoria Ibanez,Amparo Herrero-Ortega,Pablo Aleza,Julián Pérez-Pérez,Daniel Ramón,Dominique Brunel,François Luro,Chunxian Chen,William G. Farmerie,Brian Desany,Chinnappa D. Kodira,Mohammed Mohiuddin,Tim Harkins,Karin M. Fredrikson,Paul Burns,Alexandre Lomsadze,Mark Borodovsky,Giuseppe Reforgiato,Juliana Freitas-Astúa,Francis Quetier,Luis Navarro,Mikeal L. Roose,Patrick Wincker,Jeremy Schmutz,Michele Morgante,Marcos A. Machado,Manuel Talon,Olivier Jaillon,Patrick Ollitrault,Frederick G. Gmitter,Daniel S. Rokhsar +54 more
TL;DR: This work sequence and compare citrus genomes—a high-quality reference haploid clementine genome and mandarin, pummelo, sweet-orange and sour-orange genomes—and shows that cultivated types derive from two progenitor species.
Journal ArticleDOI
Genomic Analysis of Organismal Complexity in the Multicellular Green Alga Volvox carteri
Simon E. Prochnik,James G. Umen,Aurora M. Nedelcu,Armin Hallmann,Stephen M. Miller,Ichiro Nishii,Patrick J. Ferris,Alan Kuo,Therese Mitros,Lillian K. Fritz-Laylin,Uffe Hellsten,Jarrod Chapman,Oleg Simakov,Stefan A. Rensing,Astrid Terry,Jasmyn Pangilinan,Vladimir V. Kapitonov,Jerzy Jurka,Asaf Salamov,Harris Shapiro,Jeremy Schmutz,Jane Grimwood,Erika Lindquist,Susan Lucas,Igor V. Grigoriev,Rüdiger Schmitt,David L. Kirk,Daniel S. Rokhsar,Daniel S. Rokhsar +28 more
TL;DR: In this paper, the authors sequenced the 138-mega-base pair genome of V. carteri and compared its approximately 14,500 predicted proteins to those of its unicellular relative Chlamydomonas reinhardtii.