Literature DB >> 20473289

Analysis of a genome-wide set of gene deletions in the fission yeast Schizosaccharomyces pombe.

Dong-Uk Kim1, Jacqueline Hayles2, Dongsup Kim3, Valerie Wood2,4, Han-Oh Park5, Misun Won1, Hyang-Sook Yoo1, Trevor Duhig2, Miyoung Nam1, Georgia Palmer2, Sangjo Han3, Linda Jeffery2, Seung-Tae Baek1, Hyemi Lee1, Young Sam Shim1, Minho Lee3, Lila Kim1, Kyung-Sun Heo1, Eun Joo Noh1, Ah-Reum Lee1, Young-Joo Jang1, Kyung-Sook Chung1, Shin-Jung Choi1, Jo-Young Park1, Youngwoo Park1, Hwan Mook Kim6, Song-Kyu Park6, Hae-Joon Park5, Eun-Jung Kang5, Hyong Bai Kim7, Hyun-Sam Kang8, Hee-Moon Park9, Kyunghoon Kim10, Kiwon Song11, Kyung Bin Song12, Paul Nurse2,13, Kwang-Lae Hoe1,6.   

Abstract

We report the construction and analysis of 4,836 heterozygous diploid deletion mutants covering 98.4% of the fission yeast genome providing a tool for studying eukaryotic biology. Comprehensive gene dispensability comparisons with budding yeast--the only other eukaryote for which a comprehensive knockout library exists--revealed that 83% of single-copy orthologs in the two yeasts had conserved dispensability. Gene dispensability differed for certain pathways between the two yeasts, including mitochondrial translation and cell cycle checkpoint control. We show that fission yeast has more essential genes than budding yeast and that essential genes are more likely than nonessential genes to be present in a single copy, to be broadly conserved and to contain introns. Growth fitness analyses determined sets of haploinsufficient and haploproficient genes for fission yeast, and comparisons with budding yeast identified specific ribosomal proteins and RNA polymerase subunits, which may act more generally to regulate eukaryotic cell growth.

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Year:  2010        PMID: 20473289      PMCID: PMC3962850          DOI: 10.1038/nbt.1628

Source DB:  PubMed          Journal:  Nat Biotechnol        ISSN: 1087-0156            Impact factor:   54.908


  42 in total

1.  A simple and efficient procedure for transformation of yeasts.

Authors:  R Elble
Journal:  Biotechniques       Date:  1992-07       Impact factor: 1.993

2.  A unique and universal molecular barcode array.

Authors:  Sarah E Pierce; Eula L Fung; Daniel F Jaramillo; Angela M Chu; Ronald W Davis; Corey Nislow; Guri Giaever
Journal:  Nat Methods       Date:  2006-08       Impact factor: 28.547

3.  Genome-scale RNAi profiling of cell division in human tissue culture cells.

Authors:  Ralf Kittler; Laurence Pelletier; Anne-Kristine Heninger; Mikolaj Slabicki; Mirko Theis; Lukasz Miroslaw; Ina Poser; Steffen Lawo; Hannes Grabner; Karol Kozak; Jan Wagner; Vineeth Surendranath; Constance Richter; Wayne Bowen; Aimee L Jackson; Bianca Habermann; Anthony A Hyman; Frank Buchholz
Journal:  Nat Cell Biol       Date:  2007-11-11       Impact factor: 28.824

4.  A large-scale screen in S. pombe identifies seven novel genes required for critical meiotic events.

Authors:  Cristina Martín-Castellanos; Miguel Blanco; Ana E Rozalén; Livia Pérez-Hidalgo; Ana I García; Francisco Conde; Juan Mata; Chad Ellermeier; Luther Davis; Pedro San-Segundo; Gerald R Smith; Sergio Moreno
Journal:  Curr Biol       Date:  2005-11-22       Impact factor: 10.834

5.  DNA damage induces Cdt1 proteolysis in fission yeast through a pathway dependent on Cdt2 and Ddb1.

Authors:  Emma Ralph; Erik Boye; Stephen E Kearsey
Journal:  EMBO Rep       Date:  2006-10-13       Impact factor: 8.807

6.  Saccharomyces cerevisiae S288C genome annotation: a working hypothesis.

Authors:  Dianna G Fisk; Catherine A Ball; Kara Dolinski; Stacia R Engel; Eurie L Hong; Laurie Issel-Tarver; Katja Schwartz; Anand Sethuraman; David Botstein; J Michael Cherry
Journal:  Yeast       Date:  2006-09       Impact factor: 3.239

7.  The mutation of a novel Saccharomyces cerevisiae SRL4 gene rescues the lethality of rad53 and lcd1 mutations by modulating dNTP levels.

Authors:  Do-Hee Choi; Young-Mi Oh; Sung-Hun Kwon; Sung-Ho Bae
Journal:  J Microbiol       Date:  2008-02       Impact factor: 3.422

Review 8.  Possible mechanisms of disease development in tuberous sclerosis.

Authors:  Jaroslaw Jozwiak; Sergiusz Jozwiak; Pawel Wlodarski
Journal:  Lancet Oncol       Date:  2008-01       Impact factor: 41.316

9.  A genome-wide transgenic RNAi library for conditional gene inactivation in Drosophila.

Authors:  Georg Dietzl; Doris Chen; Frank Schnorrer; Kuan-Chung Su; Yulia Barinova; Michaela Fellner; Beate Gasser; Kaolin Kinsey; Silvia Oppel; Susanne Scheiblauer; Africa Couto; Vincent Marra; Krystyna Keleman; Barry J Dickson
Journal:  Nature       Date:  2007-07-12       Impact factor: 49.962

10.  Plasticity of genetic interactions in metabolic networks of yeast.

Authors:  Richard Harrison; Balázs Papp; Csaba Pál; Stephen G Oliver; Daniela Delneri
Journal:  Proc Natl Acad Sci U S A       Date:  2007-02-06       Impact factor: 11.205

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  368 in total

1.  Genetic screening for regulators of Prz1, a transcriptional factor acting downstream of calcineurin in fission yeast.

Authors:  Atsushi Koike; Toshiaki Kato; Reiko Sugiura; Yan Ma; Yuki Tabata; Koji Ohmoto; Susie O Sio; Takayoshi Kuno
Journal:  J Biol Chem       Date:  2012-04-11       Impact factor: 5.157

2.  Shaking up genome engineering.

Authors:  K A Tipton; John Dueber
Journal:  Nat Biotechnol       Date:  2010-08       Impact factor: 54.908

3.  MCM-BP regulates unloading of the MCM2-7 helicase in late S phase.

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Journal:  Genes Dev       Date:  2010-12-31       Impact factor: 11.361

4.  Cross-species Functionome analysis identifies proteins associated with DNA repair, translation and aerobic respiration as conserved modulators of UV-toxicity.

Authors:  John P Rooney; Ashish Patil; Fraulin Joseph; Lauren Endres; Ulrike Begley; Maria R Zappala; Richard P Cunningham; Thomas J Begley
Journal:  Genomics       Date:  2010-12-30       Impact factor: 5.736

5.  Phenotypic landscape of a bacterial cell.

Authors:  Robert J Nichols; Saunak Sen; Yoe Jin Choo; Pedro Beltrao; Matylda Zietek; Rachna Chaba; Sueyoung Lee; Krystyna M Kazmierczak; Karis J Lee; Angela Wong; Michael Shales; Susan Lovett; Malcolm E Winkler; Nevan J Krogan; Athanasios Typas; Carol A Gross
Journal:  Cell       Date:  2010-12-23       Impact factor: 41.582

6.  Transcriptome-wide Interrogation of the Functional Intronome by Spliceosome Profiling.

Authors:  Weijun Chen; Jill Moore; Hakan Ozadam; Hennady P Shulha; Nicholas Rhind; Zhiping Weng; Melissa J Moore
Journal:  Cell       Date:  2018-05-03       Impact factor: 41.582

7.  Mtr4-like protein coordinates nuclear RNA processing for heterochromatin assembly and for telomere maintenance.

Authors:  Nathan N Lee; Venkata R Chalamcharla; Francisca Reyes-Turcu; Sameet Mehta; Martin Zofall; Vanivilasini Balachandran; Jothy Dhakshnamoorthy; Nitika Taneja; Soichiro Yamanaka; Ming Zhou; Shiv I S Grewal
Journal:  Cell       Date:  2013-11-07       Impact factor: 41.582

8.  Fission yeast Ctf1, a cleavage and polyadenylation factor subunit is required for the maintenance of genomic integrity.

Authors:  Amit Sonkar; Sachin Gaurav; Shakil Ahmed
Journal:  Mol Genet Genomics       Date:  2017-05-31       Impact factor: 3.291

9.  Clades of γ-glutamyltransferases (GGTs) in the ascomycota and heterologous expression of Colletotrichum graminicola CgGGT1, a member of the pezizomycotina-only GGT clade.

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Journal:  J Microbiol       Date:  2013-03-02       Impact factor: 3.422

Review 10.  Genetic Network Complexity Shapes Background-Dependent Phenotypic Expression.

Authors:  Jing Hou; Jolanda van Leeuwen; Brenda J Andrews; Charles Boone
Journal:  Trends Genet       Date:  2018-06-11       Impact factor: 11.639

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