Literature DB >> 16365294

High-dimensional and large-scale phenotyping of yeast mutants.

Yoshikazu Ohya1, Jun Sese, Masashi Yukawa, Fumi Sano, Yoichiro Nakatani, Taro L Saito, Ayaka Saka, Tomoyuki Fukuda, Satoru Ishihara, Satomi Oka, Genjiro Suzuki, Machika Watanabe, Aiko Hirata, Miwaka Ohtani, Hiroshi Sawai, Nicolas Fraysse, Jean-Paul Latgé, Jean M François, Markus Aebi, Seiji Tanaka, Sachiko Muramatsu, Hiroyuki Araki, Kintake Sonoike, Satoru Nogami, Shinichi Morishita.   

Abstract

One of the most powerful techniques for attributing functions to genes in uni- and multicellular organisms is comprehensive analysis of mutant traits. In this study, systematic and quantitative analyses of mutant traits are achieved in the budding yeast Saccharomyces cerevisiae by investigating morphological phenotypes. Analysis of fluorescent microscopic images of triple-stained cells makes it possible to treat morphological variations as quantitative traits. Deletion of nearly half of the yeast genes not essential for growth affects these morphological traits. Similar morphological phenotypes are caused by deletions of functionally related genes, enabling a functional assignment of a locus to a specific cellular pathway. The high-dimensional phenotypic analysis of defined yeast mutant strains provides another step toward attributing gene function to all of the genes in the yeast genome.

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Year:  2005        PMID: 16365294      PMCID: PMC1316885          DOI: 10.1073/pnas.0509436102

Source DB:  PubMed          Journal:  Proc Natl Acad Sci U S A        ISSN: 0027-8424            Impact factor:   11.205


  28 in total

1.  Systematic identification of protein complexes in Saccharomyces cerevisiae by mass spectrometry.

Authors:  Yuen Ho; Albrecht Gruhler; Adrian Heilbut; Gary D Bader; Lynda Moore; Sally-Lin Adams; Anna Millar; Paul Taylor; Keiryn Bennett; Kelly Boutilier; Lingyun Yang; Cheryl Wolting; Ian Donaldson; Søren Schandorff; Juanita Shewnarane; Mai Vo; Joanne Taggart; Marilyn Goudreault; Brenda Muskat; Cris Alfarano; Danielle Dewar; Zhen Lin; Katerina Michalickova; Andrew R Willems; Holly Sassi; Peter A Nielsen; Karina J Rasmussen; Jens R Andersen; Lene E Johansen; Lykke H Hansen; Hans Jespersen; Alexandre Podtelejnikov; Eva Nielsen; Janne Crawford; Vibeke Poulsen; Birgitte D Sørensen; Jesper Matthiesen; Ronald C Hendrickson; Frank Gleeson; Tony Pawson; Michael F Moran; Daniel Durocher; Matthias Mann; Christopher W V Hogue; Daniel Figeys; Mike Tyers
Journal:  Nature       Date:  2002-01-10       Impact factor: 49.962

2.  MMS1 protects against replication-dependent DNA damage in Saccharomyces cerevisiae.

Authors:  T Hryciw; M Tang; T Fontanie; W Xiao
Journal:  Mol Genet Genomics       Date:  2001-11-29       Impact factor: 3.291

3.  Requirement for three novel protein complexes in the absence of the Sgs1 DNA helicase in Saccharomyces cerevisiae.

Authors:  J R Mullen; V Kaliraman; S S Ibrahim; S J Brill
Journal:  Genetics       Date:  2001-01       Impact factor: 4.562

4.  A genomic study of the bipolar bud site selection pattern in Saccharomyces cerevisiae.

Authors:  L Ni; M Snyder
Journal:  Mol Biol Cell       Date:  2001-07       Impact factor: 4.138

Review 5.  DNA postreplication repair and mutagenesis in Saccharomyces cerevisiae.

Authors:  S Broomfield; T Hryciw; W Xiao
Journal:  Mutat Res       Date:  2001-08-09       Impact factor: 2.433

6.  Multiple regulators of Ty1 transposition in Saccharomyces cerevisiae have conserved roles in genome maintenance.

Authors:  D T Scholes; M Banerjee; B Bowen; M J Curcio
Journal:  Genetics       Date:  2001-12       Impact factor: 4.562

7.  A comprehensive two-hybrid analysis to explore the yeast protein interactome.

Authors:  T Ito; T Chiba; R Ozawa; M Yoshida; M Hattori; Y Sakaki
Journal:  Proc Natl Acad Sci U S A       Date:  2001-03-13       Impact factor: 11.205

8.  Systematic identification of pathways that couple cell growth and division in yeast.

Authors:  Paul Jorgensen; Joy L Nishikawa; Bobby-Joe Breitkreutz; Mike Tyers
Journal:  Science       Date:  2002-06-27       Impact factor: 47.728

Review 9.  Polarization of cell growth in yeast. I. Establishment and maintenance of polarity states.

Authors:  D Pruyne; A Bretscher
Journal:  J Cell Sci       Date:  2000-02       Impact factor: 5.285

10.  Data mining tools for the Saccharomyces cerevisiae morphological database.

Authors:  Taro L Saito; Jun Sese; Yoichiro Nakatani; Fumi Sano; Masashi Yukawa; Yoshikazu Ohya; Shinichi Morishita
Journal:  Nucleic Acids Res       Date:  2005-07-01       Impact factor: 16.971

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  121 in total

Review 1.  Automated quantitative live cell fluorescence microscopy.

Authors:  Michael Fero; Kit Pogliano
Journal:  Cold Spring Harb Perspect Biol       Date:  2010-06-30       Impact factor: 10.005

Review 2.  Phenomics: the next challenge.

Authors:  David Houle; Diddahally R Govindaraju; Stig Omholt
Journal:  Nat Rev Genet       Date:  2010-12       Impact factor: 53.242

3.  Genomic patterns of pleiotropy and the evolution of complexity.

Authors:  Zhi Wang; Ben-Yang Liao; Jianzhi Zhang
Journal:  Proc Natl Acad Sci U S A       Date:  2010-09-27       Impact factor: 11.205

4.  Switch between life history strategies due to changes in glycolytic enzyme gene dosage in Saccharomyces cerevisiae.

Authors:  Shaoxiao Wang; Aymé Spor; Thibault Nidelet; Pierre Montalent; Christine Dillmann; Dominique de Vienne; Delphine Sicard
Journal:  Appl Environ Microbiol       Date:  2010-11-12       Impact factor: 4.792

5.  The F-box protein Dia2 overcomes replication impedance to promote genome stability in Saccharomyces cerevisiae.

Authors:  Deborah Blake; Brian Luke; Pamela Kanellis; Paul Jorgensen; Theo Goh; Sonya Penfold; Bobby-Joe Breitkreutz; Daniel Durocher; Matthias Peter; Mike Tyers
Journal:  Genetics       Date:  2006-06-04       Impact factor: 4.562

6.  Organelle acidification is important for localisation of vacuolar proteins in Saccharomyces cerevisiae.

Authors:  Risa Matsumoto; Kuninori Suzuki; Yoshikazu Ohya
Journal:  Protoplasma       Date:  2013-05-25       Impact factor: 3.356

Review 7.  Colloquium papers: Numbering the hairs on our heads: the shared challenge and promise of phenomics.

Authors:  David Houle
Journal:  Proc Natl Acad Sci U S A       Date:  2009-10-26       Impact factor: 11.205

8.  Inference of RhoGAP/GTPase regulation using single-cell morphological data from a combinatorial RNAi screen.

Authors:  Oaz Nir; Chris Bakal; Norbert Perrimon; Bonnie Berger
Journal:  Genome Res       Date:  2010-02-09       Impact factor: 9.043

9.  Differential Scaling of Gene Expression with Cell Size May Explain Size Control in Budding Yeast.

Authors:  Yuping Chen; Gang Zhao; Jakub Zahumensky; Sangeet Honey; Bruce Futcher
Journal:  Mol Cell       Date:  2020-04-03       Impact factor: 17.970

10.  Synthetic morphology using alternative inputs.

Authors:  Hiromasa Tanaka; Tau-Mu Yi
Journal:  PLoS One       Date:  2009-09-10       Impact factor: 3.240

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