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PMID: 21511999 Published · ppublish English Comparative Study Journal Article Research Support, N.I.H., Extramural Research Support, Non-U.S. Gov't Research Support, U.S. Gov't, Non-P.H.S.

Comparative functional genomics of the fission yeasts.

Science (New York, N.Y.) ·Vol. 332 ·No. 6032 ·2011-05-20 ·Pages 930-6

Rhind N, Chen Z, Yassour M, Thompson DA, Haas BJ, Habib N, Wapinski I, Roy S, Lin MF, Heiman DI, Young SK, Furuya K, Guo Y, Pidoux A, Chen HM, Robbertse B, Goldberg JM, Aoki K, Bayne EH, Berlin AM, Desjardins CA, Dobbs E, Dukaj L, Fan L, FitzGerald MG, French C, Gujja S, Hansen K, Keifenheim D, Levin JZ, Mosher RA, Müller CA, Pfiffner J, Priest M, Russ C, Smialowska A, Swoboda P, Sykes SM, Vaughn M, Vengrova S, Yoder R, Zeng Q, Allshire R, Baulcombe D, Birren BW, Brown W, Ekwall K, Kellis M, Leatherwood J, Levin H, Margalit H, Martienssen R, Nieduszynski CA, Spatafora JW, Friedman N, Dalgaard JZ, Baumann P, Niki H, Regev A, Nusbaum C

Abstract

The fission yeast clade--comprising Schizosaccharomyces pombe, S. octosporus, S. cryophilus, and S. japonicus--occupies the basal branch of Ascomycete fungi and is an important model of eukaryote biology. A comparative annotation of these genomes identified a near extinction of transposons and the associated innovation of transposon-free centromeres. Expression analysis established that meiotic genes are subject to antisense transcription during vegetative growth, which suggests a mechanism for their tight regulation. In addition, trans-acting regulators control new genes within the context of expanded functional modules for meiosis and stress response. Differences in gene content and regulation also explain why, unlike the budding yeast of Saccharomycotina, fission yeasts cannot use ethanol as a primary carbon source. These analyses elucidate the genome structure and gene regulation of fission yeast and provide tools for investigation across the Schizosaccharomyces clade.

MeSH Terms
Centromere/genetics,physiology,ultrastructure DNA Transposable Elements Evolution, Molecular Gene Expression Profiling Gene Expression Regulation, Fungal Genes, Mating Type, Fungal Genome, Fungal Genomics Glucose/metabolism Meiosis Molecular Sequence Annotation Molecular Sequence Data Phylogeny RNA, Antisense/genetics RNA, Fungal/genetics RNA, Small Interfering/genetics RNA, Untranslated/genetics Regulatory Elements, Transcriptional Schizosaccharomyces/genetics,growth & development,metabolism Schizosaccharomyces pombe Proteins/genetics,metabolism Sequence Analysis, DNA Species Specificity Transcription Factors/genetics,metabolism Transcription, Genetic
Chemicals
DNA Transposable Elements RNA, Antisense RNA, Fungal RNA, Small Interfering RNA, Untranslated Schizosaccharomyces pombe Proteins Transcription Factors Glucose
Authors & Affiliations
60 authors, click to expand affiliations / ORCID
Rhind Nicholas
Biochemistry and Molecular Pharmacology, University of Massachusetts Medical School, 364 Plantation Street, Worcester, MA 01605, USA. nick.rhind@umassmed.edu
Chen Zehua
Yassour Moran
Thompson Dawn A
Haas Brian J
Habib Naomi
Wapinski Ilan
Roy Sushmita
Lin Michael F
Heiman David I
Young Sarah K
Furuya Kanji
Guo Yabin
Pidoux Alison
Chen Huei Mei
Robbertse Barbara
Goldberg Jonathan M
Aoki Keita
Bayne Elizabeth H
Berlin Aaron M
Desjardins Christopher A
Dobbs Edward
Dukaj Livio
Fan Lin
FitzGerald Michael G
French Courtney
Gujja Sharvari
Hansen Klavs
Keifenheim Dan
Levin Joshua Z
Mosher Rebecca A
Müller Carolin A
Pfiffner Jenna
Priest Margaret
Russ Carsten
Smialowska Agata
Swoboda Peter
Sykes Sean M
Vaughn Matthew
Vengrova Sonya
Yoder Ryan
Zeng Qiandong
Allshire Robin
Baulcombe David
Birren Bruce W
Brown William
Ekwall Karl
Kellis Manolis
Leatherwood Janet
Levin Henry
Margalit Hanah
Martienssen Rob
Nieduszynski Conrad A
Spatafora Joseph W
Friedman Nir
Dalgaard Jacob Z
Baumann Peter
Niki Hironori
Regev Aviv
Nusbaum Chad
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Article Info
Journal
Science (New York, N.Y.)
Abbr.
Science
ISSN
1095-9203
DOI
10.1126/science.1203357
Email
nick.rhind@umassmed.edu
Published
2011-05-20
Epub
2011-00-21
Pages
930-6
Language
English
Region
United States
NLM ID
0404511
PMCID
PMC3131103
Subset
IM
Grants
NHGRI NIH HHS · U54 HG003067 · United States
NHGRI NIH HHS · R01 HG004037 · United States
NIGMS NIH HHS · R01 GM076396 · United States
Howard Hughes Medical Institute · United States
NIGMS NIH HHS · R01 GM069957 · United States
Biotechnology and Biological Sciences Research Council · BB/E023754/1 · United Kingdom
NHGRI NIH HHS · U54 HG003067-06 · United States
NIH HHS · DP1 OD003958 · United States
Databases
GEO
GSE26902, GSE27837
Corrections
CommentIn
PMID: 21540880
External Links
PubMed source DOI: 10.1126/science.1203357 PMC Full Text View journal details
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