Life without RNAi: noncoding RNAs and their functions in Saccharomyces cerevisiaeThis paper is one of a selection of papers published in this Special Issue, entitled 30th Annual International Asilomar Chromatin and Chromosomes Conference, and has undergone the Journal’s usual peer review process.

Bidirectional promoters generate pervasive transcription in yeast

(2009) Zhenyu Xu et al.   NATURE

Widespread bidirectional promoters are the major source of cryptic transcripts in yeast

(2009) Helen Neil et al.   NATURE

Small silencing RNAs: an expanding universe

(2009) Megha Ghildiyal et al.   NATURE REVIEWS GENETICS

Long non-coding RNAs: insights into functions

(2009) Tim R. Mercer et al.   NATURE REVIEWS GENETICS

The nuclear RNA surveillance machinery: The link between ncRNAs and genome structure in budding yeast?

(2008) Jonathan Houseley et al.   Biochimica et Biophysica Acta-Gene Regulatory Mechanisms

Protein modifications in transcription elongation

(2008) Stephen M. Fuchs et al.   Biochimica et Biophysica Acta-Gene Regulatory Mechanisms

Noncoding Transcription by RNA Polymerase Pol IVb/Pol V Mediates Transcriptional Silencing of Overlapping and Adjacent Genes

(2008) Andrzej T. Wierzbicki et al.   CELL

RNA turnover and chromatin-dependent gene silencing

(2008) Marc Bühler   CHROMOSOMA

Mutations of RNA polymerase II activate key genes of the nucleoside triphosphate biosynthetic pathways

(2008) Marta Kwapisz et al.   EMBO JOURNAL

Yeast Pol II start-site selection: the long and the short of it

(2008) Jeffry L Corden   EMBO REPORTS

A cryptic unstable transcript mediates transcriptional trans-silencing of the Ty1 retrotransposon in S. cerevisiae

(2008) J. Berretta et al.   GENES & DEVELOPMENT

The Rtt106 Histone Chaperone Is Functionally Linked to Transcription Elongation and Is Involved in the Regulation of Spurious Transcription from Cryptic Promoters in Yeast

(2008) David Imbeault et al.   JOURNAL OF BIOLOGICAL CHEMISTRY

A Yeast Exosome Cofactor, Mpp6, Functions in RNA Surveillance and in the Degradation of Noncoding RNA Transcripts

(2008) L. Milligan et al.   MOLECULAR AND CELLULAR BIOLOGY

Properties of an Intergenic Terminator and Start Site Switch That Regulate IMD2 Transcription in Yeast

(2008) M. H. Jenks et al.   MOLECULAR AND CELLULAR BIOLOGY

Futile Cycle of Transcription Initiation and Termination Modulates the Response to Nucleotide Shortage in S. cerevisiae

(2008) Marilyne Thiebaut et al.   MOLECULAR CELL

Transcription Termination and RNA Degradation Contribute to Silencing of RNA Polymerase II Transcription within Heterochromatin

(2008) Lidia Vasiljeva et al.   MOLECULAR CELL

Regulation of a Eukaryotic Gene by GTP-Dependent Start Site Selection and Transcription Attenuation

(2008) Jason N. Kuehner et al.   MOLECULAR CELL

A ncRNA Modulates Histone Modification and mRNA Induction in the Yeast GAL Gene Cluster

(2008) Jonathan Houseley et al.   MOLECULAR CELL

Stepwise chromatin remodelling by a cascade of transcription initiation of non-coding RNAs

(2008) Kouji Hirota et al.   NATURE

Induced ncRNAs allosterically modify RNA-binding proteins in cis to inhibit transcription

(2008) Xiangting Wang et al.   NATURE

Dynamic repertoire of a eukaryotic transcriptome surveyed at single-nucleotide resolution

(2008) Brian T. Wilhelm et al.   NATURE

The exosome contains domains with specific endoribonuclease, exoribonuclease and cytoplasmic mRNA decay activities

(2008) Daneen Schaeffer et al.   NATURE STRUCTURAL & MOLECULAR BIOLOGY

TRAMP-mediated RNA surveillance prevents spurious entry of RNAs into the Schizosaccharomyces pombe siRNA pathway

(2008) Marc Bühler et al.   NATURE STRUCTURAL & MOLECULAR BIOLOGY

An atypical RNA polymerase involved in RNA silencing shares small subunits with RNA polymerase II

(2008) Linfeng Huang et al.   NATURE STRUCTURAL & MOLECULAR BIOLOGY

Phosphorylation of the RNA polymerase II C-terminal domain dictates transcription termination choice

(2008) Rajani Kanth Gudipati et al.   NATURE STRUCTURAL & MOLECULAR BIOLOGY

The Nrd1–Nab3–Sen1 termination complex interacts with the Ser5-phosphorylated RNA polymerase II C-terminal domain

(2008) Lidia Vasiljeva et al.   NATURE STRUCTURAL & MOLECULAR BIOLOGY

Divergent Transcription from Active Promoters

(2008) Amy C. Seila et al.   SCIENCE

The Antisense Transcriptomes of Human Cells

(2008) Yiping He et al.   SCIENCE

RNA Exosome Depletion Reveals Transcription Upstream of Active Human Promoters

(2008) Pascal Preker et al.   SCIENCE

Nascent RNA Sequencing Reveals Widespread Pausing and Divergent Initiation at Human Promoters

(2008) Leighton J. Core et al.   SCIENCE

Genome-wide RNA polymerase II: not genes only!

(2008) Frederic Koch et al.   TRENDS IN BIOCHEMICAL SCIENCES

Origins and evolution of eukaryotic RNA interference

(2008) S SHABALINA et al.   TRENDS IN ECOLOGY & EVOLUTION

Chromatin- and Transcription-Related Factors Repress Transcription from within Coding Regions throughout the Saccharomyces cerevisiae Genome

(2008) Vanessa Cheung et al.   PLOS BIOLOGY

Differentiating Protein-Coding and Noncoding RNA: Challenges and Ambiguities

(2008) Marcel E. Dinger et al.   PLoS Computational Biology