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GENOME‐WIDE DISTRIBUTIONS OF RNA POL II CTD PHOSPHORYLATION AND CTD‐ASSOCIATED TERMINATION FACTORS IN BUDDING YEAST
Author(s) -
Bentley David
Publication year - 2010
Publication title -
the faseb journal
Language(s) - English
Resource type - Journals
SCImago Journal Rank - 1.709
H-Index - 277
eISSN - 1530-6860
pISSN - 0892-6638
DOI - 10.1096/fasebj.24.1_supplement.406.1
Subject(s) - rna polymerase ii , ctd , transcription factor ii e , transcription factor ii f , transcription (linguistics) , transcription factor ii d , transcription factor ii b , rna , gene , biology , rna polymerase ii holoenzyme , microbiology and biotechnology , rna polymerase , genetics , promoter , gene expression , linguistics , oceanography , philosophy , geology
Many of the processes that contribute to RNP biogenesis including RNA processing and packaging take place at the gene, co‐transcriptionally. The target for RNA binding and processing factors is therefore not a full‐length RNA molecule, but a transcription elongation complex (TEC) comprising the growing nascent RNA and RNA polymerase on a chromatin template. RNA polymerase II traverses transcribed genes is association with passenger proteins that can bind to the nascent RNA and/or the C‐terminal heptad repeat domain (CTD), a conserved signature feature of the large subunit. Dynamics of CTD phosphorylation during initiation, elongation and termination of transcription are thought to direct binding and release of associated proteins that recognize different phospho‐isoforms of the heptad repeats (YS 2 PTS 5 PS 7 ). We surveyed CTD phosphorylation on Ser2, 5 and 7 residues of pol II engaged on genes in budding yeast by ChIP‐ChIP. As expected Ser5‐P is enriched relative to Ser2‐P at 5′ ends where pol II initiates. Conversely Ser2‐P is enriched relative to Ser5‐P downstream of ORF's as pol II terminates. Changes in Ser5‐P:Ser2‐P were mostly confined to 5′ and 3′ ends rather than within genes. Localization of the CTD‐associated transcription termination factors Nrd1 and Pcf11 correlated with patterns of Ser5/7 and Ser 2 phosphorylation respectively. Surprisingly Pcf11 can also bind tRNA genes transcribed by RNA pol III.