Alternative polyadenylation factor CPSF6 regulates temperature compensation of the mammalian circadian clock
Fig 4
Alterations in environmental temperature induce major expression changes while having a weak effect on 3′ UTR length.
(A) MA plot showing the shift in 3′ UTR length upon temperature variations between 32°C and 39°C as determined from a linear regression versus the decadic logarithm of the mean expression among all temperatures from the corresponding transcript. Transcripts with a statistically significant change in 3′ UTR length at a 5% FDR (Benjamini–Hochberg corrected P values) are depicted by orange markers. No global shift in 3′ UTR length can be observed upon temperature alterations in wild-type cells (inset). (B) Same as panel (A), showing the binary logarithm of transcript expression fold changes upon temperature variations between 32°C and 39°C on the ordinate. Transcripts with a statistically significant change in expression at a 5% FDR (Benjamini–Hochberg corrected P values) are depicted by green markers. (C) Same as panel (B), showing the binary logarithm of protein LFQ intensity fold changes upon temperature variations between 32°C and 39°C on the ordinate as well as the binary logarithm of the mean among all temperatures from the corresponding proteins. Proteins with a statistically significant change in abundance at a 5% FDR (Benjamini–Hochberg corrected P values) are depicted by pink markers. (D-F) 3′ UTR length (D, orange markers), transcript expression (E, green markers), and protein intensities (F, pink markers) in wild-type cells at all 3 experimentally measured temperatures for different example genes that show a statistically significant corresponding temperature response. Fits from a linear regression are depicted by black lines. Data underlying this figure are available from the NCBI (http://www.ncbi.nlm.nih.gov/geo/) under accession number GSE185896 and the ProteomeXchange Consortium via the PRIDE partner repository (http://www.ebi.ac.uk/pride/archive/) with the dataset identifier PXD029343 and are contained in S6–S8 Tables. FDR, false discovery rate; GEO; Gene Expression Omnibus; NCOM, normalized center of mass.