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SUMMARY:Interplay between gene expression and alternative splicing determi
 nes cold acclimation in Arabidopsis - Prof. John W. S. Brown\, University 
 of Dundee
DTSTART:20171103T140000Z
DTEND:20171103T150000Z
UID:TALK94864@talks.cam.ac.uk
CONTACT:david baulcombe
DESCRIPTION:Alternative splicing (AS) is implicated in a wide range of dev
 elopmental and physiological processes including stress responses. RNA-seq
  data show extensive AS but give virtually no idea of the impact or dynami
 cs of the AS response and its relationship to the fairly well-characterise
 d transcriptional cold response. To analyse dynamic reprogramming of the c
 old transcriptome\, we have a high resolution RNA-seq time-course of Arabi
 dopsis plants grown at 20°C and transferred to the cold. We quantified ex
 pression at the transcript level using Salmon and AtRTD2 (a comprehensive\
 , non-redundant Reference Transcript Dataset with ca. 82k unique transcrip
 ts) which we constructed and optimised.\n\n \n\nAlmost 9k genes had signif
 icantly altered expression in response to lowering temperature. Of these\,
  6.5k were differentially expressed (DE) at the gene level and ca. 2.5k ar
 e significantly differentially alternatively spliced (DAS). We identified 
  over 3\,000 novel cold-response genes of which 1\,600 were only regulated
  at the level of AS (DAS).  Cold treatment induces waves of transcriptiona
 l and AS activity (within the first 9h) involving thousands of genes. The 
 sensitive temperature-dependent AS of some genes may contribute to tempera
 ture perception and signalling. AS therefore makes a previously unrecognis
 ed but profound contribution to re-programming of the cold transcriptome.
LOCATION:Tom ap Rees\, Department of Plant Sciences
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