Trans-splicing analysis using CAGE.

diff --git a/biblio/25525214.mdwn b/biblio/25525214.mdwn
new file mode 100644 (file)
index 0000000..7bf0070
--- /dev/null
+++ b/biblio/25525214.mdwn
@@ -0,0 +1,10 @@
+[[!meta title="Trans-Splicing and Operons in Metazoans: Translational Control in Maternally Regulated Development and Recovery from Growth Arrest."]]
+[[!tag Oikopleura trans_splicing CAGE]]
+
+Danks GB, Raasholm M, Campsteijn C, Long AM, Manak JR, Lenhard B, Thompson EM.
+
+Mol Biol Evol. 2015 Mar;32(3):585-99. doi:10.1093/molbev/msu336
+
+Trans-Splicing and Operons in Metazoans: Translational Control in Maternally Regulated Development and Recovery from Growth Arrest.
+
+[[!pmid 25525214 desc="“39% of annotated gene models are trans-spliced with the SL.” “42% of SL transcripts are monocistronic; in these cases SL trans-splicing has a function other than resolving polycistronic mRNA.” “A second wave of gene activation peaked at the metamorphic tailshift stage where 2,578 genes were switched on for the first time. Here, 80% of genes were non-trans-spliced nonoperon genes, only 4% were SL-trans-spliced operon genes, and 10% were SL-trans-spliced monocistronic genes.” “A Switch from Predominantly Trans-Spliced to Predominantly Non-trans-Spliced Transcripts Occurs at the Maternal to Zygotic Transition” Parallel study in O. dioica, C. elegans and C. intestinalis suggests that “trans-splicing itself, rather than the organization of genes into operons, is the common factor for maternal mRNA in these metazoans”.  The TOP motif of ribosomal protein genes is provided by the SL in O. dioica.  “We find that SL-trans-spliced mRNAs are enriched in the ovary and oocytes.”"]]

diff --git a/tags/Oikopleura.mdwn b/tags/Oikopleura.mdwn
index 3d283956cefe898b4a290adc05065b5c47e61c35..ed52be9b33d9aaf68fc84042a0b9ca6beb1156bf 100644 (file)
--- a/tags/Oikopleura.mdwn
+++ b/tags/Oikopleura.mdwn
@@ -27,9 +27,11 @@ Genome
 Transcriptome
 -------------
 
- - Some genes are organised in operons.  A 5′ splice leader is found in some RNAs.
+ - Some genes are organised in operons.  A 5′ splice leader (SL) is found in some RNAs.
    The SL gene is found downstream of the 5S RNA gene, which is repeated multiple
    times in the genome ([[Ganot et al., 2004|biblio/15314184]]).
+ - A study using CAGE found that 39% of annotated gene models are trans-spliced with the
+   SL and that 42% of SL transcripts are monocistronic ([[Danks et al., 2015|biblio/25525214]]).
 
 Development
 -----------