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Series GSE41338 Query DataSets for GSE41338
Status Public on Dec 22, 2012
Title The evolutionary landscape of alternative splicing in vertebrate species
Organisms Xenopus tropicalis; Gallus gallus; Mus musculus; Anolis carolinensis; Tetraodon nigroviridis
Experiment type Expression profiling by high throughput sequencing
Summary How species with similar repertoires of protein coding genes differ so dramatically at the phenotypic level is poorly understood. From comparing the transcriptomes of multiple organs from vertebrate species spanning ~350 million years of evolution, we observe significant differences in alternative splicing complexity between the main vertebrate lineages, with the highest complexity in the primate lineage. Moreover, within as little as six million years, the splicing profiles of physiologically-equivalent organs have diverged to the extent that they are more strongly related to the identity of a species than they are to organ type. Most vertebrate species-specific splicing patterns are governed by the highly variable use of a largely conserved cis-regulatory code. However, a smaller number of pronounced species-dependent splicing changes are predicted to remodel interactions involving factors acting at multiple steps in gene regulation. These events are expected to further contribute to the dramatic diversification of alternative splicing as well as to other gene regulatory changes that contribute to phenotypic differences among vertebrate species.
Overall design mRNA profiles of several organs (brain, liver, kidney, heart, skeletal muscle) in multiple vertebrate species (mouse, chicken, lizard, frog, pufferfish) generated by deep sequencing using Illumina HiSeq
Contributor(s) Barbosa-Morais NL, Kutter C, Watt S, Odom DT, Blencowe BJ
Citation(s) 23258890
Submission date Oct 04, 2012
Last update date May 15, 2019
Contact name Nuno L Barbosa-Morais
Phone 4169784633
Fax 4169465545
Organization name University of Toronto
Department The Donnelly Centre
Lab Blencowe
Street address 160 College Street, Room 908
City Toronto
State/province ON
ZIP/Postal code M5S 3E1
Country Canada
Platforms (5)
GPL13112 Illumina HiSeq 2000 (Mus musculus)
GPL15001 Illumina HiSeq 2000 (Anolis carolinensis)
GPL15472 Illumina HiSeq 2000 (Xenopus (Silurana) tropicalis)
Samples (21)
GSM1015150 Mouse brain rep1
GSM1015151 Mouse brain rep2
GSM1015152 Mouse liver
BioProject PRJNA176589
SRA SRP015997

Download family Format
SOFT formatted family file(s) SOFTHelp
MINiML formatted family file(s) MINiMLHelp
Series Matrix File(s) TXTHelp

Supplementary file Size Download File type/resource
GSE41338_RAW.tar 2.1 Gb (http)(custom) TAR (of BW, TXT)
SRA Run SelectorHelp
Raw data are available in SRA
Processed data provided as supplementary file

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