|
| 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.
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| |
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| 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
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| |
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| 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 |
| E-mail(s) |
nuno.barbosa.morais@utoronto.ca
|
| Phone |
4169784633
|
| Fax |
4169465545
|
| URL |
http://www.utoronto.ca/intron/barbosa-morais.html
|
| 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 |
| |
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| Platforms (5)
|
| GPL13112 |
Illumina HiSeq 2000 (Mus musculus) |
| GPL15001 |
Illumina HiSeq 2000 (Anolis carolinensis) |
| GPL15472 |
Illumina HiSeq 2000 (Xenopus (Silurana) tropicalis) |
| GPL16133 |
Illumina HiSeq 2000 (Gallus gallus) |
| GPL16134 |
Illumina HiSeq 2000 (Tetraodon nigroviridis) |
|
| Samples (21)
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| Relations |
| BioProject |
PRJNA176589 |
| SRA |
SRP015997 |
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