PXD002837

PXD002837 is an original dataset announced via ProteomeXchange.

Title	Snake Venom LC/MSE
Description	Protein expression is a major link in the genotype-phenotype relationship, and processes affecting protein abundances, such as rates of transcription and translation, could contribute to phenotypic evolution if they generate heritable variation. Recent work has suggested that mRNA abundances do not accurately predict final protein abundances, which would imply that post-transcriptional regulatory processes contribute significantly to phenotypes. Post-transcriptional processes also appear to buffer changes in transcriptional patterns as species diverge, suggesting that the transcriptional changes have little or no effect on the phenotypes under study. We tested for concordance between mRNA and protein expression levels in snake venoms by means of mRNA-seq and quantitative mass spectrometry for 11 snakes representing 10 species, six genera, and three families. In contrast to most previous work, we found high correlations between venom-gland transcriptomes and venom proteomes for ten of our 11 comparisons. We tested for protein-level buffering of transcriptional changes during species divergence by comparing the difference between transcript abundance and protein abundance for three pairs of species and one intraspecific pair. We found no evidence for buffering during divergence of our three species pairs but did find evidence for protein-level buffering for our single intraspecific comparison, suggesting that buffering, if present, was a transient phenomenon in venom divergence. Our results demonstrated that post-transcriptional mechanisms did not contribute significantly to phenotypic evolution in venoms and suggest a more prominent and direct role for cis-regulatory evolution in phenotypic variation, particularly for snake venoms.
HostingRepository	PRIDE
AnnounceDate	2015-11-09
AnnouncementXML	Submission_2015-11-09_04:55:39.xml
DigitalObjectIdentifier
ReviewLevel	Peer-reviewed dataset
DatasetOrigin	Original dataset
RepositorySupport	Unsupported dataset by repository
PrimarySubmitter	Mark Margres
SpeciesList	scientific name: Agkistrodon contortrix; NCBI TaxID: 8720; scientific name: Sistrurus miliarius barbouri (Dusky pigmy rattlesnake) (Sistrurus barbouri); NCBI TaxID: 8759; scientific name: Agkistrodon piscivorus (cottonmouth); NCBI TaxID: 8715; scientific name: Crotalus horridus (Timber rattlesnake); NCBI TaxID: 35024; scientific name: Sistrurus catenatus (massasauga); NCBI TaxID: 8756; scientific name: Crotalus adamanteus (Eastern diamondback rattlesnake); NCBI TaxID: 8729; scientific name: Boiga irregularis (Brown tree snake); NCBI TaxID: 92519; scientific name: Micrurus tener (Texas coral snake); NCBI TaxID: 1114301; scientific name: Micrurus fulvius (Eastern coral snake) (Coluber fulvius); NCBI TaxID: 8637; scientific name: Hypsiglena jani; NCBI TaxID: 509068;
ModificationList	monohydroxylated residue; iodoacetamide derivatized residue
Instrument	Synapt MS

Revision	Datetime	Status	ChangeLog Entry
0	2015-09-02 01:13:57	ID requested
⏵ 1	2015-11-09 04:55:41	announced

Rokyta DR, Margres MJ, Calvin K, Post-transcriptional Mechanisms Contribute Little to Phenotypic Variation in Snake Venoms. G3 (Bethesda), 5(11):2375-82(2015) [pubmed]

curator keyword: Biological

submitter keyword: snake venom, LC/MSE

Darin R. Rokyta
contact affiliation	Florida State University
contact email	drokyta@bio.fsu.edu
lab head
Mark Margres
contact affiliation	Florida State University
contact email	mmargres@bio.fsu.edu
dataset submitter

Dataset FTP location NOTE: Most web browsers have now discontinued native support for FTP access within the browser window. But you can usually install another FTP app (we recommend FileZilla) and configure your browser to launch the external application when you click on this FTP link. Or otherwise, launch an app that supports FTP (like FileZilla) and use this address: ftp://ftp.pride.ebi.ac.uk/pride/data/archive/2015/11/PXD002837

PRIDE project URI

• PRIDE
  1. PXD002837
     1. Label: PRIDE project
     2. Name: Snake Venom LC/MSE