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PXD003129

PXD003129 is an original dataset announced via ProteomeXchange.

Dataset Summary
TitleProtein markers of Bursaphelenchus xylophilus Steiner & Buhrer, 1934 (Nickle, 1970) populations using quantitative proteomics and character compatibility
DescriptionThe Pine Wood Nematode (PWN) Bursaphelenchus xylophilus is a severe forest pathogen in countries where it has been introduced and is considered a worldwide quarantine organism. In this study, protein markers for differentiating populations of this nematode were identified by studying differences among four selected Iberian and one American population. These populations were compared by quantitative proteomics (iTRAQ), which considers the level of protein expression. From a total of 2862 proteins identified using the public database from the B. xylophilus genome project, 216 were unambiguous and significantly differentially expressed in the studied populations. Comparisons of their pairwise ratio were statistically treated and supported in order to convert them into discrete character states, suggesting that 141 proteins were not informative as population specific markers. Application of the Character Compatibility methodology on the remaining 75 proteins (belonging to families with different biological functions) excludes 27 which are incompatible among them. Considering only the compatible proteins, the method selects a subset of 34 specific unique protein markers which allowed the compared classification of the Iberian isolates. This approach makes it easier search for diagnostic tools and phylogenetic inference within species and populations of a pathogen exhibiting a high level of genetic diversity.
HostingRepositoryPRIDE
AnnounceDate2018-07-05
AnnouncementXMLSubmission_2018-07-05_03:32:06.xml
DigitalObjectIdentifierhttps://dx.doi.org/10.6019/PXD003129
ReviewLevelPeer-reviewed dataset
DatasetOriginOriginal dataset
RepositorySupportSupported dataset by repository
PrimarySubmitterSergio Ciordia
SpeciesList scientific name: Bursaphelenchus xylophilus (Pinewood nematode worm) (Aphelenchoides xylophilus); NCBI TaxID: 6326;
ModificationListiTRAQ4plex-116 reporter+balance reagent acylated residue; methylthiolated residue; monohydroxylated residue; acetylated residue; deamidated residue
InstrumentTripleTOF 5600
Dataset History
RevisionDatetimeStatusChangeLog Entry
02015-11-02 02:23:14ID requested
12018-07-05 03:32:07announced
Publication List
Ciordia S, Robertson L, Arcos SC, Gonz, รก, lez MR, Mena Mdel C, Zamora P, Vieira P, Abrantes I, Mota M, Castagnone-Sereno P, Navas A, Buhrer, 1934 (Nickle, 1970) populations using quantitative proteomics and character compatibility. Proteomics, 16(6):1006-14(2016) [pubmed]
Keyword List
curator keyword: Biological
submitter keyword: Bursaphelenchus xylophilus, Quantitative Proteomics, iTRAQ, Proteins population biomarkers, Character Compatibility
Contact List
Alfonso Navas
contact affiliationMuseo Nacional de Ciencias Naturales (MNCN-CSIC)
contact emailalfonsons@mncn.csic.es
lab head
Sergio Ciordia
contact affiliationNational Center for Biotechnology
contact emailsciordia@cnb.csic.es
dataset submitter
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Dataset FTP location
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