PXD003378

PXD003378 is an original dataset announced via ProteomeXchange.

Title	Changes in the Proteome of Xylem Sap in Brassica oleracea in Response to Fusarium oxysporum Stress
Description	Fusarium oxysporum f. sp. conlutinans (Foc) is a serious root-invading and xylem-colonizing fungus that causes yellowing in Brassica oleracea. To comprehensively understand the interaction between F. oxysporum and B. oleracea, composition of the xylem sap proteome of the non-infected and Foc-infected plants was investigated in both resistant and susceptible cultivars using liquid chromatography-tandem mass spectrometry (LC-MS/MS) after in-solution digestion of xylem sap proteins. Whole genome sequencing of Foc was carried out and generated a predicted Foc protein database. The predicted Foc protein database was then combined with the public B. oleracea and B. rapa protein databases downloaded from Uniprot and used for protein identification. About 200 plant proteins were identified in the xylem sap of susceptible and resistant plants. Comparison between the non-infected and Foc-infected samples revealed that Foc infection causes changes to the protein composition in B. oleracea xylem sap where repressed proteins accounted for a greater proportion than those of induced in both the susceptible and resistant reactions. The analysis on the proteins with concentration change >=2 fold indicated a large portion of up- and down-regulated proteins were those acting on carbohydrates. Proteins with leucine-rich repeats and legume lectin domains were mainly induced in both resistant and susceptible system, so was the case of thaumatins. Twenty-five Foc proteins were identified in the infected xylem sap and ten of them were cysteine-containing secreted small proteins that are good candidates for virulence and/or avirulence effectors. The findings of differential response of protein contents in the xylem sap between the non-infected and Foc-infected samples as well as the Foc candidate effectors secreted in xylem provide valuable insights into B. oleracea-Foc interactions.
HostingRepository	PRIDE
AnnounceDate	2016-01-26
AnnouncementXML	Submission_2016-02-17_07:11:26.xml
DigitalObjectIdentifier	https://dx.doi.org/10.6019/PXD003378
ReviewLevel	Peer-reviewed dataset
DatasetOrigin	Original dataset
RepositorySupport	Supported dataset by repository
PrimarySubmitter	Daniel Shea
SpeciesList	scientific name: Brassica oleracea var. capitata (Cabbage); NCBI TaxID: 3716;
ModificationList	monohydroxylated residue; iodoacetamide derivatized residue
Instrument	LTQ Orbitrap Velos

Revision	Datetime	Status	ChangeLog Entry
0	2015-12-21 01:25:37	ID requested
1	2016-01-26 00:37:16	announced
⏵ 2	2016-02-17 07:11:27	announced	Updated publication reference for PubMed record(s): 26870056.

Pu Z, Ino Y, Kimura Y, Tago A, Shimizu M, Natsume S, Sano Y, Fujimoto R, Kaneko K, Shea DJ, Fukai E, Fuji S, Hirano H, Okazaki K, Changes in the Proteome of Xylem Sap in Brassica oleracea in Response to Fusarium oxysporum Stress. Front Plant Sci, 7():31(2016) [pubmed]

curator keyword: Biological

submitter keyword: Brassica oleracea, F. oxysporum f. sp. conglutinans, Xylem sap, Proteomics

Keiichi Okazaki
contact affiliation	Professor, Niigata U. Faculty of Agriculture, Lab. of Plant Breeding 2-8050 Ikarashi, Nishi-ku, Niigata 950-2181, Japan Tel +81-25-262-6615 Fax +81-25-262-6854 E-mail :okazaki@agr.niigata-u.ac.jp
contact email	okazaki@agr.niigata-u.ac.jp
lab head
Daniel Shea
contact affiliation	Niigata University
contact email	daniel.john.shea@gmail.com
dataset submitter

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PRIDE project URI

• PRIDE
  1. PXD003378
     1. Label: PRIDE project
     2. Name: Changes in the Proteome of Xylem Sap in Brassica oleracea in Response to Fusarium oxysporum Stress