PXD008882

PXD008882 is an original dataset announced via ProteomeXchange.

Title	Association of proteomics changes with Al-sensitive root zones in switchgrass
Description	In this project, we report on aluminum (Al)-induced root proteomic changes in switchgrass. After growth in a hydroponic culture system supplemented with 400μM of Al, plants began to show signs of physiological stress such as a reduction in photosynthetic rate. At this time, the basal 2‐cm long root tips were harvested and divided into two segments, each of 1‐cm in length, for protein extraction. Al-induced changes in proteomes were identified using tandem mass tags mass spectrometry (TMT-MS)-based quantitative proteomics analysis. A total of 216 proteins (approximately 3.6% of total proteins) showed significant differences between non-Al treated control and treated groups with significant fold change (twice the standard deviation; FDR adjusted p-value, q<0.05). The basal root tip tissues expressed more dramatic proteome changes (164 significantly changed proteins; 3.9% of total proteins quantified) compared to the elongation/maturation zones (52 significantly changed proteins, 1.1% of total proteins quantified). Significantly changed proteins from the basal-1cm root apex tissues were clustered into 25 biological pathways, three proteins in cell cycles were all at a reduced abundance level compared to the non-treated control group. In the root elongation and maturation zone tissues, the identified proteins were placed into 18 pathways, proteins in secondary cell wall formation (lignin biosynthesis) were identified. Several STRING protein interaction networks were developed for these Al-induced significantly changed proteins. This study has identified a large number of Al-responsive proteins, including transcription factors, which will be used for exploring new Al tolerance genes and mechanisms.
HostingRepository	PRIDE
AnnounceDate	2018-03-23
AnnouncementXML	Submission_2018-03-23_06:27:26.xml
DigitalObjectIdentifier	https://dx.doi.org/10.6019/PXD008882
ReviewLevel	Peer-reviewed dataset
DatasetOrigin	Original dataset
RepositorySupport	Supported dataset by repository
PrimarySubmitter	Ted Thannhauser
SpeciesList	scientific name: Panicum virgatum (Switchgrass); NCBI TaxID: 38727;
ModificationList	Methylthio; TMT6plex; Oxidation
Instrument	LTQ Orbitrap

Revision	Datetime	Status	ChangeLog Entry
0	2018-02-07 01:49:13	ID requested
⏵ 1	2018-03-23 06:27:27	announced

Rangu M, Ye Z, Bhatti S, Zhou S, Yang Y, Fish T, Thannhauser TW, Association of Proteomics Changes with Al-Sensitive Root Zones in Switchgrass. Proteomes, 6(2):(2018) [pubmed]

curator keyword: Biological

submitter keyword: TMT-quantitative proteomics

protein sumoylation

protein folding

Theodore Thannhauser
contact affiliation	USDA-ARS
contact email	tt34@cornell.edu
lab head
Ted Thannhauser
contact affiliation	USDA-ARS
contact email	tt34@cornell.edu
dataset submitter

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PRIDE project URI

• PRIDE
  1. PXD008882
     1. Label: PRIDE project
     2. Name: Association of proteomics changes with Al-sensitive root zones in switchgrass