PXD046939

PXD046939 is an original dataset announced via ProteomeXchange.

Title	Gel based extracellular matrix proteome of jute
Description	Extracellular matrix (ECM) is the first line of defense which is an inimitable organelle that perceives biotic and abiotic stresses and reprograms biological processes of host. It also activates innate immune responses in temporal and spatial manner and acts as physical scaffold that prevents the entry of pathogen and microbes in response to stress and hormonal signals. Stem rot, caused by Macrophomina phaseolina adversely affects fiber production in jute. However, how wall related susceptibility affects ECM proteome remains undetermined in bast fiber crops. In order to develop ECM proteome of C. olitorius var. O-4, ECM fraction was isolated by mechanical disruption, CaCl2 extraction and enrichment. ECM fraction purity was assessed by 1-DE profiling in which the ECM fraction was found to be discrete from the crude extract and supernatant recovered during purification steps. Three biological replicates were performed for gel-based jute ECM proteomic analysis. MS/MS analysis of total extract and supernatants were identified as Rubisco or other chloroplastic proteins which were depleted in consecutive steps of purification depicting high degree of ECM purity. Fourteen bands of ECM enriched fraction were identified as canonical ECM localized proteins, e.g., beta-glucosidase, beta-d xylosidase, peroxidase, glycoside hydrolase and peroxiredoxin, confirming jute ECM protein purity and enrichment.
HostingRepository	PRIDE
AnnounceDate	2024-05-21
AnnouncementXML	Submission_2024-05-21_09:32:58.720.xml
DigitalObjectIdentifier
ReviewLevel	Peer-reviewed dataset
DatasetOrigin	Original dataset
RepositorySupport	Unsupported dataset by repository
PrimarySubmitter	Subhra Chakraborty
SpeciesList	scientific name: Corchorus olitorius; NCBI TaxID: 93759;
ModificationList	monohydroxylated residue; iodoacetamide derivatized residue
Instrument	TripleTOF 6600

Revision	Datetime	Status	ChangeLog Entry
0	2023-11-14 02:01:33	ID requested
⏵ 1	2024-05-21 09:32:59	announced

10.1021/acs.jproteome.3c00781;

Arafat MY, Narula K, Kumar M, Chakraborty N, Chakraborty S, Proteo-metabolomic Dissection of Extracellular Matrix Reveals Alterations in Cell Wall Integrity and Calcium Signaling Governs Wall-Associated Susceptibility during Stem Rot Disease in Jute. J Proteome Res, 23(8):3217-3234(2024) [pubmed]

submitter keyword: 1-DE SDS PAGE, mass spectrometry,Jute, extracellular matrix

Dr. Subhra Chakraborty
contact affiliation	National Institute of Plant Genome Research Aruna Asaf Ali Marg New Delhi - 110 067
contact email	subhrac@hotmail.com
lab head
Subhra Chakraborty
contact affiliation	National Institute of Plant Genome Research
contact email	subhrac@hotmail.com
dataset submitter

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PRIDE project URI

• PRIDE
  1. PXD046939
     1. Label: PRIDE project
     2. Name: Gel based extracellular matrix proteome of jute