PXD016930

PXD016930 is an original dataset announced via ProteomeXchange.

Title	Towards reducing the immunogenic potential of wheat flour: silencing of alpha gliadin genes in a U.S. wheat cultivar
Description	The alpha gliadins are a complex group of proteins with very similar sequences that comprise about 15-20% of the total flour protein and contribute to the functional properties of wheat flour dough. Some alpha gliadins also contain immunodominant epitopes relevant to celiac disease, a chronic autoimmune disease that affects nearly 1.4% of the worldwide population. In an attempt to reduce the immunogenic potential of wheat flour in the U.S. spring wheat cultivar Butte 86, RNA interference was used to silence a subset of alpha gliadin genes encoding proteins containing celiac disease epitopes. Two of the resulting transgenic lines were analyzed in detail by quantitative two-dimensional gel electrophoresis combined with tandem mass spectrometry. Although only some genes were targeted by the RNA interference construct, all alpha gliadins were effectively silenced in the transgenic plants. Some off-target silencing of high molecular weight glutenin subunits also was detected in both transgenic lines even though there was no homology with the target sequence. Reactivities of IgG and IgA serum antibodies from a cohort of patients with confirmed cases of celiac disease were decreased in flour from the two transgenic lines relative to the non-transgenic line. However, functional properties of the flour were also altered in the transgenic lines as evidenced by decreases in both mixing times and SDS sedimentation values. Although it may be possible to reduce the immunogenic potential of the flour and retain the viscoelastic properties essential for the utilization of wheat by eliminating only the most immunogenic alpha gliadins, the data suggest that it will be very difficult to selectively silence specific genes within families as complex as the wheat alpha gliadins.
HostingRepository	PRIDE
AnnounceDate	2020-02-28
AnnouncementXML	Submission_2020-03-24_02:57:49.xml
DigitalObjectIdentifier	https://dx.doi.org/10.6019/PXD016930
ReviewLevel	Peer-reviewed dataset
DatasetOrigin	Original dataset
RepositorySupport	Supported dataset by repository
PrimarySubmitter	Annamaria Simon-Buss
SpeciesList	scientific name: Triticum aestivum (Wheat); NCBI TaxID: 4565;
ModificationList	Ser->Arg; Cys->Gln; Thr->Ser; Gln->Gly; Lys->Thr; Delta:H(4)C(2)O(-1)S(1); Xle->Arg; Gln->Phe; Gln->Pro; Deamidated; Phe->Cys; Asn->Ala; Gly->Asp; Val->Glu; Gln->Val; Xle->Thr; Ser->Asn; Pro->Gln; Xle->Met; Lys->Arg; Met->Asn; Pro->Met; Asn->Glu; Gln->His; deaminated residue; Thr->Lys; Cys->Val; iodoacetic acid derivatized residue; Gln->pyro-Glu; Phe->Gly; Gln->Cys; Gly->Trp; Gly->Gln; Pro->Cys; Tyr->Ala; monohydroxylated residue; Xle->Cys; Arg->Phe; Ammonia-loss; Val->Asn; Gln->Ser; Gly->Thr; Gln->Trp; Xle->His; Val->Arg; Oxidation; Gly->Xle; Tyr->Thr; Xle->Glu; iodoacetamide derivatized residue; Gln->Asp; Ala->Arg; Ala->Asp; Ala->Xle; Cys->Gly; Gly->Ala; Pro->Ser; Pro->Xle; Met->Thr; His->Glu; Glu->Trp; Deoxy; Glu->Ala; Asp->Cys; Gly->Met; Trp->Asn; Thr->Asp; Formyl; Carbamyl; Val->Lys; Xle->Pro; Ala->Gln; Arg->Glu; Cys->Met; Asn->Tyr; Pro->Asn; Gln->Arg; Val->Asp; Cys->Trp; Lys->Gly; Asn->Pro; Asp->Arg; Cys->Phe; Gln->Thr; Pro->Tyr; Phe->His; Met->Tyr; Glu->Val; Asp->Pro; Gln->Ala; acetylated residue; Glu->Xle; Xle->Tyr; Val->His; Gly->Val; Ser->Tyr; His->Gln; Ser->Xle; Tyr->Xle; Arg->Gly; Pro->Asp; Val->Phe; Lys->Trp; Cys->Ser; Thr->Asn; Ala->Ser; Asp->Trp; Acetyl; Xle->Ser; Pro->His; Gly->His; Asn->Lys; Xle->Trp; Asp->Gly; Asp->Val; Tyr->Asp; Thr->Met; Carboxymethyl; Phe->Glu; Ala->Pro; Ser->Phe; Ala->Val; Asn->Gln; Asn->Gly; Carbamidomethyl; Met->Xle; Arg->Asn; His->Lys; Pro->Phe; Trp->Ala; Glu->pyro-Glu; Pro->Lys; Phe->Xle; Xle->Phe; Arg->Lys; Ala->Gly; Cys->Ala; Ser->Cys; Cys->Asp; Asp->Met; Phe->Asn; Methyl; Asp->His; Xle->Gly; Met->Cys; Gly->Asn; deamidated residue; Cys->Pro; Ser->Val; Glu->Asp; Pro->Arg; Gly->Ser; Xle->Gln; Met->Val; Gly->Lys; Ser->Gln; Gln->Tyr; Val->Xle; Val->Met; Trp->Ser; Glu->Pro; Xle->Lys; Asn->Phe; Xle->Val; Gln->Xle; Phe->Pro; Arg->Ala; Ser->Gly; Arg->Pro; Thr->Ala; Gln->Asn; Dehydrated; Gly->Glu; Dioxidation; Asp->Phe; Ser->Lys
Instrument	LTQ Orbitrap Elite

Revision	Datetime	Status	ChangeLog Entry
0	2020-01-02 05:28:44	ID requested
1	2020-02-28 07:17:59	announced
⏵ 2	2020-03-24 02:57:50	announced	2020-03-24: Updated publication reference for PubMed record(s): 32161604.

Altenbach SB, Chang HC, Rowe MH, Yu XB, Simon-Buss A, Seabourn BW, Green PH, Alaedini A, Reducing the Immunogenic Potential of Wheat Flour: Silencing of Alpha Gliadin Genes in a U.S. Wheat Cultivar. Front Plant Sci, 11():20(2020) [pubmed]

curator keyword: Biomedical

submitter keyword: wheat, Triticum aestivum, gliadin, immunogenic, LC-MSMS

dr Susan B. Altenbach
contact affiliation	Western Regional Research Center, United States Department of Agriculture-Agricultural Research Service, Albany, CA, United States
contact email	susan.altenbach@ars.usda.gov
lab head
Annamaria Simon-Buss
contact affiliation	Hamburg School of Food Science, Hamburg University
contact email	anna.simon-buss@chemie.uni-hamburg.de
dataset submitter

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PRIDE project URI

• PRIDE
  1. PXD016930
     1. Label: PRIDE project
     2. Name: Towards reducing the immunogenic potential of wheat flour: silencing of alpha gliadin genes in a U.S. wheat cultivar