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Menezes LAA, Pinheiro Costa Pimentel M, Alves TDO, Pimenta do Nascimento T, Evaristo JAM, Nogueira FCS, Ferreira MSL, De Dea Lindner J. Label-free quantitative proteomics to exploit the impact of sourdough fermentation on reducing wheat allergenic fractions. Food Chem 2024; 430:137037. [PMID: 37541040 DOI: 10.1016/j.foodchem.2023.137037] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 03/02/2023] [Revised: 07/20/2023] [Accepted: 07/26/2023] [Indexed: 08/06/2023]
Abstract
The microbial consortia of lactic acid bacteria and yeast of sourdough can partially degrade gluten subunits associated with wheat-related diseases. This study evaluated how sourdough fermentation interferes with wheat protein profiles and if it can be related to the reduction expression of allergenic proteins. Samples from five bread doughs (Saccharomyces cerevisiae -C1; chemical acidification -C2, and three sourdoughs formulations -S1, S2, and S3) were sequentially extracted, digested, and submitted to shotgun label-free proteomic analysis. Eight-five proteins were identified as allergenic, mainly belonging to gliadin fraction, including seven containing the 33-mer peptide sequence. The highest immunogenic potential was found in dough C1 and S3, while the least reactive group consisted of S1 and C2. The two folds down expression of an α-gliadin containing the 33-mer sequence corroborates this. This finding may indicate the role of organic acids produced by the microbiota sourdough type II during fermentation in changing the protein profile.
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Affiliation(s)
- Leidiane Andreia Acordi Menezes
- Food Technology & Bioprocess Research Group, Food Science and Technology Department, Federal University of Santa Catarina (UFSC), 88034-001 Florianópolis, SC, Brazil
| | - Mariana Pinheiro Costa Pimentel
- Laboratory of Bioactives, Food and Nutrition Graduate Program, Federal University of the State of Rio de Janeiro (UNIRIO), 22290-240 Rio de Janeiro, RJ, Brazil
| | - Thais de Oliveira Alves
- Laboratory of Bioactives, Food and Nutrition Graduate Program, Federal University of the State of Rio de Janeiro (UNIRIO), 22290-240 Rio de Janeiro, RJ, Brazil
| | - Talita Pimenta do Nascimento
- Laboratory of Bioactives, Food and Nutrition Graduate Program, Federal University of the State of Rio de Janeiro (UNIRIO), 22290-240 Rio de Janeiro, RJ, Brazil
| | - Joseph A M Evaristo
- Laboratory of Proteomics, Institute of Chemistry, Federal University of Rio de Janeiro (UFRJ), 21941-909 Rio de Janeiro, RJ, Brazil
| | - Fábio C S Nogueira
- Laboratory of Proteomics, Institute of Chemistry, Federal University of Rio de Janeiro (UFRJ), 21941-909 Rio de Janeiro, RJ, Brazil; Proteomics Unit, Institute of Chemistry, UFRJ, 21941-909 Rio de Janeiro, RJ, Brazil
| | - Mariana Simões Larraz Ferreira
- Laboratory of Bioactives, Food and Nutrition Graduate Program, Federal University of the State of Rio de Janeiro (UNIRIO), 22290-240 Rio de Janeiro, RJ, Brazil; Laboratory of Protein Biochemistry, Center of Innovation in Mass Spectrometry, UNIRIO, 22290-240 Rio de Janeiro, RJ, Brazil.
| | - Juliano De Dea Lindner
- Food Technology & Bioprocess Research Group, Food Science and Technology Department, Federal University of Santa Catarina (UFSC), 88034-001 Florianópolis, SC, Brazil.
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Comparative Genomic Analysis of SAUR Gene Family, Cloning and Functional Characterization of Two Genes (PbrSAUR13 and PbrSAUR52) in Pyrus bretschneideri. Int J Mol Sci 2022; 23:ijms23137054. [PMID: 35806062 PMCID: PMC9266570 DOI: 10.3390/ijms23137054] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 06/01/2022] [Revised: 06/21/2022] [Accepted: 06/21/2022] [Indexed: 11/17/2022] Open
Abstract
The SAUR (small auxin-up RNA) gene family is the biggest family of early auxin response genes in higher plants and has been associated with the control of a variety of biological processes. Although SAUR genes had been identified in several genomes, no systematic analysis of the SAUR gene family has been reported in Chinese white pear. In this study, comparative and systematic genomic analysis has been performed in the SAUR gene family and identified a total of 116 genes from the Chinese white pear. A phylogeny analysis revealed that the SAUR family could be classified into four groups. Further analysis of gene structure (introns/exons) and conserved motifs showed that they are diverse functions and SAUR-specific domains. The most frequent mechanisms are whole-genome duplication (WGD) and dispersed duplication (DSD), both of which may be important in the growth of the SAUR gene family in Chinese white pear. Moreover, cis-acting elements of the PbrSAUR genes were found in promoter regions associated with the auxin-responsive elements that existed in most of the upstream sequences. Remarkably, the qRT-PCR and transcriptomic data indicated that PbrSAUR13 and PbrSAUR52 were significantly expressed in fruit ripening. Subsequently, subcellular localization experiments revealed that PbrSAUR13 and PbrSAUR52 were localized in the nucleus. Moreover, PbrSAUR13 and PbrSAUR52 were screened for functional verification, and Dangshan pear and frandi strawberry were transiently transformed. Finally, the effects of these two genes on stone cells and lignin were analyzed by phloroglucinol staining, Fourier infrared spectroscopy, and qRT-PCR. It was found that PbrSAUR13 promoted the synthesis and accumulation of stone cells and lignin, PbrSAUR52 inhibited the synthesis and accumulation of stone cells and lignin. In conclusion, these results indicate that PbrSAUR13 and PbrSAUR52 are predominantly responsible for lignin inhibit synthesis, which provides a basic mechanism for further study of PbrSAUR gene functions.
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Zhang Y, Hu X, Juhasz A, Islam S, Yu Z, Zhao Y, Li G, Ding W, Ma W. Characterising avenin-like proteins (ALPs) from albumin/globulin fraction of wheat grains by RP-HPLC, SDS-PAGE, and MS/MS peptides sequencing. BMC PLANT BIOLOGY 2020; 20:45. [PMID: 31996140 PMCID: PMC6988229 DOI: 10.1186/s12870-020-2259-z] [Citation(s) in RCA: 12] [Impact Index Per Article: 3.0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Subscribe] [Scholar Register] [Received: 07/28/2019] [Accepted: 01/20/2020] [Indexed: 05/09/2023]
Abstract
BACKGROUND Wheat grain avenin-like proteins (ALPs) belong to a recently discovered class of wheat grain storage protein. ALPs in wheat grains not only have beneficial effects on dough quality but also display antifungal activities, which is a novel observation for wheat storage proteins. Previous studies have shown that ALPs are likely present in the albumin/globulin fractions of total protein extract from wheat flour. However, the accumulation characteristics of these ALPs in the mature wheat grain remains unknown. RESULTS In the present study, a total of 13 ALPs homologs were isolated and characterized in the albumin/globulin fractions of the wheat protein extract. A combination of multiple techniques including RP-HPLC, SDS-PAGE, MALDI-TOF and peptide sequencing were used for accurate separation and identification of individual ALP homolog. The C-terminal TaALP-by-4AL/7DS, TaALP-by-4AL/7AS/7DS, TaALP-bx/4AL/7AS/7DS, TaALP-ay-7DS, TaALP-ay-4AL, TaALP-ax-4AL, TaALP-ax-7AS, and TaALP-ax-7DS, were separated as individual protein bands from wheat flour for the first time. These unique ALPs peptides were mapped to the latest wheat genome assembly in the IWGSC database. The characteristic defence related proteins present in albumin and globulin fractions, such as protein disulfide-isomerase (PDI), grain softness protein (GSP), alpha-amylase inhibitors (AAIs) and endogenous alpha-amylase/subtilisin inhibitor were also found to co-segregate with these identified ALPs, avenin-3 and α-gliadins. The molecular weight range and the electrophoresis segregation properties of ALPs were characterised in comparison with the proteins containing the tryp_alpha_amyl domain (PF00234) and the gliadin domain (PF13016), which play a role in plant immunity and grain quality. We examined the phylogenetic relationships of the AAIs, GSP, avenin-3, α-gliadins and ALPs, based on the alignment of their functional domains. MALDI-TOF profiling indicated the occurrence of certain post-translations modifications (PTMs) in some ALP subunits. CONCLUSIONS We reported for the first time the complete profiling of ALPs present in the albumin/globulin fractions of wheat grain protein extracts. We concluded that majority of the ALPs homologs are expressed in wheat grains. We found clear evidence of PTMs in several ALPs peptides. The identification of both gliadin domain (PF13016) and Tryp_alpha_amyl domain (PF00234) in the mature forms of ALPs highlighted the multiple functional properties of ALPs in grain quality and disease resistance.
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Affiliation(s)
- Yujuan Zhang
- Australia-China Joint Centre for Wheat Improvement, Western Australian State Agriculture Biotechnology Centre, School of Veterinary and Life Sciences, Murdoch University, Perth, WA, 6150, Australia
| | - Xin Hu
- Australia-China Joint Centre for Wheat Improvement, Western Australian State Agriculture Biotechnology Centre, School of Veterinary and Life Sciences, Murdoch University, Perth, WA, 6150, Australia
- The Key Laboratory for Quality Improvement of Agricultural Products of Zhejiang Province, School of Agriculture and Food Science, Zhejiang A&F University, Linan, Zhejiang, 311300, Hangzhou, China
| | - Angela Juhasz
- Australia-China Joint Centre for Wheat Improvement, Western Australian State Agriculture Biotechnology Centre, School of Veterinary and Life Sciences, Murdoch University, Perth, WA, 6150, Australia
| | - Shahidul Islam
- Australia-China Joint Centre for Wheat Improvement, Western Australian State Agriculture Biotechnology Centre, School of Veterinary and Life Sciences, Murdoch University, Perth, WA, 6150, Australia
| | - Zitong Yu
- Australia-China Joint Centre for Wheat Improvement, Western Australian State Agriculture Biotechnology Centre, School of Veterinary and Life Sciences, Murdoch University, Perth, WA, 6150, Australia
| | - Yun Zhao
- Australia-China Joint Centre for Wheat Improvement, Western Australian State Agriculture Biotechnology Centre, School of Veterinary and Life Sciences, Murdoch University, Perth, WA, 6150, Australia
| | - Gang Li
- School of Agriculture, Food and Wine, University of Adelaide, Adelaide, 5005, Australia
| | - Wenli Ding
- Nutritional Crop Physiology, Institute of Crop Science, University of Hohenheim, 70599, Stuttgart, Germany
| | - Wujun Ma
- Australia-China Joint Centre for Wheat Improvement, Western Australian State Agriculture Biotechnology Centre, School of Veterinary and Life Sciences, Murdoch University, Perth, WA, 6150, Australia.
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Zhang Y, Hu X, Islam S, She M, Peng Y, Yu Z, Wylie S, Juhasz A, Dowla M, Yang R, Zhang J, Wang X, Dell B, Chen X, Nevo E, Sun D, Ma W. New insights into the evolution of wheat avenin-like proteins in wild emmer wheat ( Triticum dicoccoides). Proc Natl Acad Sci U S A 2018; 115:13312-13317. [PMID: 30530679 PMCID: PMC6310801 DOI: 10.1073/pnas.1812855115] [Citation(s) in RCA: 26] [Impact Index Per Article: 4.3] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 01/22/2023] Open
Abstract
Fifteen full-length wheat grain avenin-like protein coding genes (TaALP) were identified on chromosome arms 7AS, 4AL, and 7DS of bread wheat with each containing five genes. Besides the a- and b-type ALPs, a c type was identified in the current paper. Both a and b types have two subunits, named x and y types. The five genes on each of the three chromosome arms consisted of two x-type genes, two y-type genes, and one c-type gene. The a-type genes were typically of 520 bp in length, whereas the b types were of 850 bp in length, and the c type was of 470 bp in length. The ALP gene transcript levels were significantly up-regulated in Blumeria graminis f. sp. tritici (Bgt)-infected wheat grain caryopsis at early grain filling. Wild emmer wheat [(WEW), Triticum dicoccoides] populations were focused on in our paper to identify allelic variations of ALP genes and to study the influence of natural selection on certain alleles. Consequently, 25 alleles were identified for TdALP-bx-7AS, 13 alleles were identified for TdALP-ax-7AS, 7 alleles were identified for TdALP-ay-7AS, and 4 alleles were identified for TdALP-ax-4AL Correlation studies on TdALP gene diversity and ecological stresses suggested that environmental factors contribute to the ALP polymorphism formation in WEW. Many allelic variants of ALPs in the endosperm of WEW are not present in bread wheat and therefore could be utilized in breeding bread wheat varieties for better quality and elite plant defense characteristics.
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Affiliation(s)
- Yujuan Zhang
- Australia-China Joint Centre for Wheat Improvement, Western Australian State Agriculture Biotechnology Centre, School of Veterinary and Life Sciences, Murdoch University, Perth, WA 6150, Australia
| | - Xin Hu
- Australia-China Joint Centre for Wheat Improvement, Western Australian State Agriculture Biotechnology Centre, School of Veterinary and Life Sciences, Murdoch University, Perth, WA 6150, Australia
- College of Plant Science and Technology, Huazhong Agriculture University, Wuhan, China
| | - Shahidul Islam
- Australia-China Joint Centre for Wheat Improvement, Western Australian State Agriculture Biotechnology Centre, School of Veterinary and Life Sciences, Murdoch University, Perth, WA 6150, Australia
| | - Maoyun She
- Australia-China Joint Centre for Wheat Improvement, Western Australian State Agriculture Biotechnology Centre, School of Veterinary and Life Sciences, Murdoch University, Perth, WA 6150, Australia
| | - Yanchun Peng
- Australia-China Joint Centre for Wheat Improvement, Western Australian State Agriculture Biotechnology Centre, School of Veterinary and Life Sciences, Murdoch University, Perth, WA 6150, Australia
- College of Plant Science and Technology, Huazhong Agriculture University, Wuhan, China
| | - Zitong Yu
- Australia-China Joint Centre for Wheat Improvement, Western Australian State Agriculture Biotechnology Centre, School of Veterinary and Life Sciences, Murdoch University, Perth, WA 6150, Australia
| | - Steve Wylie
- Australia-China Joint Centre for Wheat Improvement, Western Australian State Agriculture Biotechnology Centre, School of Veterinary and Life Sciences, Murdoch University, Perth, WA 6150, Australia
| | - Angela Juhasz
- Australia-China Joint Centre for Wheat Improvement, Western Australian State Agriculture Biotechnology Centre, School of Veterinary and Life Sciences, Murdoch University, Perth, WA 6150, Australia
| | - Mirza Dowla
- Australia-China Joint Centre for Wheat Improvement, Western Australian State Agriculture Biotechnology Centre, School of Veterinary and Life Sciences, Murdoch University, Perth, WA 6150, Australia
| | - Rongchang Yang
- Australia-China Joint Centre for Wheat Improvement, Western Australian State Agriculture Biotechnology Centre, School of Veterinary and Life Sciences, Murdoch University, Perth, WA 6150, Australia
| | - Jingjuan Zhang
- Australia-China Joint Centre for Wheat Improvement, Western Australian State Agriculture Biotechnology Centre, School of Veterinary and Life Sciences, Murdoch University, Perth, WA 6150, Australia
| | - Xiaolong Wang
- Australia-China Joint Centre for Wheat Improvement, Western Australian State Agriculture Biotechnology Centre, School of Veterinary and Life Sciences, Murdoch University, Perth, WA 6150, Australia
| | - Bernard Dell
- Australia-China Joint Centre for Wheat Improvement, Western Australian State Agriculture Biotechnology Centre, School of Veterinary and Life Sciences, Murdoch University, Perth, WA 6150, Australia
| | - Xueyan Chen
- Australia-China Joint Centre for Wheat Improvement, Western Australian State Agriculture Biotechnology Centre, School of Veterinary and Life Sciences, Murdoch University, Perth, WA 6150, Australia
- Crop Research Institute, Shandong Academy of Agricultural Sciences, Jinan, China
| | - Eviatar Nevo
- Institute of Evolution, University of Haifa, Mount Carmel, 3498838 Haifa, Israel
| | - Dongfa Sun
- College of Plant Science and Technology, Huazhong Agriculture University, Wuhan, China;
| | - Wujun Ma
- Australia-China Joint Centre for Wheat Improvement, Western Australian State Agriculture Biotechnology Centre, School of Veterinary and Life Sciences, Murdoch University, Perth, WA 6150, Australia;
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Chen S, Li H. Heat Stress Regulates the Expression of Genes at Transcriptional and Post-Transcriptional Levels, Revealed by RNA-seq in Brachypodium distachyon. FRONTIERS IN PLANT SCIENCE 2016; 7:2067. [PMID: 28119730 PMCID: PMC5222869 DOI: 10.3389/fpls.2016.02067] [Citation(s) in RCA: 25] [Impact Index Per Article: 3.1] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Subscribe] [Scholar Register] [Received: 11/02/2016] [Accepted: 12/26/2016] [Indexed: 05/04/2023]
Abstract
Heat stress greatly affects plant growth/development and influences the output of crops. With the increased occurrence of extreme high temperature, the negative influence on cereal products from heat stress becomes severer and severer. It is urgent to reveal the molecular mechanism in response to heat stress in plants. In this research, we used RNA-seq technology to identify differentially expressed genes (DEGs) in leaves of seedlings, leaves and inflorescences at heading stage of Brachypodium distachyon, one model plant of grasses. Results showed many genes in responding to heat stress. Of them, the expression level of 656 DEGs were altered in three groups of samples treated with high temperature. Gene ontology (GO) analysis showed that the highly enriched DEGs were responsible for heat stress and protein folding. According to KEGG pathway analysis, the DEGs were related mainly to photosynthesis-antenna proteins, the endoplasmic reticulum, and the spliceosome. Additionally, the expression level of 454 transcription factors belonging to 49 gene families was altered, as well as 1,973 splicing events occurred after treatment with high temperature. This research lays a foundation for characterizing the molecular mechanism of heat stress response and identifying key genes for those responses in plants. These findings also clearly show that heat stress regulates the expression of genes not only at transcriptional level, but also at post-transcriptional level.
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Affiliation(s)
- Shoukun Chen
- State Key Laboratory of Crop Stress Biology for Arid Areas, College of Agronomy, Northwest A&F UniversityYangling, China
- Xinjiang Agricultural Vocational Technical CollegeChangji, China
| | - Haifeng Li
- State Key Laboratory of Crop Stress Biology for Arid Areas, College of Agronomy, Northwest A&F UniversityYangling, China
- Xinjiang Agricultural Vocational Technical CollegeChangji, China
- *Correspondence: Haifeng Li,
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