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1. Inventory of proteoforms as a current challenge of proteomics: Some technical aspects

Author:
Naryzhny, Stanislav
Source:
Journal of proteomics 2019 v.191 pp. 22-28
ISSN:
1874-3919
Subject:
two-dimensional gel electrophoresis,   etc   ; genes; humans; mass spectrometry; proteome; proteomics;     Show all 6 Subjects
Abstract:
... The main intricacy in the human proteome is that it is tremendously complex and composed from diverse and heterogeneous gene products. These products are called protein species or proteoforms and are the smallest units of the proteome. In pursuit of the comprehensive profiling of the human proteome, significant advances in the technology of so called “Top-Down” mass spectrometry based proteomics, ...
DOI:
10.1016/j.jprot.2018.05.008

2. Proteomic and microscopic approaches in understanding mechanisms of shell-loosening of shrimp (Pandalus borealis) induced by high pressure and protease

Author:
Dang, Tem Thi; Jessen, Flemming; Martens, Helle Juel; Gringer, Nina; Olsen, Karsten; Bøknæs, Niels; Orlien, Vibeke
Source:
Food chemistry 2019 v.289 pp. 729-738
ISSN:
0308-8146
Subject:
two-dimensional gel electrophoresis,   etc   ; Pandalus borealis; collagen; microscopy; molecular weight; peeling; proteinases; proteomics; shrimp;     Show all 9 Subjects
Abstract:
... Shell-loosening is of importance in facilitating shrimp peeling. In this study, enzyme and high pressure (HP) improved the shell-loosening at different degrees, which were observed as gaps by microscopy. The shell-loosening gap induced by an endoprotease with broad specificity (Endocut-03L, 53 μm) was much higher than that induced by HP at 100 MPa (HP100, 12 μm), followed by an endoprotease with h ...
DOI:
10.1016/j.foodchem.2019.03.059

3. Refinement of two-dimensional electrophoresis for vitreous proteome profiling using an artificial neural network

Author:
Santos, Fátima M.; Albuquerque, Tânia; Gaspar, Leonor M.; Dias, João M. L.; Castro e Sousa, João P.; Paradela, Alberto; Tomaz, Cândida T.; Passarinha, Luís A.
Source:
Analytical and bioanalytical chemistry 2019 v.411 no.20 pp. 5115-5126
ISSN:
1618-2642
Subject:
two-dimensional gel electrophoresis,   etc   ; experimental design; gels; neural networks; proteins; proteome; solubilization; temperature;     Show all 8 Subjects
Abstract:
... Despite technological advances, two-dimensional electrophoresis (2DE) of biological fluids, such as vitreous, remains a major challenge. In this study, artificial neural network was applied to optimize the recovery of vitreous proteins and its detection by 2DE analysis through the combination of several solubilizing agents (CHAPS, Genapol, DTT, IPG buffer), temperature, and total voltage. The high ...
DOI:
10.1007/s00216-019-01887-y

4. Urea can inhibit efficient reduction and alkylation of protein dimers in solution demonstrated by the beta subunit of alpha glucosidase II

Author:
Kumari, Meena; Anji, Antje
Source:
Analytical biochemistry 2019 v.566 pp. 20-22
ISSN:
0003-2697
Subject:
two-dimensional gel electrophoresis,   etc   ; alkylation; alpha-glucosidase; antibodies; brain; mass spectrometry; mice; molecular weight; proteins; urea;     Show all 10 Subjects
Abstract:
... Protein reduction and alkylation is routinely used for analysis of protein dimers and protein complexes in cell fractions using two dimensional gel electrophoresis and mass spectrometry. To resolve the heterogeneity of a high molecular weight protein band that is highlighted by an antibody to the beta subunit of alpha glucosidase II (GIIβ), we performed reduction and alkylation of cytosolic protei ...
DOI:
10.1016/j.ab.2018.10.008

5. Native supramolecular protein complexes in pulmonary surfactant: Evidences for SP-A/SP-B interactions

Author:
Martínez-Calle, Marta; Alonso, Alejandro; Pérez-Gil, Jesús; Olmeda, Bárbara
Source:
Journal of proteomics 2019 pp. 103466
ISSN:
1874-3919
Subject:
two-dimensional gel electrophoresis,   etc   ; detergents; hydrophobicity; liquid-air interface; lungs; phospholipids; precipitin tests; solubilization; solvents; surface tension; surfactant proteins; surfactants;     Show all 12 Subjects
Abstract:
... Pulmonary surfactant is a lipid-protein complex which coats lung alveoli. It displays the essential function of reducing surface tension at the air-liquid interface, avoiding alveolar collapse during expiration. The optimized biophysical properties of surfactant rely on its defined composition, constituted mainly by phospholipids and tiny amounts of lipid-associated specific proteins. Due to the h ...
DOI:
10.1016/j.jprot.2019.103466

6. Proteomic profile of histotroph during early embryo development in mares

Author:
Bastos, H.B.A.; Martinez, M.N.; Camozzato, G.C.; Estradé, M.J.; Barros, E.; Vital, C.E.; Vidigal, P.M.P.; Meikle, A.; Jobim, M.I.M.; Gregory, R.M.; Mattos, R.C.
Source:
Theriogenology 2019 v.125 pp. 224-235
ISSN:
0093-691X
Subject:
two-dimensional gel electrophoresis,   etc   ; adenosine triphosphate; angiogenesis; cell proliferation; conceptus; embryogenesis; lipids; mares; mass spectrometry; metabolism; ovulation; pregnancy; proteins; stallions;     Show all 14 Subjects
Abstract:
... There is a complex cascade involving proteins during early embryo development and maternal recognition, which is very important for maintenance of a conceptus. The aim of this study was to compare proteomic profile of uterine fluid after ovulation in pregnant and cyclic mares. In the first cycle, samples of uterine fluid of 30 cyclic mares were collected on days 7 (n = 10), 10 (n = 10) and 13 (n = ...
DOI:
10.1016/j.theriogenology.2018.11.002

7. Changes in intestinal proteins induced by colostrum uptake in neonatal calves: analysis by two-dimensional gel electrophoresis-based proteomics analysis

Author:
Yang, Yongxin; Zhao, Xiaowei; Huang, Dongwei; Wang, Jing; Qi, Yunxia; Jiang, Linshu; Zhao, Huiling; Cheng, Guanglong
Source:
Animal production science 2019 v.59 no.8 pp. 1483-1490
ISSN:
1836-0939
Subject:
two-dimensional gel electrophoresis,   etc   ; beta-lactoglobulin; calves; colostrum; duodenum; gels; ileum; immunoglobulin G; jejunum; mass spectrometry; passive immunity; proteomics; rearing;     Show all 13 Subjects
Abstract:
... Colostrum is a unique source of biological molecules, and the uptake of colostrum immunoglobulin G (IgG) by neonatal calves is related to the success of passive immunity transfer, an important determinant of health and survival. However, studies on colostral IgG uptake in the small intestine by using proteomics approaches have been scarce. In the present study, samples of the duodenum, jejunum and ...
DOI:
10.1071/AN18242

8. Short communication: Application of proteomics for characterization of caseinomacropeptide isoforms before and after desialidation

Author:
Sunds, Anne Vuholm; Poulsen, Nina Aagaard; Larsen, Lotte Bach
Source:
Journal of dairy science 2019 v.102 no.10 pp. 8696-8703
ISSN:
0022-0302
Subject:
two-dimensional gel electrophoresis,   etc   ; bioactive properties; cheese whey; functional properties; genetic variation; glycosylation; isoelectric point; isomers; liquid chromatography; liquids; mass spectrometry; phosphorylation; polypeptides; proteomics; sialidase;     Show all 15 Subjects
Abstract:
... Caseinomacropeptide (CMP) is an important polypeptide found in cheese whey that has various biological activities and functional properties. Because sialylations play an important role in the functional properties of CMP, the aim of the present work was to characterize CMP isoform heterogeneity in a commercial glycosylated CMP (gCMP) isolate using liquid chromatography– and gel-based proteomics be ...
DOI:
10.3168/jds.2019-16617

9. Floral nectar chitinase is a potential marker for monofloral honey botanical origin authentication: A case study from loquat (Eriobotrya japonica Lindl.)

Author:
Song, Yue-Qin; Milne, Richard I.; Zhou, Hong-Xia; Ma, Xue-Long; Fang, Jiang-Yu; Zha, Hong-Guang
Source:
Food chemistry 2019 v.282 pp. 76-83
ISSN:
0308-8146
Subject:
two-dimensional gel electrophoresis,   etc   ; Brassica napus; Camellia sinensis; Eriobotrya japonica; adulterated products; botanical composition; case studies; chitinase; enzyme activity; flowers; honey; loquats; mass spectrometry; nectar; proteomics;     Show all 15 Subjects
Abstract:
... Honey, as a commercial product, is a target of adulteration through inappropriate production practices and deliberate mislabelling of botanical origin. Floral nectar protein could be a good marker for determining the source flowers of honey, especially monofloral honeys. Here, nectar and monofloral honey from Eriobotrya japonica Lindl. (loquat) were systematically compared, especially regarding pr ...
DOI:
10.1016/j.foodchem.2018.12.107

10. Proteome study of embryogenic competence acquisition in the callus cultures of Nothapodytes nimmoniana (J. Graham) Mabberly

Author:
Isah, Tasiu; Umar, Shahid
Source:
Acta physiologiae plantarum 2019 v.41 no.6 pp. 96
ISSN:
0137-5881
Subject:
two-dimensional gel electrophoresis,   etc   ; alkaloids; callus; callus culture; energy metabolism; forest trees; mass spectrometry; monoterpenoids; oxidative stress; protein synthesis; proteins; proteome; somatic embryogenesis; trade;     Show all 14 Subjects
Abstract:
... Among the alternative plant sources of camptothecin (CPT), Nothapodytes nimmoniana is regarded as the most convenient source for large-scale isolation of the monoterpenoid indole anticancer alkaloid. As a result, CPT annual trade value has grossed over billion US Dollars in recent years. Somatic embryogenesis (SE) offers potential application in the rapid clonal propagation of the tree and product ...
DOI:
10.1007/s11738-019-2896-8

11. The Discovery of Proteins Associated with Freshness of Coregonus Peled Muscle During Refrigerated Storage

Author:
Deng, Xiaorong; Lei, Yongdong; Yu, Yawen; Lu, Shiling; Zhang, Jian
Source:
Journal of food science 2019 v.84 no.6 pp. 1266-1272
ISSN:
0022-1147
Subject:
two-dimensional gel electrophoresis,   etc   ; Coregonus; adenylate kinase; biomarkers; cold storage; desorption; fish; food matrix; freshness; isozymes; lactate dehydrogenase; mass spectrometry; meat quality; muscles; myosin heavy chains; proteomics;     Show all 16 Subjects
Abstract:
... The aim of this study is to identify the protein indicator of freshness of Coregonus peled using two‐dimensional gel electrophoresis (2‐DE) and matrix‐assisted laser desorption ionization‐time‐of‐flight/time‐of‐flight mass spectrometry (MALDI‐TOF/TOF MS) methods. Samples were obtained prior to (control group) and 2, 4, 6, and 8 days after refrigerated storage for quality and proteomics analysis. T ...
DOI:
10.1111/1750-3841.14639

12. The optimum conditions and mechanism for increasing exo-polysaccharide production of Truffles melanosporum by Dioscorea saponins

Author:
Zhang, Zhicai; Wang, Jia; Liu, Lu; Shun, Quanshan; Shi, Wenjing; Liu, Xiaocui; Wang, Feng
Source:
Lebensmittel-Wissenschaft + [i.e. und] Technologie 2019 v.107 pp. 331-339
ISSN:
0023-6438
Subject:
two-dimensional gel electrophoresis,   etc   ; Dioscorea; corn flour; exopolysaccharides; food industry; herbs; inoculum; manufacturing; peptones; potassium dihydrogen phosphate; potassium nitrate; saponins; sucrose; synergism; temperature; truffles; yeast extract;     Show all 17 Subjects
Abstract:
... Polysaccharides have multiple biomedical functions. In the present study, we explored the optimal culture conditions and mechanism to increase exo-polysaccharide (EPS) production (DSEAEPS) of Truffles melanosporum by Dioscorea saponins (DS). DS was screened by comparing effect of herbs on EPS production of T. melanosporum, and DSEAEPS was assessed by two-dimensional gel electrophoresis. Effects of ...
DOI:
10.1016/j.lwt.2019.03.011

13. Proteomic identification of lipid-bodies-associated proteins in maize seeds

Author:
Du, Cui; Liu, Aimei; Niu, Liangjie; Cao, Di; Liu, Hui; Wu, Xiaolin; Wang, Wei
Source:
Acta physiologiae plantarum 2019 v.41 no.5 pp. 70
ISSN:
0137-5881
Subject:
two-dimensional gel electrophoresis,   etc   ; corn; data collection; enzymes; germination; glycoproteins; lipid bodies; lipids; mass spectrometry; oleosin; proteomics; seed development; seedling growth; seeds; tissues;     Show all 15 Subjects
Abstract:
... Seeds store lipids in the form of lipid bodies (LBs) for germination and early seedling growth. LBs can be easily isolated by the established floating-extraction method from oleaginous seeds containing a large quantity of LBs. Compared to oleaginous seeds, maize and other cereal seeds contain a small quantity of LBs, so it is difficult to isolate a sufficient quantity of LBs from their embryos for ...
DOI:
10.1007/s11738-019-2854-5

14. Differential protein profiles in interspecific hybrids between Elaeis oleifera and E. guineensis with contrasting responses to somatic embryogenesis competence acquisition

Author:
Almeida, Raphael Ferreira; Santos, Ivonaldo Reis; Meira, Filipe Sathler; Grynberg, Priscila; Lopes, Ricardo; da Cunha, Raimundo Nonato Vieira; Franco, Octávio L.; Scherwinski-Pereira, Jonny Everson; Mehta, Angela
Source:
Plant cell, tissue, and organ culture 2019 v.137 no.1 pp. 11-21
ISSN:
0167-6857
Subject:
two-dimensional gel electrophoresis,   etc   ; Elaeis guineensis; Elaeis oleifera; callus; cell proliferation; energy; energy metabolism; explants; genotype; hybrids; interspecific hybridization; leaves; oxidation; oxidative stress; protein composition; proteins; somatic embryogenesis;     Show all 17 Subjects
Abstract:
... Understanding the molecular events that initiate somatic embryogenesis (SE) may help optimize clonal propagation protocols in oil palm. The objective of this work was to identify differentially abundant proteins during the induction of SE in two interspecific F1 hybrids of Elaeis oleifera × Elaeis guineensis with contrasting responses (responsive and non-responsive) to the SE process. Leaf explant ...
DOI:
10.1007/s11240-018-01545-8

15. Proteomic analysis of the inhibitory effect of oligochitosan on the fungal pathogen, Botrytis cinerea

Author:
Sui, Yuan; Ma, Zengxin; Meng, Xianghong
Source:
Journal of the science of food and agriculture 2019 v.99 no.5 pp. 2622-2628
ISSN:
0022-5142
Subject:
two-dimensional gel electrophoresis,   etc   ; Botrytis cinerea; cell division; chitosan; enzymes; financial economics; fungi; fungicides; horticultural crops; molecular chaperones; pathogens; phosphatidylserines; protein synthesis; proteome; proteomics; serine; spore germination; spores;     Show all 18 Subjects
Abstract:
... BACKGROUND: The fungal pathogen Botrytis cinerea infects a broad range of horticultural plants worldwide, resulting in significant economic losses. A derivative of chitosan, oligochitosan, has been reported to be an eco‐friendly alternative to synthetic fungicides. RESULTS: Oligochitosan can greatly inhibit B. cinerea spore germination and induce protein carbonylation. To further investigate the m ...
DOI:
10.1002/jsfa.9480

16. Proteomic analysis of iron-regulated membrane proteins identify FhuE receptor as a target to inhibit siderophore-mediated iron acquisition in Acinetobacter baumannii

Author:
Tiwari, Vishvanath; Rajeswari, Moganty R.; Tiwari, Monalisa
Source:
International journal of biological macromolecules 2019 v.125 pp. 1156-1167
ISSN:
0141-8130
Subject:
two-dimensional gel electrophoresis,   etc   ; Acinetobacter baumannii; antibacterial properties; bacteria; immunity; iron; liquid chromatography; mechanics; membrane proteins; nutrient availability; proteomics; screening; siderophores; tandem mass spectrometry;     Show all 14 Subjects
Abstract:
... Survival of the Acinetobacter baumannii inside host requires different micronutrients such as iron, but their bioavailability is limited because of nutritional immunity created by host. A. baumannii has to develop mechanisms to acquire nutrient iron during infection. The present study is an attempt to identify membrane proteins involved in iron sequestration mechanism of A. baumannii using two-dim ...
DOI:
10.1016/j.ijbiomac.2018.12.173

17. Biomarkers mapping of neuropathic pain in a nerve chronic constriction injury mice model

Author:
Vincenzetti, S.; Pucciarelli, S.; Huang, Y.; Ricciutelli, M.; Lambertucci, C.; Volpini, R.; Scuppa, G.; Soverchia, L.; Ubaldi, M.; Polzonetti, V.
Source:
Biochimie 2019 v.158 pp. 172-179
ISSN:
0300-9084
Subject:
two-dimensional gel electrophoresis,   etc   ; animal models; antidepressants; biomarkers; blood serum; etiology; haptoglobins; mass spectrometry; mice; nerve tissue; pain; patients; prealbumin; quality of life; surgery;     Show all 15 Subjects
Abstract:
... Neuropathic pain is caused by a lesion or disease of the somatosensory nervous system and has a considerable impact on the quality of life. Neuropathic pain has a dynamic and complex aetiology and gives heterogeneous symptoms across patients; therefore, it represents an important clinical challenge. Current pharmacological treatment includes tricyclic antidepressant serotonin-noradrenaline uptake ...
DOI:
10.1016/j.biochi.2019.01.005

18. Proteomic analysis of Tianzhu White Yak (Bos grunniens) testis at different sexual developmental stages

Author:
Ruan, Chong‐Mei; Wang, Jing; Yang, Yong‐Xin; Hu, Jun‐Jie; Ma, You‐Ji; Zhang, Yong; Zhao, Xing‐Xu
Source:
Animal science journal = 2019 v.90 no.3 pp. 333-343
ISSN:
1344-3941
Subject:
two-dimensional gel electrophoresis,   etc   ; Western blotting; antioxidants; catalytic activity; developmental stages; heat stress; males; mass spectrometry; protein composition; protein synthesis; proteins; proteomics; reproduction; testes; yaks;     Show all 15 Subjects
Abstract:
... To explore the protein expression profiles of white yak (Bos grunniens) testis at different sexual developmental stages. The protein profiles of yak testis were determined using two‐dimensional electrophoresis and the expression levels of 298 protein spots were analyzed. Mass spectrometry was performed to identify those significantly differential expressed proteins; Western blotting was used to co ...
DOI:
10.1111/asj.13157

19. Proteomic evaluation of the freshly isolated cyanobionts from Azolla microphylla exposed to salinity stress

Author:
Yadav, Ravindra Kumar; Tripathi, Keshawanand; Mishra, Vagish; Ramteke, Pramod Wasudeo; Singh, Pawan Kumar; Abraham, Gerard
Source:
Symbiosis 2019 v.77 no.3 pp. 249-256
ISSN:
0334-5114
Subject:
two-dimensional gel electrophoresis,   etc   ; Anabaena azollae; Azolla microphylla; nitrogen fixation; protein synthesis; proteins; proteome; proteomics; salinity; salt stress; sodium chloride; symbiosis; tandem mass spectrometry;     Show all 13 Subjects
Abstract:
... The cyanobiont Anabaena azollae performs nitrogen fixation in the agronomically important Azolla-Anabaena system. However, the response of the cyanobiont to salinity has not been studied at the molecular level. In the present study Azolla microphylla plants were exposed to salinity (90 mM NaCl) for 3 days and the cyanobionts have been isolated. The proteome profile of the freshly isolated cyanobio ...
DOI:
10.1007/s13199-018-0586-8

20. Influence of oxidative damage to proteins on meat tenderness using a proteomics approach

Author:
Malheiros, Jessica Moraes; Braga, Camila Pereira; Grove, Ryan Albert; Ribeiro, Felipe Azevedo; Calkins, Chris Richard; Adamec, Jiri; Chardulo, Luis Artur Loyola
Source:
Meat science 2019 v.148 pp. 64-71
ISSN:
0309-1740
Subject:
two-dimensional gel electrophoresis,   etc   ; Angus; actin; beef; biochemical pathways; cattle; derivatization; desmin; enzymes; fluorescent dyes; heat shock proteins; hydrazides; meat tenderness; myosin; oxidation; proteomics; structural proteins; troponin T;     Show all 18 Subjects
Abstract:
... The objective of this study was to evaluate the association between oxidative damage to proteins (represented by protein carbonylation) and beef tenderness. Three experimental groups were selected by shear force (SF): tender (38.2 ± 2.9 N), intermediate (51.9 ± 6.8 N), and tough meat (74.5 ± 7.8 N). Two-dimensional electrophoresis with hydrazide fluorophore derivatization was used. The structural ...
DOI:
10.1016/j.meatsci.2018.08.016