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BMS661: PROTEOMICS > C8 > Flashcards

C8 Flashcards

1
Q

Application of proteomics

A
  • Food
  • Agriculture
  • Medical
  • Warfare
  • Pharmaceutical
  • Environment
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2
Q

Explain protein related to meat quality

A
  • Affects structure & chemical content
  • Study water produce by meat pieces to identify biomarker related to dry cure meat quality
  • Salting, drying, fermentation, ripening & cooking
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3
Q

Applications of proteomics techniques in dry cured meat products

A
  • Pork soup: iTRAQ
  • Jinhua ham: SDS-PAGE, iTRAQ
  • Dry cured ham: MALDI
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4
Q

Application of proteomics techniques in cooked meat product

A
  • Harbin dry sausage: TMT
  • Cooked ham & Mortadella: SDS PAGE, MALDI
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5
Q

Explain the mechanism in dry cured meat

A

Pork soup
- Addition of salt caused 5% more proteolysis
- Decrease protein related to disease
- Generation of bioactive peptide

Jinhua ham
- Addition of salt caused differential expression of protein involved in metabolism & binding
- Enhance of falvour due to increase of creatine kinase & toponin T

Dry cured ham
- 4 titin-derived peptides identify as potential marker for product processing tine

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6
Q

Explain the mechanism in cooked meat products

A

Harbin dry sausage
- P.pentosaceus R1 improved final quality by tolerating oxidative environment during fermentation

Cooked ham
- Denature MHC & solubilised actin
- Cooking cause extensive oxidation of methionine

Mortadella
- Presence of additional covalent interprotein bond
- Abundance IPF

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7
Q

Molecular marker used for plant breeding

A

Marker assisted selection (MAS)

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8
Q

Explain marker assisted selection (MAS) approach

A
  • Use to select desired genes trait loci (QTL)
  • Identify protein quantity loci
  • Useful because through intensity breeding selection, lines could be available with differing phenotypic degrees
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9
Q

Explain proteins as biomarker for plant responses to abiotic & biotic stress

A
  • Contribute to identification of novel proteins revealing differential response in abundance or PTM & representing potential protein marker on stress tolerance
  • Study of plant reaction upon stress at protein level contribute in understanding physiological mechanisms underlying plant stress tolerance
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10
Q

Explain development of proteomics based fungicides

A
  • Open path to friendly control as the fungicides infection infect all parts of plant
  • Use chemo proteomics or TRAP
  • Minimise environmental impact, high specificity & poor penetration into food chain
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11
Q

Application of proteomics in medical studies

A
  • Clinical proteomics
  • Cancer proteomics
  • Nuerodegenerative disease
  • Parkinson disease
  • Diagnosis infectious disease
  • Prognosis
  • Profiling Schizophrenia
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12
Q

Steps in application of clinical proteomics

A
  • Clinical sample collected & process
  • Protein separated according to size & charge
  • Protein sample digested
  • MS
  • Database to identify protein
  • Diagnostic, prognostic & therapeutic target identified
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13
Q

Explain cancer proteomics

A
  • Linking genomics & cellular behaviour, proteomics & functional proteomic are important tools for cancer research
  • Proteomics disease study focus on cancer for early diagnosis
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14
Q

Comparative proteomics approaches are used to study the

A
  • Tumor cell biology
  • Identify protein, complex & specific cellular processes related to cancer
  • Screen biochemical antigenic, tumor staging & subtyping
  • Determine prognosis & response
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15
Q

Explain proteomics to study cancer immunity and improve treatment

A
  • Malignant melanoma, combined ICI therapy causes regression in 50% of patient
  • 25% cancer patients developed acquired resistance
  • Tumor intrinsic cause by the prevention of immune recognition (PD-L1)
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16
Q

Explain proteomics in neurodegenerative disease

A
  • Lead to neuronal cell death
  • Treatment aim to inhibit nuerodegenerative process
  • Reduced expression of protein may be general marker for neurodegeneration
17
Q

Explain Parkinson diseases

A
  • L & M neurofilament chain were down regulated in PD specimen
  • Using proteomics, 222 of differentially expressed protein identified
18
Q

Diagnosis of infectious diseases

A
  • Identify marker in MTB which is rRv3369 & rRv3874
  • Have potential as serodiagnostic antigen
  • Useful as diagnostic tools & therapeutic target
19
Q

Explain application to prognosis

A
  • Proteomic analysis of serum is powerful & invasive tool to identify cardiac rejection
  • Identify protein involved with multidrug resistance & metastasis
20
Q

Explain proteomics profiling in schizophrenia

A
  • Increase knowledge of molecular differences
  • Help to unravel complexity & heterogeneity of the disease
  • Use as non biased screening & analyses postmortem brain tissue
21
Q

Method for anthrax detection.

A
  • Sample injected to LC MS-MS
  • Separation perfomed using column
  • FTMS & MS/MS data collected
  • Raw files converted to Mascot & protein database use from UniProtKB
  • Protein identification validate if protein identified have at leat 2 distinct peptide
22
Q

Application of proteomics in pharmaceutical

A
  • Study protin profiling in drug toxicity
  • Investigate total allergenic activity to create allergy vaccine
  • Detection compound in cosmetic product
  • Quality control in supplements
23
Q

Explain quality control in whey protein based supplements

A
  • Use whey protein (WP)
  • Target of adulteration with substitute product
24
Q

Aim of WP based supplement

A

To identify, quantify & determine the protein sources of WP supplement

25
Q

Method in WP based supplements

A
  • 16 WP based supplements sample evaluated
  • Protien extraction
  • Protein quantification
  • Protein digestion
  • Shotgun analysis
  • Database: UniProt & HDMS
26
Q

Results in WP based supplements

A
  • 10 sample could detect protein
  • 523 protein were identified
  • Soybean, wheat & rice detect at high concentrations
27
Q

Aim of house dust mites study

A
  • Investigate total allergenic activity by study the protein content of HDM to create allergy vaccine to HDM
  • Analyse protein content, total allergenic activity & major allergen from HDM
28
Q

Method use in HDM

A
  • HPLC
  • 2D GE
  • Immunoblotting
  • Immunosorbent assay
  • PMF
  • Semiquantitative dot blot analysis
29
Q

Explain protein profiling ACV induce toxicity using proteomics

A
  • Asses ACV induce nephrotoxicity
  • Identify differentially expressed protein using MS
  • Important tool for studying mechanism of drug induce nephrotoxicity
30
Q

Method use in ACV

A
  • 2DE
  • MALDI - TOF - MS
  • Western blot
31
Q

Challenges in pharmaceuticals

A
  • Analytical tool: 2DE is slow & prone to contamination
  • Drug discovery test: MS is consent & nuisance
  • Cost: use complex instrument & critical computing power
32
Q

Explain environmental monitoring researcg

A
  • Give global view of protein composition of microbial cell
  • Offer approach to understand molecular mechanisms of removal of toxic material
  • Monitoring chemical toxicity & risk is vital to natural resources protection & environmental sustainability
33
Q

Explain next gen proteomics in environmental bio monitoring

A
  • Specific biomarker must be developed to gain efficiency in diagnostic of ecosystems health
  • Next gen proteomics enable specific identification of protein involved in physiological functions or defence mechanisms
34
Q

Method use in next gen protemocs in environmental bio monitoring

A
  • 2D PAGE
  • 2DIGE
  • MALDI-TOF-MS

BMS661: PROTEOMICS (6 decks)

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