Pan-proteomics, a concept for unifying quantitative proteome measurements when comparing closely-related bacterial strains

Journal article


Broadbent, James A., Broszczak, Daniel A., Tennakoon, Imalka U. K. and Huygens, Flavia. (2016). Pan-proteomics, a concept for unifying quantitative proteome measurements when comparing closely-related bacterial strains. Expert Review of Proteomics. 13(4), pp. 355 - 365. https://doi.org/10.1586/14789450.2016.1155986
AuthorsBroadbent, James A., Broszczak, Daniel A., Tennakoon, Imalka U. K. and Huygens, Flavia
Abstract

The comparison of proteomes between genetically heterogeneous bacterial strains may offer valuable insights into physiological diversity and function, particularly where such variation aids in the survival and virulence of clinically-relevant strains. However, reports of such comparisons frequently fail to account for underlying genetic variance. As a consequence, the current knowledge regarding bacterial physiological diversity at the protein level may be incomplete or inaccurate. To address this, greater consideration must be given to the impact of genetic heterogeneity on proteome comparisons. This may be possible through the use of pan-proteomics, an analytical concept that permits the ability to qualitatively and quantitatively compare the proteomes of genetically heterogeneous organisms. Limited examples of this emerging technology highlight currently unmet analytical challenges. In this article we define pan-proteomics, where its value lies in microbiology, and discuss the technical considerations critical to its successful execution and potential future application.

Keywordspan-proteomics; microbiology; bioinformatics; bacterial strains; comparative proteomics; genetic heterogeneity; clinical microbiology
Year2016
JournalExpert Review of Proteomics
Journal citation13 (4), pp. 355 - 365
PublisherTaylor and Francis Ltd
ISSN1478-9450
Digital Object Identifier (DOI)https://doi.org/10.1586/14789450.2016.1155986
Scopus EID2-s2.0-84961217145
Page range355 - 365
Research GroupSchool of Behavioural and Health Sciences
Publisher's version
File Access Level
Controlled
Place of publicationUnited Kingdom
Permalink -

https://acuresearchbank.acu.edu.au/item/88z6v/pan-proteomics-a-concept-for-unifying-quantitative-proteome-measurements-when-comparing-closely-related-bacterial-strains

Restricted files

Publisher's version

  • 108
    total views
  • 0
    total downloads
  • 2
    views this month
  • 0
    downloads this month
These values are for the period from 19th October 2020, when this repository was created.

Export as

Related outputs

Oxidative stress in alzheimer’s disease: A review on emergent natural polyphenolic therapeutics
Luke Cassidy, Francesca Fernandez, Joel Johnson, Mani Naiker, Akeem Owoola and Daniel Broszczak. (2020). Oxidative stress in alzheimer’s disease: A review on emergent natural polyphenolic therapeutics. Complementary Therapies in Medicine. 49, pp. 1-11. https://doi.org/10.1016/j.ctim.2019.102294
Molecular Aspects of Wound Healing and the Rise of Venous Leg Ulceration: Omics Approaches to Enhance Knowledge and Aid Diagnostic Discovery
Broszczak, Daniel, Sydes, Elizabeth R., Wallace, Daniel and Parker, Tony. (2017). Molecular Aspects of Wound Healing and the Rise of Venous Leg Ulceration: Omics Approaches to Enhance Knowledge and Aid Diagnostic Discovery. Clinical Biochemist Reviews. 38(1), pp. 35 - 55.
The biochemistry of blister fluid from pediatric burn injuries: Proteomics and metabolomics aspects
Zang, Tuo, Broszczak, Daniel A., Broadbent, James A., Cuttle, Leila, Lu, Haitao and Parker, Tony J.. (2016). The biochemistry of blister fluid from pediatric burn injuries: Proteomics and metabolomics aspects. Expert Review of Proteomics. 13(1), pp. 35 - 53. https://doi.org/10.1586/14789450.2016.1122528
Mass spectrometry based data of the blister fluid proteome of paediatric burn patients
Zang, Tuo, Broszczak, Daniel A., Cuttle, Leila, Broadbent, James A., Tanzer, Catherine and Parker, Tony J.. (2016). Mass spectrometry based data of the blister fluid proteome of paediatric burn patients. Data in Brief. 8, pp. 1099 - 1110. https://doi.org/10.1016/j.dib.2016.07.033
The blister fluid proteome of paediatric burns
Zang, Tuo, Broszczak, Daniel A., Cuttle, Leila, Broadbent, James A., Tanzer, Catherine and Parker, Tony J.. (2016). The blister fluid proteome of paediatric burns. Journal of Proteomics. 146, pp. 122 - 132. https://doi.org/10.1016/j.jprot.2016.06.026
Choose wisely: Network, ontology and annotation resources for the analysis of Staphylococcus aureus omics data
Broadbent, James A., Sampson, D. L., Broszczak, Daniel A., Upton, Z. and Huygens, Flavia. (2015). Choose wisely: Network, ontology and annotation resources for the analysis of Staphylococcus aureus omics data. International Journal of Medical Microbiology. 305(3), pp. 339 - 347. https://doi.org/10.1016/j.ijmm.2015.02.001
Transdisciplinary collaboration in wound care research
Parker, Christina, Broszczak, Daniel, Edwards, Helen, Upton, Z., Finlayson, Kathleen and Parker, Tony J.. (2015). Transdisciplinary collaboration in wound care research. Wound Practice & Research. 23(4), pp. 179 - 183.
Provisional matrix deposition in hemostasis and venous insufficiency: Tissue preconditioning for nonhealing venous ulcers
Parker, Tony J., Broadbent, James A., McGovern, Jacqui A., Broszczak, Daniel A., Parker, Christina N. and Upton, Zee. (2013). Provisional matrix deposition in hemostasis and venous insufficiency: Tissue preconditioning for nonhealing venous ulcers. Advances in Wound Care. 4(3), pp. 174 - 191. https://doi.org/10.1089/wound.2013.0462
A fragment of the LG3 peptide of endorepellin is present in the urine of physically active mining workers: A potential marker of physical activity
Parker, Tony J., Sampson, D. L., Broszczak, Daniel, Chng, Yee L., Carter, Shea L., Leavesley, David I., Parker, Anthony and Upton, Z.. (2012). A fragment of the LG3 peptide of endorepellin is present in the urine of physically active mining workers: A potential marker of physical activity. PLoS ONE. 7(3), pp. 1 - 12. https://doi.org/10.1371/journal.pone.0033714
Biochemical profiling of proteins and metabolites in wound exudate from chronic wound environments
Broszczak, Daniel, Stupar, Dario, Compay, Arnulf Lloyd L., Sharma, Masti Venugopal Srihari, Parker, Tony J., Shooter, Gary K., Upton, Z. and Fernandez, Melissa L.. (2012). Biochemical profiling of proteins and metabolites in wound exudate from chronic wound environments. Wound Practice & Research. 20(2), pp. 62 - 72.
Human pilot studies reveal the potential of a vitronectin: Growth factor complex as a treatment for chronic wounds
Upton, Zee, Wallace, Hilary J., Shooter, Gary K., van Lonkhuyzen, Derek R., Yeoh-Ellerton, Sim, Rayment, Erin A., Fleming, Jacqui M., Broszczak, Daniel, Queen, Douglas, Sibbald, R. Gary, Leavesley, David I. and Stacey, Michael C.. (2011). Human pilot studies reveal the potential of a vitronectin: Growth factor complex as a treatment for chronic wounds. International Wound Journal. 8(5), pp. 522 - 532. https://doi.org/10.1111/j.1742-481X.2011.00859.x