scholarly journals The Use of Principal Component Analysis in MALDI-TOF MS - a Powerful Tool for Establishing a Mini-optimized Proteomic Profile

2012 ◽  
pp. 85-101 ◽  
Author(s):  
Changli Shao ◽  
Yaping Tian ◽  
Zhennan Dong ◽  
Jing Gao ◽  
Yanhong Gao ◽  
...  
Keyword(s):  
Principal Component Analysis ◽  
Principal Component ◽  
Component Analysis ◽  
Proteomic Profile ◽  
Maldi Tof Ms ◽  
Maldi Tof ◽  
Tof Ms

Principal component analysis of MALDI-TOF MS of whole-cell foodborne pathogenic bacteria

2020 ◽  
Vol 592 ◽  
pp. 113582 ◽  
Author(s):  
Wenjing Yan ◽  
Jing Qian ◽  
Yongjie Ge ◽  
Keping Ye ◽  
Cunshan Zhou ◽  
...  
Keyword(s):  
Principal Component Analysis ◽  
Pathogenic Bacteria ◽  
Principal Component ◽  
Component Analysis ◽  
Whole Cell ◽  
Maldi Tof Ms ◽  
Maldi Tof ◽  
Foodborne Pathogenic Bacteria ◽  
Tof Ms

Collagen-based proteinaceous binder-pigment interaction study under UV ageing conditions by MALDI-TOF-MS and principal component analysis

2012 ◽  
Vol 47 (3) ◽  
pp. 322-330 ◽  
Author(s):  
Julia Romero-Pastor ◽  
Natalia Navas ◽  
Stepanka Kuckova ◽  
Alejandro Rodríguez-Navarro ◽  
Carolina Cardell
Keyword(s):  
Principal Component Analysis ◽  
Principal Component ◽  
Component Analysis ◽  
Interaction Study ◽  
Maldi Tof Ms ◽  
Maldi Tof ◽  
Uv Ageing ◽  
Proteinaceous Binder ◽  
Tof Ms

scholarly journals Principal component analysis of MALDI TOF MS mass spectra separates M. abscessus (sensu stricto) from M. massiliense isolates

2016 ◽  
Vol 16 (1) ◽  
Author(s):  
Jan Kehrmann ◽  
Sarah Wessel ◽  
Roshni Murali ◽  
Annegret Hampel ◽  
Franz-Christoph Bange ◽  
...  
Keyword(s):  
Principal Component Analysis ◽  
Mass Spectra ◽  
Principal Component ◽  
Component Analysis ◽  
Sensu Stricto ◽  
Maldi Tof Ms ◽  
Maldi Tof ◽  
Tof Ms

scholarly journals Original research Serum proteomic profile analysis for endometrial carcinoma detection with MALDI-TOF MS

2010 ◽  
Vol 2 ◽  
pp. 245-252 ◽  
Author(s):  
Feng Qiu ◽  
Yan H. Gao ◽  
Chao G. Jiang ◽  
Ya P. Tian ◽  
Xue J. Zhang
Keyword(s):  
Endometrial Carcinoma ◽  
Profile Analysis ◽  
Original Research ◽  
Proteomic Profile ◽  
Maldi Tof Ms ◽  
Maldi Tof ◽  
Tof Ms

Discrimination of toxic ingredient between raw and processed Pinellia ternata by UPLC/Q-TOF-MS/MS with principal component analysis and T-test

2019 ◽  
Vol 11 (2) ◽  
pp. 200-208 ◽  
Author(s):  
Xing-ying Zhai ◽  
Ling Zhang ◽  
Bing-tao Li ◽  
Yu-lin Feng ◽  
Guo-liang Xu ◽  
...  
Keyword(s):  
Principal Component Analysis ◽  
Principal Component ◽  
Component Analysis ◽  
T Test ◽  
Pinellia Ternata ◽  
Tof Ms

scholarly journals Discrimination between Asian populations of the parasitoid wasp Ganaspis cf. brasiliensis using a simple MALDI-TOF MS-based method for use with insects

2019 ◽  
Vol 4 (1) ◽  
Author(s):  
Michael A Reeve ◽  
M Lukas Seehausen
Keyword(s):  
Reference Sample ◽  
Principal Component ◽  
Parasitoid Wasp ◽  
Test Sample ◽  
Invasive Pest ◽  
Drosophila Suzukii ◽  
Maldi Tof Ms ◽  
Chinese Populations ◽  
Maldi Tof ◽  
Tof Ms

Abstract The fruit fly Drosophila suzukii has recently become an invasive pest insect of significant economic impact in Europe and the USA. In contrast to other Drosophila species, D. suzukii is able to infest intact fruit by means of a saw-like ovipositor, which allows females to deposit eggs beneath the skin of the fruit. Classical biological control using the parasitoid wasp Ganaspis cf. brasiliensis is currently being researched as an environmentally sustainable option for the control of D. suzukii. In particular, the host specificity of this parasitoid has been assessed for populations from different regions in China and Japan. In order to study the relationship between the differences in specificity and molecular variations, we have adapted a matrix-assisted laser-desorption and ionization time-of-flight mass spectrometry (MALDI-TOF MS)-based method, originally developed for use with plant material, to discriminate between example populations of G. cf. brasiliensis. We have employed a combination of principal component analysis and blind-tested comparison between reference sample MALDI-TOF MS spectra and test sample spectra to discriminate, on the basis of the acid-soluble insect protein spectra generated, between four populations of G. cf. brasiliensis (originally collected from Tokyo and Hasuike in Japan and Dali and Ximing in China). MALDI-TOF MS analysis is able to discriminate with 100% accuracy between populations G. cf. brasiliensis. The Chinese populations were observed to be similar, but the Tokyo population is slightly different and the Hasuike population is significantly different from the other populations. The Tokyo population appears more closely related to the Chinese populations than the Hasuike population, even though both originate from Japan.

scholarly journals Novel Method for Reliable Identification of Siccibacter and Franconibacter Strains: from “Pseudo-Cronobacter” to New Enterobacteriaceae Genera

2017 ◽  
Vol 83 (13) ◽  
Author(s):  
Barbora Svobodová ◽  
Jiří Vlach ◽  
Petra Junková ◽  
Ludmila Karamonová ◽  
Martina Blažková ◽  
...  
Keyword(s):  
Intact Cell ◽  
Foodborne Pathogen ◽  
Principal Component ◽  
Powdered Infant Formula ◽  
Content Type ◽  
Reliable Identification ◽  
Maldi Tof Ms ◽  
Maldi Tof ◽  
Maldi Biotyper ◽  
Tof Ms

ABSTRACT In the last decade, strains of the genera Franconibacter and Siccibacter have been misclassified as first Enterobacter and later Cronobacter. Because Cronobacter is a serious foodborne pathogen that affects premature neonates and elderly individuals, such misidentification may not only falsify epidemiological statistics but also lead to tests of powdered infant formula or other foods giving false results. Currently, the main ways of identifying Franconibacter and Siccibacter strains are by biochemical testing or by sequencing of the fusA gene as part of Cronobacter multilocus sequence typing (MLST), but in relation to these strains the former is generally highly difficult and unreliable while the latter remains expensive. To address this, we developed a fast, simple, and most importantly, reliable method for Franconibacter and Siccibacter identification based on intact-cell matrix-assisted laser desorption ionization–time of flight mass spectrometry (MALDI-TOF MS). Our method integrates the following steps: data preprocessing using mMass software; principal-component analysis (PCA) for the selection of mass spectrum fingerprints of Franconibacter and Siccibacter strains; optimization of the Biotyper database settings for the creation of main spectrum projections (MSPs). This methodology enabled us to create an in-house MALDI MS database that extends the current MALDI Biotyper database by including Franconibacter and Siccibacter strains. Finally, we verified our approach using seven previously unclassified strains, all of which were correctly identified, thereby validating our method. IMPORTANCE We show that the majority of methods currently used for the identification of Franconibacter and Siccibacter bacteria are not able to properly distinguish these strains from those of Cronobacter. While sequencing of the fusA gene as part of Cronobacter MLST remains the most reliable such method, it is highly expensive and time-consuming. Here, we demonstrate a cost-effective and reliable alternative that correctly distinguishes between Franconibacter, Siccibacter, and Cronobacter bacteria and identifies Franconibacter and Siccibacter at the species level. Using intact-cell MALDI-TOF MS, we extend the current MALDI Biotyper database with 11 Franconibacter and Siccibacter MSPs. In addition, the use of our approach is likely to lead to a more reliable identification scheme for Franconibacter and Siccibacter strains and, consequently, a more trustworthy epidemiological picture of their involvement in disease.

scholarly journals Principal component analysis on LC‑MS/MS and 2DE‑MALDI‑TOF in glioblastoma cell lines reveals that mitochondria act as organelle sensors of the metabolic state in glioblastoma

2020 ◽  
Vol 44 (2) ◽  
pp. 661-673
Author(s):  
Leopoldo Gómez‑Caudillo ◽  
Ariadna Ortega‑Lozano ◽  
Ángel Martínez‑Batallar ◽  
Haydee Rosas‑Vargas ◽  
Fernando Minauro‑Sanmiguel ◽  
...  
Keyword(s):  
Principal Component Analysis ◽  
Cell Lines ◽  
Principal Component ◽  
Component Analysis ◽  
Glioblastoma Cell ◽  
Metabolic State ◽  
Maldi Tof ◽  
Glioblastoma Cell Lines

scholarly journals The use of principle component analysis and MALDI-TOF MS for the differentiation of mineral forming Virgibacillus and Bacillus species isolated from sabkhas

RSC Advances ◽  
2020 ◽  
Vol 10 (25) ◽  
pp. 14606-14616 ◽  
Author(s):  
Rim Abdel Samad ◽  
Zulfa Al Disi ◽  
Mohammad Yousaf Mohammad Ashfaq ◽  
Sara Mohiddin Wahib ◽  
Nabil Zouari
Keyword(s):  
Principle Component Analysis ◽  
Component Analysis ◽  
Bacillus Species ◽  
Maldi Tof Ms ◽  
Principle Component ◽  
Maldi Tof ◽  
Tof Ms

Occurrence of mineral forming and other bacteria in mats is well demonstrated.

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