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Book ; Online: A Combined approach of MALDI-TOF Mass Spectrometry and multivariate analysis as a potential tool for the detection of SARS-CoV-2 virus in nasopharyngeal swabs.

Maria Florencia Rocca / JONATHAN ZINTGRAFF

2020

Abstract: The spectra were provided as unprocessed raw data in the manufacturers data format (Bruker), as labelled two zip archives with SARS CoV 2 positives and negative, according to the reviewer's recommendation. This information belongs to the publication (in ... ...

Abstract	The spectra were provided as unprocessed raw data in the manufacturers data format (Bruker), as labelled two zip archives with SARS CoV 2 positives and negative, according to the reviewer's recommendation. This information belongs to the publication (in review in Journal of Virological Methods) "A Combined approach of MALDI-TOF Mass Spectrometry and multivariate analysis as a potential tool for the detection of SARS-CoV-2 virus in nasopharyngeal swabs" All the information belongs to the National Reference Institute, INEI-ANLIS DR CARLOS G MALBRAN, BUENOS AIRES, ARGENTINA.
Keywords	MALDI-TOF ; SPECTRA ; covid19
Publishing date	2020-08-25
Publishing country	eu
Document type	Book ; Online
Database	BASE - Bielefeld Academic Search Engine (life sciences selection)

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Article ; Online: Exploring

Zintgraff, Jonathan / Rocca, Florencia / Eluchans, Nahuel Sánchez / Irazu, Lucía / Moscoloni, Maria Alicia / Lara, Claudia / Santos, Mauricio

Journal of mass spectrometry and advances in the clinical lab

2023 Volume 30, Page(s) 61–73

Abstract: Introduction: Laboratory surveillance of : Objectives: In this study, we aimed to investigate the viability of utilizing MALDI-TOF MS technology as an adjunctive and screening method for capsular typing of : Methods: Firstly, we established a ... ...

Abstract	Introduction: Laboratory surveillance of Objectives: In this study, we aimed to investigate the viability of utilizing MALDI-TOF MS technology as an adjunctive and screening method for capsular typing of Methods: Firstly, we established a comprehensive spectral database comprising isolates of serotypes present in the PCV13 vaccine, along with the top 10 most prevalent NON PCV13 serotypes based on local epidemiological data. This database served as a foundation for developing unsupervised models utilizing MALDI-TOF MS spectra, which enabled us to identify inherent patterns and relationships within the data. Our analysis involved a dataset comprising 215 new isolates collected from nationwide surveillance in Argentina. Our approach involved developing classification models based on MALDI-TOF MS to discern between Results: Although our findings revealed suboptimal performance in serotype classification, they provide valuable insights into the potential of machine learning algorithms in this context. The sensitivity of the models ranged from 0.41 to 0.46, indicating their ability to detect certain serotypes. The observed specificity consistently remained at 0.60, suggesting a moderate level of accuracy in identifying non-vaccine serotypes. These results highlight the need for further refinement and optimization of the algorithms to enhance their discriminative power and predictive accuracy in serotype identification.By addressing the limitations identified in this study, such as exploring alternative feature selection techniques or optimizing algorithm parameters, we can unlock the full potential of machine learning in robust and reliable serotype classification of Conclusion: Overall, our study contributes to the growing body of research on utilizing MALDI-TOF MS and machine learning algorithms for serotype identification purposes.
Language	English
Publishing date	2023-11-25
Publishing country	Netherlands
Document type	Journal Article
ISSN	2667-145X
ISSN (online)	2667-145X
DOI	10.1016/j.jmsacl.2023.11.003
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Article: Presentación del sitio web de la Red Nacional de Identificación Microbiológica por Espectrometría de Masas. Manual para la interpretación de resultados de MALDI-TOF MS.

Rocca, Maria Florencia / Almuzara, Marisa / Barberis, Claudia / Vay, Carlos / Viñes, Pilar / Prieto, Mónica

Revista Argentina de microbiologia

2019 Volume 52, Issue 1, Page(s) 83–84

Title translation	Presentation of the National Network for Microbiological Identification by Mass Spectrometry website. Guide for the interpretation of MALDI-TOF MS results.
MeSH term(s)	Argentina ; Bacteria/isolation & purification ; Databases, Factual ; Fungi/isolation & purification ; Humans ; Internet ; Spectrometry, Mass, Matrix-Assisted Laser Desorption-Ionization
Language	Spanish
Publishing date	2019-06-06
Publishing country	Argentina
Document type	Letter
ZDB-ID	731952-6
ISSN	0325-7541
ISSN	0325-7541
DOI	10.1016/j.ram.2019.03.001
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Article ; Online: Corrigendum to "First Argentine database for the accurate identification of Brucella to species level by MALDI-TOF MS" [ACTA TROPICA, volume 248, year 2023, Article 107036].

Celestino, Celina Analía / Rocca, María Florencia / Ayala, Sandra Marcela / Irazu, Lucía / Escobar, Gabriela Ileana

Acta tropica

2023 Volume 250, Page(s) 107080

Language	English
Publishing date	2023-12-16
Publishing country	Netherlands
Document type	Published Erratum
ZDB-ID	210415-5
ISSN	1873-6254 ; 0001-706X
ISSN (online)	1873-6254
ISSN	0001-706X
DOI	10.1016/j.actatropica.2023.107080
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Article ; Online: First Argentine database for the accurate identification of Brucella to species level by MALDI-TOF MS.

Celestino, Celina Analía / Rocca, María Florencia / Ayala, Sandra Marcela / Irazu, Lucía / Escobar, Gabriela Ileana

Acta tropica

2023 Volume 248, Page(s) 107036

Abstract: MALDI-TOF mass spectrometry (MS) has proven to be a fast and reliable method for the identification of a large number of taxonomic groups. It offers the advantage of being able to incorporate protein spectra of microorganisms that are absent or poorly ... ...

Abstract	MALDI-TOF mass spectrometry (MS) has proven to be a fast and reliable method for the identification of a large number of taxonomic groups. It offers the advantage of being able to incorporate protein spectra of microorganisms that are absent or poorly represented in commercial databases, such as the genus Brucella. The aim of the study was to build the first database of protein spectra of local biological variants of Brucella in Argentina and of standard strains. First, the identification performance of a panel of 135 strains was evaluated with the Swedish database ¨Folkhälsomyndigheten¨ (containing protein spectra of several international standards of the genus Brucella) imported from the open access site https://spectra.folkhalsomyndigheten.se/spectra/. With this library 100 % of the strains were correctly identified by mass spectrometry to genus level, but not to species level. Due to the limitation found, an in-house database was designed with local Brucella isolates from Argentina and standard strains used in routine bacteriological diagnosis. For its validation, a panel of strains, different from those used to develop the extended local database (n: 177), was used to, simultaneously, challenge both libraries. The samples were processed by triplicate and the results obtained were: 177 strains correctly identified to genus and species level compared to the gold standard method (phenotypic typing), meeting the criteria accepted by the literature and the manufacturer as reliable identification. Only 2 of these isolates had score values lower than 2 (1.862) and were therefore not included in the calculation of results. According to these results, MALDI-TOF MS is a fast and reliable method for the routine identification of the different Brucella species, and even has the advantage of reducing the time of exposure to pathogenic microorganisms for laboratorians. It could be considered a valuable technique to replace, in the near future, the current conventional techniques due to the ease of transferring protein spectra, avoiding the use of reference strains that are difficult to find commercially available and commonly used in phenotypic typing.
MeSH term(s)	Brucella/genetics ; Spectrometry, Mass, Matrix-Assisted Laser Desorption-Ionization/methods ; Databases, Factual ; Argentina
Language	English
Publishing date	2023-10-02
Publishing country	Netherlands
Document type	Journal Article
ZDB-ID	210415-5
ISSN	1873-6254 ; 0001-706X
ISSN (online)	1873-6254
ISSN	0001-706X
DOI	10.1016/j.actatropica.2023.107036
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Article ; Online: Effect of Spatiotemporal Association and Trophic Interactions Between Aphidophagous Coccinellids Toward Aphid Control.

Rocca, Margarita / Díaz Lucas, María Florencia / Greco, Nancy Mabel

Environmental entomology

2021 Volume 51, Issue 1, Page(s) 44–51

Abstract: Predator diversity in a system can have different results on the biological control of pests. Positive results can arise if natural enemies have niche complementarity, whereas negative effects can occur when one enemy interferes with heterospecifics-e.g., ...

Abstract	Predator diversity in a system can have different results on the biological control of pests. Positive results can arise if natural enemies have niche complementarity, whereas negative effects can occur when one enemy interferes with heterospecifics-e.g., via intraguild predation-resulting in weaker pest suppression. Nevertheless, a coexistence is possible if enemies use the resource differentially leading to resource partitioning, and/or if the intraguild prey has some competitive advantage over the intraguild predator-i.e., is better at exploiting the shared resource or exhibits avoidance behavior. In this study, we conducted a series of field-sampling and semifield experiments to elucidate the spatiotemporal association patterns of the coccinellids Eriopis connexa (Germar) and Cycloneda sanguinea L. (Coleoptera: Coccinellidae) and determine how the trophic interactions between them could affect the biological control of aphids. We found that both coccinellid species coexist in sweet-pepper crops over time, and this coexistence could be explained by a temporal niche complementarity. Despite cooccurring spatially, they were segregated at the leaf level, which segregation can be explained by an avoidance behavior to prevent negative trophic interactions, such as cannibalism and intraguild predation. Under semifield conditions, the possible negative trophic interactions did not affect the control of aphids when both species were present, but the density of C. sanguinea was reduced at the end of the experiment. These results suggest that biological control strategies that include both species would be positive for the control of aphids on the basis of these considerations.
MeSH term(s)	Animals ; Aphids ; Cannibalism ; Coleoptera ; Crops, Agricultural ; Predatory Behavior
Language	English
Publishing date	2021-11-17
Publishing country	England
Document type	Journal Article ; Research Support, Non-U.S. Gov't
ZDB-ID	120799-4
ISSN	1938-2936 ; 0046-2268 ; 0046-225X
ISSN (online)	1938-2936
ISSN	0046-2268 ; 0046-225X
DOI	10.1093/ee/nvab127
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Article ; Online: A combined approach of MALDI-TOF mass spectrometry and multivariate analysis as a potential tool for the detection of SARS-CoV-2 virus in nasopharyngeal swabs.

Rocca, María Florencia / Zintgraff, Jonathan Cristian / Dattero, María Elena / Santos, Leonardo Silva / Ledesma, Martín / Vay, Carlos / Prieto, Mónica / Benedetti, Estefanía / Avaro, Martín / Russo, Mara / Nachtigall, Fabiane Manke / Baumeister, Elsa

Journal of virological methods

2020 Volume 286, Page(s) 113991

Abstract: Coronavirus disease 2019, known as COVID-19, is caused by the severe acute respiratory syndrome coronavirus 2 (SARS-CoV-2). The early, sensitive and specific detection of SARS-CoV-2 virus is widely recognized as the critical point in responding to the ... ...

Abstract	Coronavirus disease 2019, known as COVID-19, is caused by the severe acute respiratory syndrome coronavirus 2 (SARS-CoV-2). The early, sensitive and specific detection of SARS-CoV-2 virus is widely recognized as the critical point in responding to the ongoing outbreak. Currently, the diagnosis is based on molecular real time RT-PCR techniques, although their implementation is being threatened due to the extraordinary demand for supplies worldwide. That is why the development of alternative and / or complementary tests becomes so relevant. Here, we exploit the potential of mass spectrometry technology combined with machine learning algorithms, for the detection of COVID-19 positive and negative protein profiles directly from nasopharyngeal swabs samples. According to the preliminary results obtained, accuracy = 67.66 %, sensitivity = 61.76 %, specificity = 71.72 %, and although these parameters still need to be improved to be used as a screening technique, mass spectrometry-based methods coupled with multivariate analysis showed that it is an interesting tool that deserves to be explored as a complementary diagnostic approach due to the low cost and fast performance. However, further steps, such as the analysis of a large number of samples, should be taken in consideration to determine the applicability of the method developed.
MeSH term(s)	Betacoronavirus/isolation & purification ; COVID-19 ; COVID-19 Testing ; COVID-19 Vaccines ; Clinical Laboratory Techniques/methods ; Coronavirus Infections/diagnosis ; Coronavirus Infections/virology ; Humans ; Machine Learning ; Mass Screening/methods ; Multivariate Analysis ; Nasopharynx/virology ; Pandemics ; Pneumonia, Viral/diagnosis ; Pneumonia, Viral/virology ; Real-Time Polymerase Chain Reaction ; SARS-CoV-2 ; Sensitivity and Specificity ; Spectrometry, Mass, Matrix-Assisted Laser Desorption-Ionization/methods
Chemical Substances	COVID-19 Vaccines ; Covid-19 aAPC vaccine
Keywords	covid19
Language	English
Publishing date	2020-10-09
Publishing country	Netherlands
Document type	Journal Article
ZDB-ID	8013-5
ISSN	1879-0984 ; 0166-0934
ISSN (online)	1879-0984
ISSN	0166-0934
DOI	10.1016/j.jviromet.2020.113991
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Article ; Online: A new wild strain of Caenorhabditis elegans associated with Allograpta exotica (Syrphidae) in Argentina: an update of its ecological niche and worldwide distribution.

Salas, Augusto / Rusconi, José M / Rocca, Margarita / Lucas, Florencia D / Balcazar, Darío / Achinelly, María Fernanda

Anais da Academia Brasileira de Ciencias

2022 Volume 94, Issue 3, Page(s) e20201440

Abstract: Caenorhabditis elegans is a free-living nematode, belonging to the bacterivorous trophic group. Although it was cited in several countries, in different types of ecosystems and in associations with other organisms, the wild habitats of this nematode have ...

Abstract	Caenorhabditis elegans is a free-living nematode, belonging to the bacterivorous trophic group. Although it was cited in several countries, in different types of ecosystems and in associations with other organisms, the wild habitats of this nematode have not yet been precisely defined. In Argentina, C. elegans was recently isolated from the hoverfly Allograpta exotica, a voracious predator with potential biological control against aphids in horticultural crops. In this frame, the objectives of this study were (i) to characterize it molecularly and morphologically (ii) to report a wild strain of C. elegans for the first time from Argentina, (iii) to present a new ecological niche by associating it with A. exotica and (iv) to evaluate the pathogenicity against these insects. The results of the morphological and molecular analyses made it possible to determine that the isolated nematode was C. elegans, thus establishing the ARGLP1900 wild strain as the first record of this nematode for Argentina. A new association was described, since there are no records of interaction between C. elegans and A. exotica, providing information on a new ecological niche. The new wild strain found in this work, could be appropriate for comparative genomic studies with other C. elegans strains.
MeSH term(s)	Animals ; Aphids ; Argentina ; Caenorhabditis elegans/genetics ; Diptera ; Ecosystem ; Virulence
Language	English
Publishing date	2022-08-01
Publishing country	Brazil
Document type	Journal Article
ZDB-ID	2046885-4
ISSN	1678-2690 ; 0001-3765
ISSN (online)	1678-2690
ISSN	0001-3765
DOI	10.1590/0001-3765202220201440
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Article: A combined approach of MALDI-TOF mass spectrometry and multivariate analysis as a potential tool for the detection of SARS-CoV-2 virus in nasopharyngeal swabs

Journal of virological methods. 2020 Dec., v. 286

2020

Abstract	Coronavirus disease 2019, known as COVID-19, is caused by the severe acute respiratory syndrome coronavirus 2 (SARS-CoV-2). The early, sensitive and specific detection of SARS-CoV-2 virus is widely recognized as the critical point in responding to the ongoing outbreak. Currently, the diagnosis is based on molecular real time RT-PCR techniques, although their implementation is being threatened due to the extraordinary demand for supplies worldwide. That is why the development of alternative and / or complementary tests becomes so relevant. Here, we exploit the potential of mass spectrometry technology combined with machine learning algorithms, for the detection of COVID-19 positive and negative protein profiles directly from nasopharyngeal swabs samples. According to the preliminary results obtained, accuracy = 67.66 %, sensitivity = 61.76 %, specificity = 71.72 %, and although these parameters still need to be improved to be used as a screening technique, mass spectrometry-based methods coupled with multivariate analysis showed that it is an interesting tool that deserves to be explored as a complementary diagnostic approach due to the low cost and fast performance. However, further steps, such as the analysis of a large number of samples, should be taken in consideration to determine the applicability of the method developed.
Keywords	COVID-19 infection ; Severe acute respiratory syndrome coronavirus 2 ; matrix-assisted laser desorption-ionization mass spectrometry ; multivariate analysis ; viruses
Language	English
Dates of publication	2020-12
Publishing place	Elsevier B.V.
Document type	Article
ZDB-ID	8013-5
ISSN	1879-0984 ; 0166-0934
ISSN (online)	1879-0984
ISSN	0166-0934
DOI	10.1016/j.jviromet.2020.113991
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Article ; Online: Rapid and accurate detection of Shiga toxin-producing

Manfredi, Eduardo / Rocca, María Florencia / Zintgraff, Jonathan / Irazu, Lucía / Miliwebsky, Elizabeth / Carbonari, Carolina / Deza, Natalia / Prieto, Monica / Chinen, Isabel

Journal of medical microbiology

2023 Volume 72, Issue 5

Abstract: Introduction. ...

Abstract	Introduction.
MeSH term(s)	Humans ; Escherichia coli O157/metabolism ; Serogroup ; Shiga-Toxigenic Escherichia coli ; Escherichia coli Infections/diagnosis ; Spectrometry, Mass, Matrix-Assisted Laser Desorption-Ionization ; Biomarkers/metabolism
Chemical Substances	Biomarkers
Language	English
Publishing date	2023-05-02
Publishing country	England
Document type	Journal Article
ZDB-ID	218356-0
ISSN	1473-5644 ; 0022-2615
ISSN (online)	1473-5644
ISSN	0022-2615
DOI	10.1099/jmm.0.001675
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