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Article ; Online: Single-Cell Proteomics Reveals the Defined Heterogeneity of Resident Macrophages in White Adipose Tissue.

Félix, Inês / Jokela, Heli / Karhula, Joonas / Kotaja, Noora / Savontaus, Eriika / Salmi, Marko / Rantakari, Pia

2021 Volume 12, Page(s) 719979

Abstract: Adipose tissue macrophages (ATMs) regulate homeostasis and contribute to the metabolically harmful chronic inflammation in obese individuals. While evident heterogeneity of resident ATMs has been described previously, their phenotype, developmental ... ...

Abstract	Adipose tissue macrophages (ATMs) regulate homeostasis and contribute to the metabolically harmful chronic inflammation in obese individuals. While evident heterogeneity of resident ATMs has been described previously, their phenotype, developmental origin, and functionality remain inconsistent. We analyzed white adipose tissue (WAT) during homeostasis and diet interventions using comprehensive and unbiased single-cell mass cytometry and genetic lineage tracking models. We now provide a uniform definition of individual subsets of resident ATMs. We show that in lean mice, WAT co-harbors eight kinetically evolving CD206
MeSH term(s)	Adipose Tissue/immunology ; Adipose Tissue/metabolism ; Adipose Tissue, White/immunology ; Adipose Tissue, White/metabolism ; Animals ; Biomarkers ; Cell Differentiation ; Cell Plasticity/genetics ; Cell Plasticity/immunology ; Cellular Reprogramming ; Computational Biology ; Energy Metabolism ; Immunohistochemistry ; Immunophenotyping ; Macrophages/immunology ; Macrophages/metabolism ; Male ; Mice ; Mice, Knockout ; Models, Animal ; Obesity/etiology ; Obesity/metabolism ; Obesity/pathology ; Phagocytosis ; Proteome/metabolism ; Proteomics/methods ; Single-Cell Analysis/methods
Chemical Substances	Biomarkers ; Proteome
Language	English
Publishing date	2021-07-26
Publishing country	Switzerland
Document type	Journal Article ; Research Support, Non-U.S. Gov't
ZDB-ID	2606827-8
ISSN	1664-3224 ; 1664-3224
ISSN (online)	1664-3224
ISSN	1664-3224
DOI	10.3389/fimmu.2021.719979
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Article: Analysis of Biologics Molecular Descriptors towards Predictive Modelling for Protein Drug Development Using Time-Gated Raman Spectroscopy.

Itkonen, Jaakko / Ghemtio, Leo / Pellegrino, Daniela / Jokela Née Heinonen, Pia J / Xhaard, Henri / Casteleijn, Marco G

Pharmaceutics

2022 Volume 14, Issue 8

Abstract: Pharmaceutical proteins, compared to small molecular weight drugs, are relatively fragile molecules, thus necessitating monitoring protein unfolding and aggregation during production and post-marketing. Currently, many analytical techniques take offline ... ...

Abstract	Pharmaceutical proteins, compared to small molecular weight drugs, are relatively fragile molecules, thus necessitating monitoring protein unfolding and aggregation during production and post-marketing. Currently, many analytical techniques take offline measurements, which cannot directly assess protein folding during production and unfolding during processing and storage. In addition, several orthogonal techniques are needed during production and market surveillance. In this study, we introduce the use of time-gated Raman spectroscopy to identify molecular descriptors of protein unfolding. Raman spectroscopy can measure the unfolding of proteins in-line and in real-time without labels. Using K-means clustering and PCA analysis, we could correlate local unfolding events with traditional analytical methods. This is the first step toward predictive modeling of unfolding events of proteins during production and storage.
Language	English
Publishing date	2022-08-05
Publishing country	Switzerland
Document type	Journal Article
ZDB-ID	2527217-2
ISSN	1999-4923
ISSN	1999-4923
DOI	10.3390/pharmaceutics14081639
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Article ; Online: Fetal-derived macrophages persist and sequentially maturate in ovaries after birth in mice.

Jokela, Heli / Lokka, Emmi / Kiviranta, Miikka / Tyystjärvi, Sofia / Gerke, Heidi / Elima, Kati / Salmi, Marko / Rantakari, Pia

European journal of immunology

2020 Volume 50, Issue 10, Page(s) 1500–1514

Abstract: Macrophages, which are highly diverse in different tissues, play a complex and vital role in tissue development, homeostasis, and inflammation. The origin and heterogeneity of tissue-resident monocytes and macrophages in ovaries remains unknown. Here we ... ...

Abstract	Macrophages, which are highly diverse in different tissues, play a complex and vital role in tissue development, homeostasis, and inflammation. The origin and heterogeneity of tissue-resident monocytes and macrophages in ovaries remains unknown. Here we identify three tissue-resident monocyte populations and five macrophage populations in the adult ovaries using high-dimensional single cell mass cytometry. Ontogenic analyses using cell fate mapping models and cell depletion experiments revealed the infiltration of ovaries by both yolk sac and fetal liver-derived macrophages already during the embryonic development. Moreover, we found that both embryonic and bone marrow-derived macrophages contribute to the distinct ovarian macrophage subpopulations in the adults. These assays also showed that fetal-derived MHC II-negative macrophages differentiate postnatally in the maturing ovary to MHC II-positive cells. Our analyses further unraveled that the developmentally distinct macrophage types share overlapping distribution and scavenging function in the ovaries under homeostatic conditions. In conclusion, we report here the first comprehensive analyses of ovarian monocytes and macrophages. In addition, we show that the mechanisms controlling monocyte immigration, the phenotype of different pools of interstitial macrophages, and the interconversion capacity of fetal-derived macrophages in ovaries are remarkably different from those seen in other tissue niches.
MeSH term(s)	Animals ; Cell Differentiation ; Cell Lineage ; Female ; Fetus ; Homeostasis ; Inflammation ; Macrophages/physiology ; Membrane Proteins/genetics ; Mice ; Mice, Inbred C57BL ; Mice, Knockout ; Monocytes/physiology ; Ovary/immunology ; Single-Cell Analysis
Chemical Substances	Membrane Proteins ; Plvap protein, mouse
Language	English
Publishing date	2020-06-09
Publishing country	Germany
Document type	Journal Article ; Research Support, Non-U.S. Gov't
ZDB-ID	120108-6
ISSN	1521-4141 ; 0014-2980
ISSN (online)	1521-4141
ISSN	0014-2980
DOI	10.1002/eji.202048531
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Zs.A 489: Show issues			Location: Je nach Verfügbarkeit (siehe Angabe bei Bestand) bis Jg. 1994: Bestellungen von Artikeln über das Online-Bestellformular Jg. 1995 - 2021: Lesesall (1.OG) ab Jg. 2022: Lesesaal (EG)
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Article ; Online: SARS-CoV-2 sample-to-answer nucleic acid testing in a tertiary care emergency department: evaluation and utility.

Jokela, Pia / Jääskeläinen, Anu E / Jarva, Hanna / Holma, Tanja / Ahava, Maarit J / Mannonen, Laura / Lappalainen, Maija / Kurkela, Satu / Loginov, Raisa

Journal of clinical virology : the official publication of the Pan American Society for Clinical Virology

2020 Volume 131, Page(s) 104614

Abstract: Background: Rapid sample-to-answer tests for detection of SARS-CoV-2 are emerging and data on their relative performance is urgently needed.: Objectives: We evaluated the analytical performance of two rapid nucleic acid tests, Cepheid Xpert® Xpress ... ...

Abstract	Background: Rapid sample-to-answer tests for detection of SARS-CoV-2 are emerging and data on their relative performance is urgently needed. Objectives: We evaluated the analytical performance of two rapid nucleic acid tests, Cepheid Xpert® Xpress SARS-CoV-2 and Mobidiag Novodiag® Covid-19, in comparison to a combination reference of three large-scale PCR tests. Moreover, utility of the Novodiag® test in tertiary care emergency departments was assessed. Results: In the preliminary evaluation, analysis of 90 respiratory samples resulted in 100% specificity and sensitivity for Xpert®, whereas analysis of 107 samples resulted in 93.4% sensitivity and 100% specificity for Novodiag®. Rapid SARS-CoV-2 testing with Novodiag® was made available for four tertiary care emergency departments in Helsinki, Finland between 18 and 31 May, coinciding with a rapidly declining epidemic phase. Altogether 361 respiratory specimens, together with relevant clinical data, were analyzed with Novodiag® and reference tests: 355/361 of the specimens were negative with both methods, and 1/361 was positive in Novodiag® and negative by the reference method. Of the 5 remaining specimens, two were negative with Novodiag®, but positive with the reference method with late Ct values. On average, a test result using Novodiag® was available nearly 8 hours earlier than that obtained with the large-scale PCR tests. Conclusions: While the performance of novel sample-to-answer PCR tests need to be carefully evaluated, they may provide timely and reliable results in detection of SARS-CoV-2 and thus facilitate patient management including effective cohorting.
MeSH term(s)	Adolescent ; Adult ; Aged ; Aged, 80 and over ; Betacoronavirus ; COVID-19 ; COVID-19 Testing ; Child ; Child, Preschool ; Clinical Laboratory Techniques ; Coronavirus Infections/diagnosis ; Emergency Service, Hospital/statistics & numerical data ; Female ; Finland ; Humans ; Infant ; Infant, Newborn ; Male ; Middle Aged ; Molecular Diagnostic Techniques ; Nasopharynx/virology ; Nucleic Acid Amplification Techniques ; Pandemics ; Pneumonia, Viral/diagnosis ; SARS-CoV-2 ; Sensitivity and Specificity ; Tertiary Healthcare/statistics & numerical data ; Young Adult
Keywords	covid19
Language	English
Publishing date	2020-08-27
Publishing country	Netherlands
Document type	Journal Article
ZDB-ID	1446080-4
ISSN	1873-5967 ; 1386-6532
ISSN (online)	1873-5967
ISSN	1386-6532
DOI	10.1016/j.jcv.2020.104614
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Zs.A 3790: Show issues

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Article ; Online: Performance of the Alere i influenza A&B assay and mariPOC test for the rapid detection of influenza A and B viruses.

Jokela, Pia / Vuorinen, Tytti / Waris, Matti / Manninen, Raija

Journal of clinical virology : the official publication of the Pan American Society for Clinical Virology

2015 Volume 70, Page(s) 72–76

Abstract: Background: Timely detection of influenza viruses is required to facilitate infection control measures and appropriate patient management. The Alere™ i Influenza A&B assay for detection of viral RNA and multianalyte mariPOC(®) test for detection of ... ...

Abstract	Background: Timely detection of influenza viruses is required to facilitate infection control measures and appropriate patient management. The Alere™ i Influenza A&B assay for detection of viral RNA and multianalyte mariPOC(®) test for detection of viral antigens enable rapid detection of influenza viruses with little hands-on time. Objectives: To evaluate the performance of the Alere i Influenza A&B assay and the mariPOC test in comparison to the Xpert(®) Flu A/B assay and laboratory-developed real-time reverse transcription-polymerase chain reaction. Study design: A total of 140 and 108 nasopharyngeal specimens were analysed for evaluation of the Alere i and mariPOC, respectively. Results: The sensitivity and specificity of the Alere i Influenza A&B assay for detection of influenza A virus was 80.0% and 98.1%, and for influenza B virus 45.2% and 98.2%, respectively. For the mariPOC test, a sensitivity and specificity of 53.1% and 98.7%, respectively, for detection of influenza A virus was achieved. Conclusions: The mariPOC test proved insensitive for detection of influenza A virus and therefore unsuitable for individual patient diagnosis without confirmatory testing. In contrast, the Alere i Influenza A&B assay was reasonably sensitive and specific for detection of influenza A and B virus, although decreased detection of specimens with low viral load was observed particularly for detection of influenza B virus. Taken together with its rapidity and ease of use, the Alere i influenza A&B assay is a welcome alternative to immunochromatographic rapid influenza detection tests and may provide timely results that enable appropriate patient care and management of patient flow during high-prevalence seasons.
MeSH term(s)	Genes, Viral ; Humans ; Influenza A virus/classification ; Influenza A virus/genetics ; Influenza A virus/isolation & purification ; Influenza B virus/classification ; Influenza B virus/genetics ; Influenza B virus/isolation & purification ; Influenza, Human/diagnosis ; Influenza, Human/virology ; Molecular Diagnostic Techniques/methods ; Molecular Diagnostic Techniques/standards ; Point-of-Care Systems ; Reagent Kits, Diagnostic ; Real-Time Polymerase Chain Reaction/methods ; Real-Time Polymerase Chain Reaction/standards ; Reproducibility of Results ; Sensitivity and Specificity
Chemical Substances	Reagent Kits, Diagnostic
Language	English
Publishing date	2015-09
Publishing country	Netherlands
Document type	Journal Article
ZDB-ID	1446080-4
ISSN	1873-5967 ; 1386-6532
ISSN (online)	1873-5967
ISSN	1386-6532
DOI	10.1016/j.jcv.2015.07.294
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Article: The Finnish New Variant of

Hokynar, Kati / Rantakokko-Jalava, Kaisu / Hakanen, Antti / Havana, Marika / Mannonen, Laura / Jokela, Pia / Kurkela, Satu / Lappalainen, Maija / Unemo, Magnus / Puolakkainen, Mirja

Microorganisms

2019 Volume 7, Issue 8

Abstract: In 2019, more than 200 cases ... ...

Abstract	In 2019, more than 200 cases of
Language	English
Publishing date	2019-07-31
Publishing country	Switzerland
Document type	Journal Article
ZDB-ID	2720891-6
ISSN	2076-2607
ISSN	2076-2607
DOI	10.3390/microorganisms7080227
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Article ; Online: Comparison of Two Commercial Platforms and a Laboratory-Developed Test for Detection of Severe Acute Respiratory Syndrome Coronavirus 2 (SARS-CoV-2) RNA.

Mannonen, Laura / Kallio-Kokko, Hannimari / Loginov, Raisa / Jääskeläinen, Anu / Jokela, Pia / Antikainen, Jenni / Väre, Paula / Kekäläinen, Eliisa / Kurkela, Satu / Jarva, Hanna / Lappalainen, Maija

The Journal of molecular diagnostics : JMD

2021 Volume 23, Issue 4, Page(s) 407–416

Abstract: Mitigation of the ongoing coronavirus disease 2019 (COVID-19) pandemic requires reliable and accessible laboratory diagnostic services. In this study, the performance of one laboratory-developed test (LDT) and two commercial tests, cobas SARS-CoV-2 ( ... ...

Abstract	Mitigation of the ongoing coronavirus disease 2019 (COVID-19) pandemic requires reliable and accessible laboratory diagnostic services. In this study, the performance of one laboratory-developed test (LDT) and two commercial tests, cobas SARS-CoV-2 (Roche) and Amplidiag COVID-19 (Mobidiag), were evaluated for the detection of severe acute respiratory syndrome coronavirus 2 (SARS-CoV-2) RNA in respiratory specimens. A total of 183 specimens collected from suspected COVID-19 patients were studied with all three methods to compare their performance. In relation to the reference standard, which was established as the result obtained by two of the three studied methods, the positive percent agreement was highest for the cobas test (100%), followed by the Amplidiag test and the LDT (98.9%). The negative percent agreement was lowest for the cobas test (89.4%), followed by the Amplidiag test (98.8%), and the highest value was obtained for the LDT (100%). The dilution series of positive specimens, however, suggests significantly higher sensitivity for the cobas assay in comparison with the other two assays, and the low negative percent agreement value may be due to the same reason. In general, all tested assays performed adequately. Clinical laboratories need to be prepared for uninterrupted high-throughput testing during the coming months to mitigate the pandemic. To ensure no interruption, it is critical that clinical laboratories maintain several simultaneous platforms in their SARS-CoV-2 nucleic acid testing.
MeSH term(s)	COVID-19/epidemiology ; COVID-19/virology ; COVID-19 Testing/methods ; Humans ; Nucleic Acid Amplification Techniques/methods ; SARS-CoV-2/isolation & purification
Language	English
Publishing date	2021-01-21
Publishing country	United States
Document type	Comparative Study ; Journal Article
ZDB-ID	2000060-1
ISSN	1943-7811 ; 1525-1578
ISSN (online)	1943-7811
ISSN	1525-1578
DOI	10.1016/j.jmoldx.2021.01.005
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Article ; Online: SARS-CoV-2 sample-to-answer nucleic acid testing in a tertiary care emergency department

Jokela, Pia / Jääskeläinen, Anu E. / Jarva, Hanna / Holma, Tanja / Ahava, Maarit J / Mannonen, Laura / Lappalainen, Maija / Kurkela, Satu / Loginov, Raisa

Journal of Clinical Virology

evaluation and utility

2020 Volume 131, Page(s) 104614

Keywords	Virology ; Infectious Diseases ; covid19
Language	English
Publisher	Elsevier BV
Publishing country	us
Document type	Article ; Online
ZDB-ID	1446080-4
ISSN	1873-5967 ; 1386-6532
ISSN (online)	1873-5967
ISSN	1386-6532
DOI	10.1016/j.jcv.2020.104614
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Article ; Online: Evaluation of three rapid lateral flow antigen detection tests for the diagnosis of SARS-CoV-2 infection

Jaaskelainen, Anu E / Ahava, Maarit J / Jokela, Pia / Szirovicza, Leonora / Pohjala, Sari / Vapalahti, Olli / Lappalainen, Maija / Hepojoki, Jussi / Kurkela, Satu

medRxiv

Abstract: Introduction The COVID-19 pandemic has led to high demand of diagnostic tools. Rapid antigen detection tests have been developed and many have received regulatory acceptance such as CE IVD or FDA markings. Their performance needs to be carefully assessed. ...

Abstract	Introduction The COVID-19 pandemic has led to high demand of diagnostic tools. Rapid antigen detection tests have been developed and many have received regulatory acceptance such as CE IVD or FDA markings. Their performance needs to be carefully assessed. Materials and Methods 158 positive and 40 negative retrospective samples collected in saline and analyzed by a laboratory-developed RT-PCR test were used to evaluate Sofia (Quidel), Standard Q (SD Biosensor), and Panbio (Abbott) rapid antigen detection tests (RADTs). A subset of the specimens was subjected to virus culture. Results The specificity of all RADTs was 100% and the sensitivity and percent agreement was 80% and 85% for Sofia, 81% and 85% for Standard Q, and 83% and 86% for Panbio, respectively. All three RADTs evaluated in this study reached a more than 90% sensitivity for samples with a high viral load as estimated from the low Ct values in the reference RT-PCR. Virus culture was successful in 80% of specimens with a Ct value <25. Conclusions As expected, the RADTs were less sensitive than RT-PCR. However, they benefit from the speed and ease of testing, and lower price as compared to RT-PCR. Repeated testing in appropriate settings may improve the overall performance.
Keywords	covid19
Language	English
Publishing date	2021-01-04
Publisher	Cold Spring Harbor Laboratory Press
Document type	Article ; Online
DOI	10.1101/2020.12.30.20249057
Database	COVID19

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Article ; Online: Chlamydia trachomatis

Rantakokko-Jalava, Kaisu / Hokynar, Kati / Hieta, Niina / Keskitalo, Anniina / Jokela, Pia / Muotiala, Anna / Jokiranta, T Sakari / Kuusela, Rutta / Sarkkinen, Hannu / Aittoniemi, Janne / Vuorinen, Tytti / Hakanen, Antti J / Puolakkainen, Mirja

Euro surveillance : bulletin Europeen sur les maladies transmissibles = European communicable disease bulletin

2019 Volume 24, Issue 22

Abstract: Since February 2019, over ... ...

Abstract	Since February 2019, over 160
MeSH term(s)	Adolescent ; Adult ; Bacteriological Techniques/methods ; Bacteriological Techniques/standards ; Chlamydia Infections/diagnosis ; Chlamydia Infections/epidemiology ; Chlamydia Infections/genetics ; Chlamydia trachomatis/genetics ; Chlamydia trachomatis/isolation & purification ; False Negative Reactions ; Female ; Finland/epidemiology ; Humans ; Male ; Middle Aged ; Reagent Kits, Diagnostic/standards ; Young Adult
Chemical Substances	Reagent Kits, Diagnostic
Language	English
Publishing date	2019-06-27
Publishing country	Sweden
Document type	Journal Article
ZDB-ID	1338803-4
ISSN	1560-7917 ; 1025-496X
ISSN (online)	1560-7917
ISSN	1025-496X
DOI	10.2807/1560-7917.ES.2019.24.22.1900298
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