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Article ; Online: Five long-distance dispersals shaped the major intercontinental disjunctions in Tectariaceae s.l. (Polypodiales, Polypodiopsida).

Wan, Xia / Zhang, Liang / Lehtonen, Samuli / Tuomisto, Hanna / Zhang, Da-Wei / Gao, Xin-Fen / Zhang, Li-Bing

2023 Volume 186, Page(s) 107845

Abstract: ... dispersal, or through extinction of an ancestral population with a broader distribution. Tectariaceae s.l ... accessions representing ca. 210 species of all eight genera in Tectariaceae s.l. (Arthropteridaceae ... Pteridryaceae, and Tectariaceae s.s.) and 35 species of other families of eupolypods Ⅰ. A new phylogeny is ...

Abstract	Intercontinental disjunct distributions can arise either from vicariance, from long-distance dispersal, or through extinction of an ancestral population with a broader distribution. Tectariaceae s.l., a clade of ferns in Polypodiales with ca. 300 species mainly distributed in the tropics and subtropics, provide an excellent opportunity to investigate global distribution patterns. Here, we assembled a dataset of eight plastid markers and one nuclear marker of 636 (92% increase of the earlier largest sampling) accessions representing ca. 210 species of all eight genera in Tectariaceae s.l. (Arthropteridaceae, Pteridryaceae, and Tectariaceae s.s.) and 35 species of other families of eupolypods Ⅰ. A new phylogeny is reconstructed to study the biogeography and trait-associated diversification. Our major results include: (1) a distinct lineage of Tectaria sister to the rest of the American Tectaria is identified; (2) Tectariaceae s.l., and the three families: Arthropteridaceae (Arthropteris), Pteridryaceae (Draconopteris, Malaifilix, Polydictyum, Pteridrys), and Tectariaceae s.s. (Hypoderris, Tectaria, and Triplophyllum), might have all originated in late Cretaceous; (3) only five intercontinental dispersals occurred in Pteridryaceae and Tectariaceae s.s. giving rise to their current intercontinental disjunction; (4) we provide the second evidence in ferns that a long-distance dispersal between Malesia and Americas during the Paleocene to Eocene led to the establishment/origin of a new genus (Draconopteris); and (5) diversification rate of each state of leaf dissection is different, and the lowest is in the simple-leaved taxa.
MeSH term(s)	Phylogeny ; Ferns ; Plastids ; Phylogeography ; Bayes Theorem
Language	English
Publishing date	2023-06-09
Publishing country	United States
Document type	Journal Article ; Research Support, Non-U.S. Gov't
ZDB-ID	33610-5
ISSN	1095-9513 ; 1055-7903
ISSN (online)	1095-9513
ISSN	1055-7903
DOI	10.1016/j.ympev.2023.107845
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Article ; Online: A qualitative cross-cultural analysis of NICU care culture and infant feeding in Finland and the U.S.

Holdren, Sarah / Fair, Cynthia / Lehtonen, Liisa

BMC pregnancy and childbirth

2019 Volume 19, Issue 1, Page(s) 345

Abstract: ... and the U.S. were translated to parents' infant feeding experiences in the hope of improving ... in a tertiary neonatal intensive care unit in Finland (n = 8) and the U. S (n = 7).: Results: A global theme ... with an infant, while in the unit in the U.S., pumping was only an end to promote infant nutritional health ...

Abstract	Background: The benefits of family-centered care for the health and well-being of preterm infants and their families include increased parent-infant closeness, improved lactation, and positive mental health outcomes; however, it is known that the extent to which family-centered care is adopted varies by unit. This study aimed to understand how differences in neonatal care culture in two units in Finland and the U.S. were translated to parents' infant feeding experiences in the hope of improving relationally focused feeding practices in both locations. Methods: This qualitative, cross-sectional study utilized narrative methodologies to understand the lived experiences of 15 families hospitalized in a tertiary neonatal intensive care unit in Finland (n = 8) and the U. S (n = 7). Results: A global theme of lactation as a means or an end showed that lactation and infant feeding were framed differently in each location. The three supporting themes that explain families' perceptions of their transition to parenthood, support as a family unit, and experience with lactation include: universal early postnatal challenges; culture and space-dependent nursing support; and controlled or empowering breastfeeding experiences. Conclusions: Care culture plays a large role in framing all infant caring activities, including lactation and infant feeding. This study found that in the unit in Finland, breastfeeding was one method to achieve closeness with an infant, while in the unit in the U.S., pumping was only an end to promote infant nutritional health. Therefore, breastfeeding coupled with closeness was found to be supportive of a salutogenic, or health-promoting, care approach for the whole family.
MeSH term(s)	Adult ; Breast Feeding ; Breast Milk Expression ; Cross-Cultural Comparison ; Family Nursing/organization & administration ; Feeding Methods ; Female ; Finland ; Hospital Design and Construction ; Humans ; Infant, Extremely Premature ; Infant, Newborn ; Infant, Premature ; Intensive Care Units, Neonatal/organization & administration ; Lactation ; Male ; Neonatal Nursing/organization & administration ; Organizational Culture ; Parents ; Qualitative Research ; Tertiary Care Centers ; United States ; Young Adult
Language	English
Publishing date	2019-10-10
Publishing country	England
Document type	Journal Article
ZDB-ID	2059869-5
ISSN	1471-2393 ; 1471-2393
ISSN (online)	1471-2393
ISSN	1471-2393
DOI	10.1186/s12884-019-2505-2
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Article ; Online: Five long-distance dispersals shaped the major intercontinental disjunctions in Tectariaceae s.l. (Polypodiales, Polypodiopsida)

Wan, Xia / Zhang, Liang / Lehtonen, Samuli / Tuomisto, Hanna / Zhang, Da-Wei / Gao, Xin-Fen / Zhang, Li-Bing

Molecular Phylogenetics and Evolution. 2023 Sept., v. 186 p.107845-

2023

Abstract	Intercontinental disjunct distributions can arise either from vicariance, from long-distance dispersal, or through extinction of an ancestral population with a broader distribution. Tectariaceae s.l., a clade of ferns in Polypodiales with ca. 300 species mainly distributed in the tropics and subtropics, provide an excellent opportunity to investigate global distribution patterns. Here, we assembled a dataset of eight plastid markers and one nuclear marker of 636 (92% increase of the earlier largest sampling) accessions representing ca. 210 species of all eight genera in Tectariaceae s.l. (Arthropteridaceae, Pteridryaceae, and Tectariaceae s.s.) and 35 species of other families of eupolypods Ⅰ. A new phylogeny is reconstructed to study the biogeography and trait-associated diversification. Our major results include: (1) a distinct lineage of Tectaria sister to the rest of the American Tectaria is identified; (2) Tectariaceae s.l., and the three families: Arthropteridaceae (Arthropteris), Pteridryaceae (Draconopteris, Malaifilix, Polydictyum, Pteridrys), and Tectariaceae s.s. (Hypoderris, Tectaria, and Triplophyllum), might have all originated in late Cretaceous; (3) only five intercontinental dispersals occurred in Pteridryaceae and Tectariaceae s.s. giving rise to their current intercontinental disjunction; (4) we provide the second evidence in ferns that a long-distance dispersal between Malesia and Americas during the Paleocene to Eocene led to the establishment/origin of a new genus (Draconopteris); and (5) diversification rate of each state of leaf dissection is different, and the lowest is in the simple-leaved taxa.
Keywords	Arthropteris ; Eocene epoch ; Hypoderris ; Late Cretaceous epoch ; Paleocene epoch ; Pteridrys ; Tectaria ; Triplophyllum ; biogeography ; data collection ; dissection ; extinction ; geographical distribution ; leaves ; new genus ; phylogeny ; Boreotropical migration ; Diversification ; Leaf dissection ; Pteridryaceae ; Species radiation
Language	English
Dates of publication	2023-09
Publishing place	Elsevier Inc.
Document type	Article ; Online
ZDB-ID	33610-5
ISSN	1095-9513 ; 1055-7903
ISSN (online)	1095-9513
ISSN	1055-7903
DOI	10.1016/j.ympev.2023.107845
Database	NAL-Catalogue (AGRICOLA)

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Article ; Online: Metabolic alterations in Parkinson’s disease astrocytes

Tuuli-Maria Sonninen / Riikka H. Hämäläinen / Marja Koskuvi / Minna Oksanen / Anastasia Shakirzyanova / Sara Wojciechowski / Katja Puttonen / Nikolay Naumenko / Gundars Goldsteins / Nihay Laham-Karam / Marko Lehtonen / Pasi Tavi / Jari Koistinaho / Šárka Lehtonen

Scientific Reports, Vol 10, Iss 1, Pp 1-

2020 Volume 14

Abstract: Abstract In Parkinson`s disease (PD), the loss of dopaminergic (DA) neurons in the substantia nigra ...

Abstract	Abstract In Parkinson`s disease (PD), the loss of dopaminergic (DA) neurons in the substantia nigra pars compacta is associated with Lewy bodies arising from the accumulation of alpha-synuclein protein which leads ultimately to movement impairment. While PD has been considered a disease of the DA neurons, a glial contribution, in particular that of astrocytes, in PD pathogenesis is starting to be uncovered. Here, we report findings from astrocytes derived from induced pluripotent stem cells of LRRK2 G2019S mutant patients, with one patient also carrying a GBA N370S mutation, as well as healthy individuals. The PD patient astrocytes manifest the hallmarks of the disease pathology including increased expression of alpha-synuclein. This has detrimental consequences, resulting in altered metabolism, disturbed Ca2+ homeostasis and increased release of cytokines upon inflammatory stimulation. Furthermore, PD astroglial cells manifest increased levels of polyamines and polyamine precursors while lysophosphatidylethanolamine levels are decreased, both of these changes have been reported also in PD brain. Collectively, these data reveal an important role for astrocytes in PD pathology and highlight the potential of iPSC-derived cells in disease modeling and drug discovery.
Keywords	Medicine ; R ; Science ; Q
Subject code	610
Language	English
Publishing date	2020-09-01T00:00:00Z
Publisher	Nature Portfolio
Document type	Article ; Online
Database	BASE - Bielefeld Academic Search Engine (life sciences selection)

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Article ; Online: Human iPSC-derived microglia carrying the LRRK2-G2019S mutation show a Parkinson’s disease related transcriptional profile and function

Sohvi Ohtonen / Luca Giudice / Henna Jäntti / Mohammad Feroze Fazaludeen / Anastasia Shakirzyanova / Mireia Gómez-Budia / Nelli-Noora Välimäki / Jonna Niskanen / Nea Korvenlaita / Ilkka Fagerlund / Jari Koistinaho / Mahmood Amiry-Moghaddam / Ekaterina Savchenko / Laurent Roybon / Šárka Lehtonen / Paula Korhonen / Tarja Malm

Scientific Reports, Vol 13, Iss 1, Pp 1-

2023 Volume 16

Abstract: Abstract LRRK2-G2019S is one of the most common Parkinson’s disease (PD)-associated mutations and ...

Abstract	Abstract LRRK2-G2019S is one of the most common Parkinson’s disease (PD)-associated mutations and has been shown to alter microglial functionality. However, the impact of LRRK2-G2019S on transcriptional profile of human induced pluripotent stem cell-derived microglia-like cells (iMGLs) and how it corresponds to microglia in idiopathic PD brain is not known. Here we demonstrate that LRRK2-G2019S carrying iMGL recapitulate aspects of the transcriptional signature of human idiopathic PD midbrain microglia. LRRK2-G2019S induced subtle and donor-dependent alterations in iMGL mitochondrial respiration, phagocytosis and cytokine secretion. Investigation of microglial transcriptional state in the midbrains of PD patients revealed a subset of microglia with a transcriptional overlap between the in vitro PD-iMGL and human midbrain PD microglia. We conclude that LRRK2-G2019S iMGL serve as a model to study PD-related effects in human microglia.
Keywords	Medicine ; R ; Science ; Q
Language	English
Publishing date	2023-12-01T00:00:00Z
Publisher	Nature Portfolio
Document type	Article ; Online
Database	BASE - Bielefeld Academic Search Engine (life sciences selection)

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Article ; Online: An adaptive approach for heartbeat detection based on S-transform in seismocardiograms.

Tadi, Mojtaba Jafari / Lehtonen, Eero / Lahdenoja, Olli / Pankaala, Mikko / Koivisto, Tero

Annual International Conference of the IEEE Engineering in Medicine and Biology Society. IEEE Engineering in Medicine and Biology Society. Annual International Conference

2017 Volume 2016, Page(s) 2370–2373

Abstract: ... upon S-transform and Shannon energy. The S-transform which is a time-frequency (TF) representation first ... that combination of S-transform, Shannon energy, and other techniques considerably enhanced the efficiency ...

Abstract	This study presents a new technique which allows identification of individual heartbeats from seismocardiograms (SCG) with high accuracy. Our method is electrocardiogram (ECG) independent and designed based upon S-transform and Shannon energy. The S-transform which is a time-frequency (TF) representation first provides frequency-dependent resolution while preserving a direct relationship with Fourier spectrum. Subsequently, individual heartbeats are detected in the time domain by calculating the Shannon energy (SSE) of each obtained local spectrum and employing other techniques such as successive mean quantization transform (SMQT) and adaptive thresholding. A total of 30 recordings were analysed in this study by measuring SCG and simultaneous electrocardiogram (ECG) in supine position. The performance of the algorithm was tested using the standard ECGs obtained from each test subject. The obtained results were as follows (sensitivity, precision, and detection error rate): (98.0%, 98.4% and 0.2%). In conclusion, the results confirmed that combination of S-transform, Shannon energy, and other techniques considerably enhanced the efficiency for the heartbeat detection in seismocardiograms.
MeSH term(s)	Algorithms ; Electrocardiography ; Heart Rate ; Humans ; Signal Processing, Computer-Assisted
Language	English
Publishing date	2017-03-08
Publishing country	United States
Document type	Journal Article
ISSN	2694-0604
ISSN (online)	2694-0604
DOI	10.1109/EMBC.2016.7591206
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Article ; Online: Do the Subsidies of the Rural Development Programme Increase Employment in Rural Firms? A Counterfactual Impact Evaluation from Mainland Finland

Lehtonen Olli

European Countryside, Vol 15, Iss 2, Pp 167-

2023 Volume 185

Abstract: This study examines the effect of the subsidies given to firms through the Rural Development Programme (RDP) for Mainland Finland in Finland during the 2007–2013 period. In order to understand the impacts that this programme had, the study uses ... ...

Abstract	This study examines the effect of the subsidies given to firms through the Rural Development Programme (RDP) for Mainland Finland in Finland during the 2007–2013 period. In order to understand the impacts that this programme had, the study uses counterfactual modelling to analyse what forms of subsidies impact job creation in supported firms. The results showed that subsidies from the RDP had a positive impact on the development of subsidized firms and thus, the RDP was a key instrument for the renewal of the countryside and the promotion of rural viability in Finland.
Keywords	firm subsidies ; rdp ; counterfactual evaluation ; finland ; jobs ; Agriculture ; S ; Social Sciences ; H
Language	English
Publishing date	2023-06-01T00:00:00Z
Publisher	Sciendo
Document type	Article ; Online
Database	BASE - Bielefeld Academic Search Engine (life sciences selection)

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Article ; Online: Generation of a human induced pluripotent stem cell line (UEFi003-A) carrying heterozygous A673T variant in amyloid precursor protein associated with a reduced risk of Alzheimer’s disease

Taisia Rolova / Ying-Chieh Wu / Marja Koskuvi / Jenni Voutilainen / Tuuli-Maria Sonninen / Johanna Kuusisto / Markku Laakso / Riikka H. Hämäläinen / Jari Koistinaho / Šárka Lehtonen

Stem Cell Research, Vol 48, Iss , Pp 101968- (2020)

2020

Abstract: ... risk of late-onset Alzheimer‘s disease (AD) and age-related cognitive decline. The A673T mutation ...

Abstract	A673T mutation in the amyloid precursor protein (APP) is a rare variant associated with a reduced risk of late-onset Alzheimer‘s disease (AD) and age-related cognitive decline. The A673T mutation decreases beta-amyloid (Aβ) production and aggregation in neuronal cultures in vitro. Here we have identified a Finnish non-diseased male individual carrying a heterozygous A673T mutation, obtained a skin biopsy sample from him, and generated an iPSC line using commercially available integration-free Sendai virus-based kit. The established iPSC line retained the mutation, expressed pluripotency markers, had a normal karyotype, and differentiated into all three germ layers in vitro.
Keywords	Biology (General) ; QH301-705.5
Language	English
Publishing date	2020-10-01T00:00:00Z
Publisher	Elsevier
Document type	Article ; Online
Database	BASE - Bielefeld Academic Search Engine (life sciences selection)

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Article: Metformin Protects against Podocyte Injury in Diabetic Kidney Disease.

Lehtonen, Sanna

Pharmaceuticals (Basel, Switzerland)

2020 Volume 13, Issue 12

Abstract: Metformin is the most commonly prescribed drug for treating type 2 diabetes mellitus (T2D). Its mechanisms of action have been under extensive investigation, revealing that it has multiple cellular targets, either direct or indirect ones, via which it ... ...

Abstract	Metformin is the most commonly prescribed drug for treating type 2 diabetes mellitus (T2D). Its mechanisms of action have been under extensive investigation, revealing that it has multiple cellular targets, either direct or indirect ones, via which it regulates numerous cellular pathways. Diabetic kidney disease (DKD), the serious complication of T2D, develops in up to 50% of the individuals with T2D. Various mechanisms contribute to the development of DKD, including hyperglycaemia, dyslipidemia, oxidative stress, chronic low-grade inflammation, altered autophagic activity and insulin resistance, among others. Metformin has been shown to affect these pathways, and thus, it could slow down or prevent the progression of DKD. Despite several animal studies demonstrating the renoprotective effects of metformin, there is no concrete evidence in clinical settings. This review summarizes the renoprotective effects of metformin in experimental settings. Special emphasis is on the effects of metformin on podocytes, the glomerular epithelial cells that are central in maintaining the glomerular ultrafiltration function.
Language	English
Publishing date	2020-12-10
Publishing country	Switzerland
Document type	Journal Article ; Review
ZDB-ID	2193542-7
ISSN	1424-8247
ISSN	1424-8247
DOI	10.3390/ph13120452
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Article ; Online: Phenotypic characters of static homology increase phylogenetic stability under direct optimization of otherwise dynamic homology characters.

Lehtonen, Samuli

Cladistics : the international journal of the Willi Hennig Society

2020 Volume 36, Issue 6, Page(s) 617–626

Abstract: Direct optimization of unaligned sequence characters provides a natural framework to explore the sensitivity of phylogenetic hypotheses to variation in analytical parameters. Phenotypic data, when combined into such analyses, are typically analyzed with ... ...

Abstract	Direct optimization of unaligned sequence characters provides a natural framework to explore the sensitivity of phylogenetic hypotheses to variation in analytical parameters. Phenotypic data, when combined into such analyses, are typically analyzed with static homology correspondences unlike the dynamic homology sequence data. Static homology characters may be expected to constrain the direct optimization and thus, potentially increase the similarity of phylogenetic hypotheses under different cost sets. However, whether a total-evidence approach increases the phylogenetic stability or not remains empirically largely unexplored. Here, I studied the impact of static homology data on sensitivity using six empirical data sets composed of several molecular markers and phenotypic data. The inclusion of static homology phenotypic data increased the average stability of phylogenetic hypothesis in five out of the six data sets. To investigate if any static homology characters would have similar effect, the analyses were repeated with randomized phenotypic data, and with one of the molecular markers fixed as static homology characters. These analyses had, on average, almost no effect on the phylogenetic stability, although the randomized phenotypic data sometimes resulted in even higher stability than empirical phenotypic data. The impact was related to the strength of the phylogenetic signal in the phenotypic data: higher average jackknife support of the phenotypic tree correlated with stronger stabilizing effect in the total-evidence analysis. Phenotypic data with a strong signal made the total-evidence trees topologically more similar to the phenotypic trees, thus, they constrained the dynamic homology correspondences of the sequence data. Characters that increase phylogenetic stability are particularly valuable for phylogenetic inference. These results indicate an important role and additive value of phenotypic data in increasing the stability of phylogenetic hypotheses in total-evidence analyses.
Language	English
Publishing date	2020-10-29
Publishing country	United States
Document type	Journal Article
ZDB-ID	1462608-1
ISSN	1096-0031 ; 0748-3007
ISSN (online)	1096-0031
ISSN	0748-3007
DOI	10.1111/cla.12438
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