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Electrocardiographic Abnormalities in Hypertension Models

Ana Gabriela Conceição-Vertamatti, Filipy Borghi, Larissa Yuri Ishizu, Gustavo Trevisan Costa, Luiz Alberto Ramos, Miguel Arcanjo Areas, Dora Maria Grassi-Kassisse
2019 International Journal of Cardiovascular Sciences  
doi:10.36660/ijcs.20190116 fatcat:62ti36arebftfox3ufjolejm2i

Optimization of turn-back primers in isothermal amplification

Yasumasa Kimura, Michiel J. L. de Hoon, Shintaro Aoki, Yuri Ishizu, Yuki Kawai, Yasushi Kogo, Carsten O. Daub, Alexander Lezhava, Erik Arner, Yoshihide Hayashizaki
2011 Nucleic Acids Research  
Since the amplification pathway of each strand is symmetric, here we show an example derived from one particular strand. i. First, a reverse trun-back primer (TPr1) hybridizes to target DNA sequence (1) and followed DNA extension mediated by DNA polymerase creates DNA fragment flanked by TPr1 (2). Both ends of newly synthesized strand can be denatured partly and forming a stem-loop structure with thermal fluctuation. Such condition allows another reverse TP (TPr2) to hybridize to the exposed
more » ... get sequence and extends new strand which peels the existing strand off by strand displacement activity of the DNA polymerase (3). ii. The released DNA strand becomes a template for the next step as a forward TP (TPf1) can hybridize there (4). Extension from TPf1 creates DNA fragment flanked by TPf1 and complement of TPr1 (cTPr1) (5), which can be peeled off by the same mechanism as described above for TPr1 (6). iii. We named this peeled fragment flanked by TPf1 and cTPr1 as Intermediate product (IM1) (7). The 3' end of the IM1, cTPr1, is designed to form a stem-loop structure and DNA extension can be initiated at the 3' end by self-priming mechanism (8). iv. This event generates in total two different pathways (9). The one is self-priming from the complement of TPf1 (cTPf1) after stem-loop formation with thermal fluctuation (10). The other one occurs at the cTPr1 loop in the middle of the IM1 where another reverse TP (TPr4) can hybridize there (11) . v. Products are continuously amplified by the same mechanism as described above.
doi:10.1093/nar/gkr041 pmid:21310714 pmcid:PMC3089485 fatcat:li4vvddyvzf43pjlq7ltdwc6pq

LRRN4 and UPK3B Are Markers of Primary Mesothelial Cells

Mutsumi Kanamori-Katayama, Ai Kaiho, Yuri Ishizu, Yuko Okamura-Oho, Okio Hino, Masaaki Abe, Takumi Kishimoto, Hisahiko Sekihara, Yukio Nakamura, Harukazu Suzuki, Alistair R. R. Forrest, Yoshihide Hayashizaki (+1 others)
2011 PLoS ONE  
Mesothelioma is a highly malignant tumor that is primarily caused by occupational or environmental exposure to asbestos fibers. Despite worldwide restrictions on asbestos usage, further cases are expected as diagnosis is typically 20-40 years after exposure. Once diagnosed there is a very poor prognosis with a median survival rate of 9 months. Considering this the development of early pre clinical diagnostic markers may help improve clinical outcomes. Methodology: Microarray expression arrays
more » ... mesothelium and other tissues dissected from mice were used to identify candidate mesothelial lineage markers. Candidates were further tested by qRTPCR and in-situ hybridization across a mouse tissue panel. Two candidate biomarkers with the potential for secretion, uroplakin 3B (UPK3B), and leucine rich repeat neuronal 4 (LRRN4) and one commercialized mesothelioma marker, mesothelin (MSLN) were then chosen for validation across a panel of normal human primary cells, 16 established mesothelioma cell lines, 10 lung cancer lines, and a further set of 8 unrelated cancer cell lines. Conclusions: Within the primary cell panel, LRRN4 was only detected in primary mesothelial cells, but MSLN and UPK3B were also detected in other cell types. MSLN was detected in bronchial epithelial cells and alveolar epithelial cells and UPK3B was detected in retinal pigment epithelial cells and urothelial cells. Testing the cell line panel, MSLN was detected in 15 of the 16 mesothelioma cells lines, whereas LRRN4 was only detected in 8 and UPK3B in 6. Interestingly MSLN levels appear to be upregulated in the mesothelioma lines compared to the primary mesothelial cells, while LRRN4 and UPK3B, are either lost or down-regulated. Despite the higher fraction of mesothelioma lines positive for MSLN, it was also detected at high levels in 2 lung cancer lines and 3 other unrelated cancer lines derived from papillotubular adenocarcinoma, signet ring carcinoma and transitional cell carcinoma.
doi:10.1371/journal.pone.0025391 pmid:21984916 pmcid:PMC3184985 fatcat:nzewrxfwqvh2fogsqqckpk6yfe

Application of 3-Dimensional Speckle Tracking Imaging to the Assessment of Right Ventricular Regional Deformation

Akiko Atsumi, Tomoko Ishizu, Yuri Kameda, Masayoshi Yamamoto, Yoshie Harimura, Tomoko Machino-Ohtsuka, Ryo Kawamura, Mami Enomoto, Yoshihiro Seo, Kazutaka Aonuma
2013 Circulation Journal  
doi:10.1253/circj.cj-12-1445 pmid:23558739 fatcat:aunmj22cmjc35hljjof5yo4g34

Estimating Pulmonary Capillary Wedge Pressures Using Doppler Variables of Early Diastolic Left Ventricular Inflow

Yoshihiro Seo, Toshiyuki Ishimitsu, Naoko Moriyama, Tomoko Ishizu, Tsuyoshi Enomoto, Michiko Sakane, Hideki Kamiya, Yuri Hiranuma, Iwao Yamaguchi
2001 Japanese Circulation Journal - English Edition  
ulmonary capillary wedge pressure (PCWP) is an important clinical marker of cardiac function, 1-3 but measuring it requires right heart catheterization, which limits longterm monitoring or its use as a screening test. Therefore, a simple, reliable, and noninvasive method of estimating PCWP is required. Previous experimental studies have shown that left atrial pressure (LAP) is the most effective component of the transmitral flow velocity profile (TMF) obtained by pulsed Doppler
more » ... 4-9 and there have been numerous investigations of the relationship between Doppler variables, including the early diastolic transmitral flow peak velocities (E), the late diastolic transmitral flow peak velocities (A), the ratio E to A (E/A), the deceleration time of E (DT) and the isovolumic relaxation time (IVRT), and PCWP or left ventricular end-diastolic pressure (LVEDP). 12-15 Some clinical studies have pointed out, however, that TMF cannot be used in all types of patients to estimate PCWP, because the relationship between PCWP and Doppler variables varies with the subject. 16, 17 Other studies have also suggested that the LAP can be estimated more accurately using combinations of Doppler variables 18-25 ; for example, it has recently been shown that the propagation velocity (PV) of early diastolic left ventricular (LV) inflow based on color Doppler M-mode measurements was found to correlate well with the time constant of isovolumic LV relaxation (tau), and may be used to evaluate LV relaxation. 27, 28, 30, 32 On the basis that E depends on LAP and LV relaxation, 9-11 the ratio of E and PV (E/PV) has been shown to correlate well with PCWP. [23] [24] [25] However, we considered that PCWP might correlate well with multilinear regression analysis using E and PV in the interpretation of the determinant component of E. Accordingly, the present study was designed to evaluate whether a multilinear regression model based on E and PV can estimate PCWP more accurately than other Dopplerbased methods in various cardiac disease states. Methods Study Protocol In the initial study group, Doppler echocardiography and cardiac catheterization were performed simultaneously, and an equation to estimate PCWP was obtained by multilinear regression analysis using E and PV. The reliability of the obtained equation was then tested prospectively in a second population (test population). In this second study, the patients were classified into 3 groups based on LV function and morphology: (1) LV systolic dysfunction, (2) LV hypertrophy, and (3) no evidence of LV systolic dysfunction or hypertrophy. We determined the correlations between PCWP and Doppler TMF variables, and between the estimated PCWP obtained from the regression equation and the PCWP measured using a Swan-Ganz catheter. All patients gave written informed consent before participation. Initial Study Group The initial group comprised 30 patients (21 men, 9 women) whose ages ranged from 35 to 80 years (mean, 57±19 years). Twenty patients underwent catheterization for the evaluation of cardiac function and coronary artery disease: 5 had idiopathic with dilated cardiomyopathy, 3 had hypertrophic cardiomyopathy, and 2 had aortic stenosis. Patients with mitral stenosis, moderate to severe mitral Jpn Circ J 2001; 65: 33 -39 The present study was performed to determine whether a multilineal regression model based on the early diastolic transmitral flow peak velocity (E) and the propagation velocity of early diastolic inflow (PV) could estimate the pulmonary capillary wedge pressure (PCWP). PCWP and Doppler variables were simultaneously recorded in 30 patients. PCWP was estimated by multilinear regression analysis using E and PV. The predictive accuracy of the equation obtained from the analysis was tested prospectively in a separate group of 65 patients divided into 3 groups: left ventricular (LV) systolic dysfunction (Group A), LV hypertrophy (Group B), and preserved systolic function without hypertrophy (Group C). The initial results obtained in groups B and C, respectively, were: r=0.77; r=0.81. These results indicate that a multilinear regression model based on E and PV is a noninvasive method of accurately estimating PCWP in a variety of cardiac disease states. (Jpn Circ J 2001; 65: 33 -39)
doi:10.1253/jcj.65.33 pmid:11153819 fatcat:6lfjvizx6vau7luckhrsbkmfvq

Myocardial dysfunction identified by three-dimensional speckle tracking echocardiography in type 2 diabetes patients relates to complications of microangiopathy

Mami Enomoto, Tomoko Ishizu, Yoshihiro Seo, Yuri Kameda, Hiroaki Suzuki, Hiroshi Shimano, Yasushi Kawakami, Kazutaka Aonuma
2016 Journal of Cardiology  
The clinical effect of diabetic microangiopathy on left ventricular (LV) function is still uncertain. The purpose of this study was to assess the relation between diabetic microvascular complications and comprehensive myocardial deformation measurements using three-dimensional (3D) speckle tracking echocardiography. Methods: Seventy-seven asymptomatic patients with type 2 diabetes mellitus (DM) and 35 age-matched healthy control subjects underwent 3D echocardiography. Patients with coronary
more » ... ry disease or LV ejection fraction <50% were excluded. Presence of proliferative retinopathy, microalbuminuria as nephropathy, and decreased coefficient of variation of R-R intervals (CVRR) <3% as cardiac autonomic neuropathy were defined as diabetic microvascular complications. Results: LV ejection fraction, LV mass index, and global radial strain did not differ between control and DM patients. However, global longitudinal and circumferential strain and endocardial area change ratio were lower in patients with DM than in the controls (À12.0 AE 3.0% vs. À16.2 AE 1.9%, À27.7 AE 7.1% vs. 32.2 AE 5.7%, À37.6 AE 7.6% vs. 44.0 AE 6.2%, respectively, p < 0.001). In DM patients, longitudinal strain is related to CVRR (R = 0.58, p < 0.001), retinopathy stage, and nephropathy stage. Conclusions: Diabetic microangiopathy and its accumulated effects significantly related to subclinical LV dysfunction are characterized by impaired longitudinal shortening.
doi:10.1016/j.jjcc.2016.03.007 pmid:27146366 fatcat:e7rvgooj7vgt3cmwg4bb5uuz5u

Increased sympathetic tone and hypothalamic–pituitary–adrenal (HPA) axis activation impact in metabolic parameters from hypertensive rats

Larissa Yuri Ishizu, Filipy Borghi, Ana Gabriela Conceição-Vertamatti, Gustavo Trevisan Costa, Luiz Alberto Ramos, Miguel Arcanjo Área, Dora Maria Grassi-Kassisse
2021 Endocrine and Metabolic Science  
Ishizu Yuri PhD thesis under Prof Dr.  ... 
doi:10.1016/j.endmts.2021.100112 fatcat:cft772f3cffrdpdnycvmvdjtku

Deep sequencing of short capped RNAs reveals novel families of noncoding RNAs

Michiel Jan Laurens De Hoon, Alessandro Bonetti, Charles Plessy, Yoshinari Ando, Chung-Chau Hon, Yuri Ishizu, Masayoshi Itoh, Sachi Katoh, Dongyan Lin, Sho Maekawa, Mitsuyoshi Murata, Hiromi Nishiyori (+10 others)
2022 biorxiv/medrxiv  
In eukaryotes, capped RNAs include long transcripts such as messenger RNAs and long noncoding RNAs, as well as shorter transcripts such as spliceosomal RNAs, small nucleolar RNAs, and enhancer RNAs. Long capped transcripts can be profiled using Cap Analysis Gene Expression (CAGE) sequencing and other methods. Here, we describe a sequencing library preparation protocol for short capped RNAs, apply it to a differentiation time course of the human cell line THP-1, and systematically compare the
more » ... dscape of short capped RNAs to that of long capped RNAs. Transcription initiation peaks associated with genes in the sense direction had a strong preference to produce either long or short capped RNAs, with 1 out of 6 peaks detected in the short capped RNA libraries only. Gene-associated short capped RNAs had highly specific 3' ends, typically overlapping splice sites. Enhancers also preferentially generated either short or long capped RNAs, with 10% of enhancers observed in the short capped RNA libraries only. Both enhancers producing short or long capped RNAs showed enrichment for GWAS-associated disease SNPs. We conclude that deep sequencing of short capped RNAs reveals new families of noncoding RNAs and elucidates the diversity of transcripts generated at known and novel promoters and enhancers.
doi:10.1101/gr.276647.122 pmid:35961773 fatcat:6imncs6yv5hgdbfnmjjuiog4sy

Acute Effect of Manual Lymphatic Drainage on Natriuresis and Lipolysis in Young Women

Érica A. M. Camargo, Filipy Borghi, Aglécio Luiz de Souza, Denise Maria Marcorin, Luana de Lima Rodrigues, Danilo Roberto Xavier de Oliveira Crege, Larissa Yuri Ishizu, Priscila Cristina da Silva, Dora Maria Grassi-Kassisse, Maria Silvia Mariani Pires-de-Campos
2018 International Journal of Cardiovascular Sciences  
The importance of scientific validation of supporting techniques to various treatments is unquestionable. In this context, the influence of manual lymphatic drainage (MLD) on natriuresis and lipolysis and its interaction with oral contraceptives still need to be investigated. Objectives: To evaluate the acute effect of MLD on natriuresis and lipolysis in young women using or not oral contraceptives. Methods: Twenty-nine non-users of oral contraceptives and 29 oral contraceptive users,
more » ... ted healthy, sedentary, normal weight women were enrolled. Analyses were conducted on two different days -control (C), without therapeutic intervention and MLD day. Four urine samples were collected at 60-minute intervals. MLD was performed in lower limbs and abdomen for 45 min following the Leduc method. Urinary flow rate and urinary sodium, glycerol and atrial natriuretic peptide excretion were analyzed. Data normality was tested by the Shapiro-Wilk test. Data without normal distribution were expressed as median and interquartile range (25%-75%), while normally distributed data were expressed as mean ± standard error. Mann-Whitney test was used for unpaired data and Wilcoxon test for paired data. Data with normal distribution were evaluated by the unpaired t-Student test. Statistical significance was set at 5%. Results: One MLD session had an acute effect on both groups, increasing natriuresis in non-users of oral contraceptives and glycerol and atrial natriuretic peptide excretion in oral contraceptive users.
doi:10.5935/2359-4802.20180023 fatcat:rom23wucyrebxi4itotgxmz55i

Mapping Mammalian Cell-type-specific Transcriptional Regulatory Networks Using KD-CAGE and ChIP-seq Data in the TC-YIK Cell Line

Marina Lizio, Yuri Ishizu, Masayoshi Itoh, Timo Lassmann, Akira Hasegawa, Atsutaka Kubosaki, Jessica Severin, Hideya Kawaji, Yukio Nakamura, Harukazu Suzuki, Yoshihide Hayashizaki, Piero Carninci (+1 others)
2015 Frontiers in Genetics  
Lizio et al. Cell-type-specific TRNs by KD-CAGE and ChIP-seq Integration activates DACH1, SHOX2, PAX6, and PDX1. Analysis of these complementary datasets suggests the need for caution in interpreting ChIP-seq datasets. (1) A large fraction of binding sites are at distal enhancer sites and cannot be directly associated to their targets, without chromatin conformation data. (2) Many peaks may be non-functional: even when there is a peak at a promoter, the expression of the gene may not be affected in the matching perturbation experiment.
doi:10.3389/fgene.2015.00331 pmid:26635867 pmcid:PMC4650373 fatcat:hwhg7gwa65hphhcmwgeyl6sm5m

Comparative transcriptomics of primary cells in vertebrates

Tanvir Alam, Saumya Agrawal, Jessica Severin, Robert S. Young, Robin Andersson, Erik Arner, Akira Hasegawa, Marina Lizio, Jordan A. Ramilowski, Imad Abugessaisa, Yuri Ishizu, Shohei Noma (+13 others)
2020 Genome Research  
Gene expression profiles in homologous tissues have been observed to be different between species, which may be due to differences between species in the gene expression program in each cell type, but may also reflect differences in cell type composition of each tissue in different species. Here, we compare expression profiles in matching primary cells in human, mouse, rat, dog, and chicken using Cap Analysis Gene Expression (CAGE) and short RNA (sRNA) sequencing data from FANTOM5. While we
more » ... that expression profiles of orthologous genes in different species are highly correlated across cell types, in each cell type many genes were differentially expressed between species. Expression of genes with products involved in transcription, RNA processing, and transcriptional regulation was more likely to be conserved, while expression of genes encoding proteins involved in intercellular communication was more likely to have diverged during evolution. Conservation of expression correlated positively with the evolutionary age of genes, suggesting that divergence in expression levels of genes critical for cell function was restricted during evolution. Motif activity analysis showed that both promoters and enhancers are activated by the same transcription factors in different species. An analysis of expression levels of mature miRNAs and of primary miRNAs identified by CAGE revealed that evolutionary old miRNAs are more likely to have conserved expression patterns than young miRNAs. We conclude that key aspects of the regulatory network are conserved, while differential expression of genes involved in cell-to-cell communication may contribute greatly to phenotypic differences between species.
doi:10.1101/gr.255679.119 pmid:32718981 pmcid:PMC7397866 fatcat:bnzkwa6uevaubmpwn4imvilpza

An atlas of active enhancers across human cell types and tissues

Robin Andersson, Claudia Gebhard, Irene Miguel-Escalada, Ilka Hoof, Jette Bornholdt, Mette Boyd, Yun Chen, Xiaobei Zhao, Christian Schmidl, Takahiro Suzuki, Evgenia Ntini, Erik Arner (+38 others)
2014 Nature  
Enhancers control the correct temporal and cell type-specific activation of gene expression in higher eukaryotes. Knowing their properties, regulatory activity and targets is crucial to understand the regulation of differentiation and homeostasis. We use the FANTOM5 panel of samples covering the majority of human tissues and cell types to produce an atlas of active, in vivo transcribed enhancers. We show that enhancers share properties with CpGpoor mRNA promoters but produce bidirectional,
more » ... me-sensitive, relatively short unspliced RNAs, the generation of which is strongly related to enhancer activity. The atlas is used to compare regulatory programs between different cells at unprecedented depth, identify disease-associated regulatory single nucleotide polymorphisms, and classify cell type-specific and ubiquitous enhancers. We further explore the utility of enhancer redundancy, which explains gene expression strength rather than expression patterns. The online FANTOM5 enhancer atlas represents a unique resource for studies on cell type-specific enhancers and gene regulation.
doi:10.1038/nature12787 pmid:24670763 pmcid:PMC5215096 fatcat:4l4j23q6r5hcvk43dxppq7x75m

One-Step Detection of the 2009 Pandemic Influenza A(H1N1) Virus by the RT-SmartAmp Assay and Its Clinical Validation

Yuki Kawai, Yasumasa Kimura, Alexander Lezhava, Hajime Kanamori, Kengo Usui, Takeshi Hanami, Takahiro Soma, Jean-Étienne Morlighem, Satomi Saga, Yuri Ishizu, Shintaro Aoki, Ryuta Endo (+24 others)
2012 PLoS ONE  
In 2009, a pandemic (pdm) influenza A(H1N1) virus infection quickly circulated globally resulting in about 18,000 deaths around the world. In Japan, infected patients accounted for 16% of the total population. The possibility of human-to-human transmission of highly pathogenic novel influenza viruses is becoming a fear for human health and society. Methodology: To address the clinical need for rapid diagnosis, we have developed a new method, the "RT-SmartAmp assay", to rapidly detect the 2009
more » ... ndemic influenza A(H1N1) virus from patient swab samples. The RT-SmartAmp assay comprises both reverse transcriptase (RT) and isothermal DNA amplification reactions in one step, where RNA extraction and PCR reaction are not required. We used an exciton-controlled hybridization-sensitive fluorescent primer to specifically detect the HA segment of the 2009 pdm influenza A(H1N1) virus within 40 minutes without cross-reacting with the seasonal A(H1N1), A(H3N2), or B-type (Victoria) viruses.
doi:10.1371/journal.pone.0030236 pmid:22295077 pmcid:PMC3266250 fatcat:vurdp6hupnavvpx7t4yryjczcq

Morphometry of isolated adipocytes from rats of two models of hypertension

Gustavo Trevizan Costa, Larissa Yuri Ishizu, Ana Gabriela Conceição Vertamatti, Dora Maria Grassi Kassisse
2015 Anais do Congresso de Iniciação Científica da Unicamp   unpublished
G. Conceição-Vertamatti (PG), Dora M. Grassi Kassisse (PQ). Abstract The elevated sympathetic tone is present in metabolic disease (MD), and may be its major mechanism underlying, which can influence the adipocyte size. Our aim was to analyze area and diameter of isolated adipocytes of hypertensive rats. Hypertensive rats presented smaller adipocytes than their control, which can be related to MD metabolic alterations.
doi:10.19146/pibic-2015-37344 fatcat:djwjcbjqqnhbzgkktjxp36l2uy

Adiposity of isolated adipocytes from fed hypertensive rats with the same age

SANDRINE GIANCRISTOFARO GOUVEA, Gustavo Trevizan Costa, Larissa Yuri Ishizu, ANA G. CONCEIÇÃO-VERTAMATTI, FILIPY BORGHI, Dora Maria Grassi Kassisse
2016 XXIV Congresso de Iniciação Científica da Unicamp   unpublished
There are studies showing the relationship between high adiposity and hypertension, none about the lipodystrophy in spontaneously hypertensive rats. We analyzed body weight, food intake, white fat pads and morphometry of isolated adipocytes from fed rats in two different hypertensive rat models, induced and genetic. Hypertensive models were lighter, intake less food and shower lower adiposity than controls, and the genetic control was heavier and consumed less food than Wistar.
doi:10.19146/pibic-2016-51097 fatcat:onpya6hdhzhrdfue6s6neogyxe
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