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Article ; Online: Genetic analysis distinguished new natural population and old plantations of Cryptomeria japonica

Yunosuke Onuma / Kentaro Uchiyama / Megumi Kimura / Yoshihiko Tsumura

Trees, Forests and People, Vol 11, Iss , Pp 100365- (2023)

2023

Abstract: Natural forest is important not only for conserving genetic diversity, but also as a future breeding resource, especially for forestry tree species. Cryptomeria japonica is an important forestry tree species in Japan, but natural populations are limited. ...

Abstract	Natural forest is important not only for conserving genetic diversity, but also as a future breeding resource, especially for forestry tree species. Cryptomeria japonica is an important forestry tree species in Japan, but natural populations are limited. We discovered apparently natural C. japonica individuals on Mt Aoba, adjacent to Wakasa Bay in Fukui Prefecture, Japan. The area around Wakasa Bay was an important refugia for this species during the Last Glacial Maximum. To clarify whether these individuals are natural origin or not, we sampled 195 individuals with a diameter at breast height (dbh) greater than 60 cm (with an average dbh of 79 cm), and conducted genetic analyses with 249 SNP and 20 SSR markers. We found two genetic clusters identified as ura-sugi and omote-sugi lineages and the genetic diversity of the sample was similar to known natural populations. The ura-sugi lineage showed a clear correlation between age and dbh, whereas the omote-sugi lineage showed no correlation. The ura-sugi lineage was also genetically very similar to nearby natural populations. Most of the omote-sugi lineage trees were about 100 years old regardless of dbh, and located in one small valley close to a village. The results suggest that the ura-sugi lineage (124 individuals) represents a population of natural origin, whereas the omote-sugi lineage (60 individuals) population was probably planted about 100 years ago using trees of non-local origin. Seven individuals appeared to be hybrids, displaying both ura-sugi and omote-sugi lineages. In situ conservation of the ura-sugi individuals should be a priority, after removing the omote-sugi lineage, in order to conserve the natural genetic resources they represent. Ex-situ conservation strategies should also be implemented to protect the endemic gene pool from gene flow from the many C. japonica plantations in the surrounding area.
Keywords	C. japonica ; Genetic origin ; Genetic resources ; Conservation ; Phylogenetic analysis ; Forestry ; SD1-669.5 ; Plant ecology ; QK900-989
Subject code	590
Language	English
Publishing date	2023-03-01T00:00:00Z
Publisher	Elsevier
Document type	Article ; Online
Database	BASE - Bielefeld Academic Search Engine (life sciences selection)

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Article ; Online: Effect of switching from tenofovir disoproxil fumarate to tenofovir alafenamide on lipid profiles in patients with hepatitis B.

PLoS ONE, Vol 17, Iss 1, p e

2022 Volume 0261760

Abstract: For long-term treatment of hepatitis B virus (HBV) infection, switching from tenofovir-disoproxil-fumarate (TDF) to tenofovir-alafenamide (TAF) may prevent renal dysfunction and bone loss. However, the precise effects of this switch on the blood lipid ... ...

Abstract	For long-term treatment of hepatitis B virus (HBV) infection, switching from tenofovir-disoproxil-fumarate (TDF) to tenofovir-alafenamide (TAF) may prevent renal dysfunction and bone loss. However, the precise effects of this switch on the blood lipid profile remain to be clarified. This is an important issue as TDF is known to have effects on both low- and high-density lipids. Therefore, our retrospective multi-center study aimed to evaluate the effects of switching from TDF to TAF on the lipid profile of patients with HBV infection. Samples were obtained prior to the switch from TDF to TAF and at 6-12 months after TAF initiation. In some cases, additional samples obtained pre- and post-TDF administration were available for analysis. Serum cholesterol levels, including oxidized-low-density lipoprotein (LDL) and non-high-density lipoprotein-cholesterol (HDL-c), and the rate of dyslipidemia, according to the NCEP-ATP III lipid risk classification, were analyzed. The data from 69 patients were analyzed, including 33 patients with pre- and post-TDF-initiation serum samples. Total cholesterol (T-chol), HDL-c, LDL-c, non-HDL-c, and oxidized LDL levels increased significantly after switching to TAF. With regard to sequential changes pre- to post-TAF, TDF was associated with significantly lower serum T-chol, HDL-c, and oxidized LDL-c levels, with T-chol, HDL-c, LDL-c, and oxidized LDL-c levels increasing significantly after the switch. The switch from TDF to TAF was also associated with an increase in the rate of dyslipidemia, from 33% to 39%, with an increase in the rate of severe dyslipidemia of 1.4% and 5.8%, based on T-chol and LDL-c levels. Of note, no cases of severe dyslipidemia were detected pre-TAF treatment. As oxidized LDL-c and non-HDL-c are strongly associated with atherosclerosis development, careful monitoring of lipid is needed after switching from TDF to TAF in this clinical population.
Keywords	Medicine ; R ; Science ; Q
Subject code	616
Language	English
Publishing date	2022-01-01T00:00:00Z
Publisher	Public Library of Science (PLoS)
Document type	Article ; Online
Database	BASE - Bielefeld Academic Search Engine (life sciences selection)

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Article ; Online: Computed tomography, not bioelectrical impedance analysis, is the proper method for evaluating changes in skeletal muscle mass in liver disease

Masatsugu Ohara / Goki Suda / Megumi Kimura / Osamu Maehara / Tomoe Shimazaki / Taku Shigesawa / Kazuharu Suzuki / Akihisa Nakamura / Naoki Kawagishi / Masato Nakai / Takuya Sho / Mitsuteru Natsuizaka / Kenichi Morikawa / Koji Ogawa / Naoya Sakamoto

JCSM Rapid Communications, Vol 3, Iss 2, Pp 103-

2020 Volume 114

Abstract: Abstract Background Sarcopenia is associated with poor prognosis in patients with chronic liver disease (CLD). As rapid skeletal muscle wasting predicts worse prognosis and a novel therapy for sarcopenia needs to be evaluated for validation, accurate ... ...

Abstract	Abstract Background Sarcopenia is associated with poor prognosis in patients with chronic liver disease (CLD). As rapid skeletal muscle wasting predicts worse prognosis and a novel therapy for sarcopenia needs to be evaluated for validation, accurate evaluation methods for relative changes in muscle mass are crucial. Methods We screened CLD patients who had skeletal muscle mass evaluation between June 2015 and December 2017. Patients were included if they had adequate information, were followed for >6 months, and had skeletal muscle mass evaluation by both bioelectrical impedance analysis (BIA) and computed tomography (CT) imaging at baseline and the second evaluation point. We compared BIA and CT imaging in terms of their ability to quantify skeletal muscle mass and identify relative changes in muscle mass in CLD patients. Results Of the screened 447 CLD patients, 110 were included in this study, and 71 (64.5%) were men. The median age was 68 (range 21 to 90) years. In total, 83 (75.5%) and 32 (29.1%) patients had liver cirrhosis and hepatocellular carcinoma, respectively. Of them, 50 (45.5%) patients were liver cirrhosis patients without hepatocellular carcinoma through the observation period. Skeletal muscle mass index (SMI) by BIA, psoas muscle mass index (PMI), and SMI based on CT imaging were significantly correlated at baseline [SMI by simple CT method and SMI by BIA (r = 0.61, P < 0.01), SMI by BIA and PMI (r = 0.65, P < 0.01), and SMI by simple CT method and PMI (r = 0.82, P < 0.01), respectively] and second evaluation point [SMI by simple CT method and SMI by BIA (r = 0.51, P < 0.01), SMI by BIA and PMI (r = 0.58, P < 0.01), and SMI by simple CT method and PMI (r = 0.92, P < 0.01), respectively]. Similar to previous reports, based on the PMI and SMI by simple CT method, patients with more severe liver dysfunction experienced more rapid skeletal muscle mass loss (ΔSimple method/years and ΔPMI/years in patients with Child‑Pugh Classes A, B, and C: Child‑Pugh A, −3.34%; B, −11.77%; C, ...
Keywords	Secondary sarcopenia ; Psoas muscle mass index ; BIA ; Computed tomography ; Internal medicine ; RC31-1245
Subject code	610
Language	English
Publishing date	2020-07-01T00:00:00Z
Publisher	Wiley
Document type	Article ; Online
Database	BASE - Bielefeld Academic Search Engine (life sciences selection)

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Article ; Online: Baseline serum angiopoietin-2 and VEGF levels predict the deterioration of the liver functional reserve during lenvatinib treatment for hepatocellular carcinoma.

Taku Shigesawa / Goki Suda / Megumi Kimura / Osamu Maehara / Yoshimasa Tokuchi / Akinori Kubo / Ren Yamada / Ken Furuya / Masaru Baba / Takashi Kitagataya / Kazuharu Suzuki / Masatsugu Ohara / Naoki Kawagishi / Masato Nakai / Takuya Sho / Mitsuteru Natsuizaka / Kenichi Morikawa / Koji Ogawa / Naoya Sakamoto

PLoS ONE, Vol 16, Iss 3, p e

2021 Volume 0247728

Abstract: A deteriorated liver functional reserve during systemic therapy for unresectable hepatocellular carcinoma (HCC) causes poor patient outcomes. We aimed to identify predictive factors associated with the deterioration of Child-Pugh score at 8 weeks after ... ...

Abstract	A deteriorated liver functional reserve during systemic therapy for unresectable hepatocellular carcinoma (HCC) causes poor patient outcomes. We aimed to identify predictive factors associated with the deterioration of Child-Pugh score at 8 weeks after lenvatinib initiation. Patients with adequate clinical data and baseline preserved serum samples available were included. Baseline fibroblast growth factor (FGF)19 and 21, angiopoietin (ANG)2, and vascular endothelial growth factor (VEGF) levels were evaluated. Thirty-seven patients were included, and 6, 15, 14, and 2 experienced complete response, partial response, stable disease, and progressive disease, respectively. Twenty-four (65%) and 13 (35%) patients showed a maintained/improved and deteriorated Child-Pugh-score, respectively. While baseline clinical data, treatment response, and laboratory data were similar between these two patient groups, baseline ANG2 and VEGF levels were significantly higher (P = 0.0017) and lower (P = 0.0231), respectively, in patients with deteriorated Child-Pugh score than in those without. Based on receiver operating characteristic curve analysis, cut-off values for ANG2 and VEGF were found to be 3,108 pg/mL and 514.9 pg/mL, respectively. Among patients with low VEGF and high ANG2, 89% (8/9) exhibited a deteriorated Child-Pugh score, whereas none of the patients (0/9) with high VEGF and low ANG2 did. The deterioration of the Child-Pugh score in patients with unresectable HCC who are treated with lenvatinib may be predictable based on combined baseline serum ANG2 and VEGF levels.
Keywords	Medicine ; R ; Science ; Q
Subject code	616
Language	English
Publishing date	2021-01-01T00:00:00Z
Publisher	Public Library of Science (PLoS)
Document type	Article ; Online
Database	BASE - Bielefeld Academic Search Engine (life sciences selection)

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Article ; Online: Baseline elevated serum angiopoietin-2 predicts long-term non-regression of liver fibrosis after direct-acting antiviral therapy for hepatitis C

Naoki Kawagishi / Goki Suda / Megumi Kimura / Osamu Maehara / Ren Yamada / Yoshimasa Tokuchi / Akinori Kubo / Takashi Kitagataya / Taku Shigesawa / Kazuharu Suzuki / Masatsugu Ohara / Masato Nakai / Takuya Sho / Mitsuteru Natsuizaka / Kenichi Morikawa / Koji Ogawa / Yusuke Kudo / Mutsumi Nishida / Naoya Sakamoto

Scientific Reports, Vol 11, Iss 1, Pp 1-

2021 Volume 9

Abstract: Abstract We previously revealed that Angiopoietin-2 (Ang2) predicts non-regression of liver fibrosis based on liver stiffness measurement (LSM) at 24 weeks after anti-hepatitis C virus (HCV) treatment. In this study, we extended the observational period ... ...

Abstract	Abstract We previously revealed that Angiopoietin-2 (Ang2) predicts non-regression of liver fibrosis based on liver stiffness measurement (LSM) at 24 weeks after anti-hepatitis C virus (HCV) treatment. In this study, we extended the observational period to 96 weeks to investigate the factors associated with non-regression after treatment with direct-acting-antivirals (DAAs). Patients treated with DAAs who underwent transient elastography at baseline and 24 and 96 weeks after DAA therapy were included. Baseline and post-treatment serum Ang2 levels were measured. Liver fibrosis stages were defined based on LSM. Multivariate regression was used to evaluate factors associated with non-regression of liver fibrosis between various time points. In total, 110 patients were included. Of these, 11% showed non-regression of LSM-based fibrosis stage at 96 weeks after DAA therapy. In multivariate analysis, advanced liver fibrosis stage and high baseline Ang2 levels were significantly associated with non-regression at 96 weeks. In patients with advanced liver fibrosis (F3/4), baseline Ang2 levels were associated with non-regression of liver fibrosis stage. Between SVR24 and SVR96, post-treatment Ang2 levels and controlled attenuation parameter values at SVR24 were significantly associated with non-regression of liver fibrosis stage in patients with F3/4. Thus, serum Ang2 levels are an important target for monitoring and therapy.
Keywords	Medicine ; R ; Science ; Q
Subject code	610
Language	English
Publishing date	2021-04-01T00:00:00Z
Publisher	Nature Portfolio
Document type	Article ; Online
Database	BASE - Bielefeld Academic Search Engine (life sciences selection)

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Article ; Online: Acquisition of chopstick-operation skills with the non-dominant hand and concomitant changes in brain activity

Daisuke Sawamura / Satoshi Sakuraba / Yumi Suzuki / Masako Asano / Susumu Yoshida / Toshihiro Honke / Megumi Kimura / Yoshiaki Iwase / Yoshitaka Horimoto / Kazuki Yoshida / Shinya Sakai

Scientific Reports, Vol 9, Iss 1, Pp 1-

2019 Volume 11

Abstract: Abstract Despite their common use as eating utensils in East Asia, chopsticks require complex fine motor-skills for adequate operation and are thus most frequently used with the dominant hand; however, the effect of training time on the proficiency of ... ...

Abstract	Abstract Despite their common use as eating utensils in East Asia, chopsticks require complex fine motor-skills for adequate operation and are thus most frequently used with the dominant hand; however, the effect of training time on the proficiency of using chopsticks with the non-dominant hand, as well as the brain activity underlying changes in skill, remain unclear. This study characterised the effect of time spent training in chopstick operation with the non-dominant hand on chopstick-use proficiency and the related brain activity to obtain data that may help individuals who are obliged to change handedness due to neurological disease to learn to use their non-dominant hand in performing daily activities. Thirty-two healthy right-handed students were randomly allocated to training (n = 16) or control (n = 16) groups; the former received 6 weeks of training in chopstick use with their non-dominant (left) hand, and the latter received none. After training, significant improvements in the execution speed and smoothness of upper extremity joints were observed in the training group. Moreover, left dorsolateral prefrontal cortex activity significantly decreased, and bilateral premotor cortex activity significantly increased across training. These results indicated that 6 weeks of chopstick training with the non-dominant hand effectively improved chopstick operation.
Keywords	Medicine ; R ; Science ; Q
Subject code	796
Language	English
Publishing date	2019-12-01T00:00:00Z
Publisher	Nature Publishing Group
Document type	Article ; Online
Database	BASE - Bielefeld Academic Search Engine (life sciences selection)

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Article ; Online: Possible correlation between increased serum free carnitine levels and increased skeletal muscle mass following HCV eradication by direct acting antivirals

Scientific Reports, Vol 11, Iss 1, Pp 1-

2021 Volume 9

Abstract: Abstract We aimed to evaluate factors associated with changes in skeletal muscle mass in hepatitis C virus (HCV)-infected patients after treatment with direct-acting antivirals (DAAs). Consecutive HCV-infected patients after treatment with DAA were ... ...

Abstract	Abstract We aimed to evaluate factors associated with changes in skeletal muscle mass in hepatitis C virus (HCV)-infected patients after treatment with direct-acting antivirals (DAAs). Consecutive HCV-infected patients after treatment with DAA were recruited into the study. Patients who achieved sustained virological response (SVR); and had complete clinical information, preserved serum samples at baseline and SVR48, and skeletal muscle mass evaluations based on the psoas muscle mass index (PMI) on computed tomography at baseline and ≥ 12 months were included. Altogether, 70.7% of patients (41/58) showed increased PMI after DAA therapy, and mean relative PMI was significantly higher after DAA therapy than at baseline. There were no significant associations between baseline clinical factors routinely examined in clinical practice and increased PMI. Among factors reported to be associated with skeletal muscle loss in patients with chronic liver disease, serum zinc levels and total and free carnitine levels increased significantly after DAA therapy and only changes in serum free carnitine levels were significantly associated with an increased PMI (r = 0305, P = 0.020). In conclusion, increased skeletal muscle mass after successful HCV eradication by DAAs was significantly associated with increased serum-free carnitine levels. l-carnitine supplementation may be beneficial in patients with low skeletal muscle mass after DAA.
Keywords	Medicine ; R ; Science ; Q
Subject code	610
Language	English
Publishing date	2021-08-01T00:00:00Z
Publisher	Nature Portfolio
Document type	Article ; Online
Database	BASE - Bielefeld Academic Search Engine (life sciences selection)

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Article ; Online: Liver steatosis and dyslipidemia after HCV eradication by direct acting antiviral agents are synergistic risks of atherosclerosis.

Naoki Kawagishi / Goki Suda / Akinobu Nakamura / Megumi Kimura / Osamu Maehara / Kazuharu Suzuki / Akihisa Nakamura / Masatsugu Ohara / Takaaki Izumi / Machiko Umemura / Masato Nakai / Takuya Sho / Mitsuteru Natsuizaka / Kenichi Morikawa / Koji Ogawa / Yusuke Kudo / Mutsumi Nishida / Hideaki Miyoshi / Naoya Sakamoto

PLoS ONE, Vol 13, Iss 12, p e

2018 Volume 0209615

Abstract: AIM:We comprehensively analyzed how hepatitis C virus (HCV) eradication by interferon (IFN)-free direct-acting-antiviral-agents (DAAs) affects liver steatosis and atherogenic risk. METHODS:Patients treated with IFN-free-DAAs who underwent transient ... ...

Abstract	AIM:We comprehensively analyzed how hepatitis C virus (HCV) eradication by interferon (IFN)-free direct-acting-antiviral-agents (DAAs) affects liver steatosis and atherogenic risk. METHODS:Patients treated with IFN-free-DAAs who underwent transient elastography before and at 24-weeks post-treatment, including controlled attenuation parameter (CAP), and achieved sustained viral response (SVR) were enrolled. The association between changes in liver steatosis, lipid-metabolism, and genetic and clinical factors was analyzed. RESULTS:A total of 117 patients were included. The mean CAP and low-density lipoprotein cholesterol (LDL-C) levels were significantly elevated at SVR24. However, baseline LDL-C and CAP values were significantly negatively correlated with changes in these values after HCV eradication, indicating that in patients with high baseline values, the values generally decreased after HCV eradication. Mean small-dense LDL-C (sdLDL-C), which has greater atherogenic potential, was significantly elevated only in patients with both dyslipidemia (LDL-C >140 mg/dL) and liver steatosis (CAP >248 dB/m) at SVR24. Those patients had significant higher baseline BMI, LDL-C, and total-cholesterol levels. CONCLUSIONS:Generally, successful HCV eradication by IFN-free-DAAs decreases CAP and LDL-C in patients with high baseline values. However, elevated LDL-C was accompanied with elevated sdLDL-C only in patients with liver steatosis and dyslipidemia at SVR24; therefore, those patients may require closer monitoring.
Keywords	Medicine ; R ; Science ; Q
Subject code	610
Language	English
Publishing date	2018-01-01T00:00:00Z
Publisher	Public Library of Science (PLoS)
Document type	Article ; Online
Database	BASE - Bielefeld Academic Search Engine (life sciences selection)

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Article ; Online: Demonstrating trustworthiness when collecting and sharing genomic data

Richard Milne / Katherine I. Morley / Mohamed A. Almarri / Shamim Anwer / Jerome Atutornu / Elena E. Baranova / Paul Bevan / Maria Cerezo / Yali Cong / Alessia Costa / Christine Critchley / Josepine Fernow / Peter Goodhand / Qurratulain Hasan / Aiko Hibino / Gry Houeland / Heidi C. Howard / S. Zakir Hussain / Charlotta Ingvoldstad Malmgren /

Vera L. Izhevskaya / Aleksandra Jędrzejak / Cao Jinhong / Megumi Kimura / Erika Kleiderman / Brandi Leach / Keying Liu / Deborah Mascalzoni / Álvaro Mendes / Jusaku Minari / Dianne Nicol / Emilia Niemiec / Christine Patch / Jack Pollard / Barbara Prainsack / Marie Rivière / Lauren Robarts / Jonathan Roberts / Virginia Romano / Haytham A. Sheerah / James Smith / Alexandra Soulier / Claire Steed / Vigdis Stefànsdóttir / Cornelia Tandre / Adrian Thorogood / Torsten H. Voigt / Nan Wang / Anne V. West / Go Yoshizawa / Anna Middleton

Genome Medicine, Vol 13, Iss 1, Pp 1-

public views across 22 countries

2021 Volume 12

Abstract: Abstract Background Public trust is central to the collection of genomic and health data and the sustainability of genomic research. To merit trust, those involved in collecting and sharing data need to demonstrate they are trustworthy. However, it is ... ...

Abstract	Abstract Background Public trust is central to the collection of genomic and health data and the sustainability of genomic research. To merit trust, those involved in collecting and sharing data need to demonstrate they are trustworthy. However, it is unclear what measures are most likely to demonstrate this. Methods We analyse the ‘Your DNA, Your Say’ online survey of public perspectives on genomic data sharing including responses from 36,268 individuals across 22 low-, middle- and high-income countries, gathered in 15 languages. We examine how participants perceived the relative value of measures to demonstrate the trustworthiness of those using donated DNA and/or medical information. We examine between-country variation and present a consolidated ranking of measures. Results Providing transparent information about who will benefit from data access was the most important measure to increase trust, endorsed by more than 50% of participants across 20 of 22 countries. It was followed by the option to withdraw data and transparency about who is using data and why. Variation was found for the importance of measures, notably information about sanctions for misuse of data—endorsed by 5% in India but almost 60% in Japan. A clustering analysis suggests alignment between some countries in the assessment of specific measures, such as the UK and Canada, Spain and Mexico and Portugal and Brazil. China and Russia are less closely aligned with other countries in terms of the value of the measures presented. Conclusions Our findings highlight the importance of transparency about data use and about the goals and potential benefits associated with data sharing, including to whom such benefits accrue. They show that members of the public value knowing what benefits accrue from the use of data. The study highlights the importance of locally sensitive measures to increase trust as genomic data sharing continues globally.
Keywords	Medicine ; R ; Genetics ; QH426-470
Subject code	306
Language	English
Publishing date	2021-05-01T00:00:00Z
Publisher	BMC
Document type	Article ; Online
Database	BASE - Bielefeld Academic Search Engine (life sciences selection)

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