Assessment of genetic relationships among cultivated and wild Rubus accessions using AFLP markers

The genus Rubus comprises more than 740 species divided into 12 subgenera and contains the raspberries, blackberries, arctic fruits, and flowering raspberries, all of which have been utilized in breeding programs. The objective of this study was to evaluate the phylogenetic relationships among wild and cultivated Rubus species mainly collected in Japan. To evaluate genetic resources in Rubus, 81 accessions were analyzed with three amplified fragment length polymorphism (AFLP) primer pairs and data were analyzed with the neighbor-joining and unweighted pair group methods with arithmetic mean. Two of the generated phylogenetic trees grouped subgenera Anoplobatus, Eubatus, Idaeobatus, and Malachobatus into different clusters. Accessions of Rubus idaeus L. var. aculeatissimus collected from four regions in Hokkaido formed distinct clusters reflecting sampling sites. Four hybrid accessions between raspberry cultivars (R. idaeus L.) and R. idaeus L. var. aculeatissimus, and one hybrid accession between a raspberry cultivar and Rubus spectabilis Pursh were clearly distinguished from parental accessions. These results indicated that AFLP markers are a reliable technique for assessing genetic diversity and studying phylogenetic relationships in Rubus. Data from diversity and phylogenetic studies revealed valuable information on the availability of unique fragments in different accessions that would be useful for the development of improved genotypes through conventional breeding and marker-assisted selection

Future changes in extreme storm surge based on a maximum potential storm surge model for East Asia

We analyzed tropical cyclones (TC) based on the theory of Maximum Potential Intensity (MPI) and Maximum Potential Surge (MPS) for a long-term assessment of extreme TC intensity and storm surge heights. We investigated future changes in the MPI fields and MPS for different global warming levels based on 150-year continuous scenario projections (HighResMIP) and large ensemble climate projections (d4PDF/d2PDF). Focusing on the Western North Pacific Ocean (WNP), we analyzed future changes in the MPI and found that it reached a maximum in the latitudinal range of 30–40°N in September. We also analyzed future changes in the MPS in major bays of East Asia and along the Pacific coast of Japan. Future changes in the MPS were projected, and it was confirmed that changes in the MPS are larger in bays where large storm surge events have occurred in the past

Impact Assessment of Storm Surge and Climate Change-Enhanced Sea Level Rise on Atoll Nations: A Case Study of the Tarawa Atoll, Kiribati

The Pacific region consists of numerous Small Island Developing States (SIDS), one of the most vulnerable to flooding caused by compound effects of sea level rise (SLR) and storms. Nevertheless, individual studies regarding the impact assessment for SIDS, such as the low-lying Kiribati, remain scarce. This study assessed the impact of climate change-induced storm surge and SLR compounding effects on Tarawa, the most populous atoll of Kiribati, the largest coral atoll nation. It projected the impact using a combined dynamic surge and SLR model based on the IPCC AR5 RCP scenarios and 1/100 and 1/50 years return period storm events. This approach allows estimating the inundation scope and the consecutive exposed population by the end of the 21st century. The results of this study show that the pace of SLR is pivotal for Tarawa, as the sea level rise alone can claim more than 50% of the territory and pose a threat to over 60% of the population under the most intense greenhouse gas emissions scenario. Furthermore, most coasts on the lagoon side are particularly vulnerable. In contrast, the contribution of extreme events is generally minimal due to low wind speeds and the absence of tropical cyclones (TC). Despite this, it is clear the compound effects are critical and may inescapably bring drastic changes to the atoll nations by the end of this century. The impact assessment in this study draws attention to the social impact of climate change on SIDS, most notably atoll islands, and evaluates their adaptation potential

SimplyRetrieve: A Private and Lightweight Retrieval-Centric Generative AI Tool

Large Language Model (LLM) based Generative AI systems have seen significant progress in recent years. Integrating a knowledge retrieval architecture allows for seamless integration of private data into publicly available Generative AI systems using pre-trained LLM without requiring additional model fine-tuning. Moreover, Retrieval-Centric Generation (RCG) approach, a promising future research direction that explicitly separates roles of LLMs and retrievers in context interpretation and knowledge memorization, potentially leads to more efficient implementation. SimplyRetrieve is an open-source tool with the goal of providing a localized, lightweight, and user-friendly interface to these sophisticated advancements to the machine learning community. SimplyRetrieve features a GUI and API based RCG platform, assisted by a Private Knowledge Base Constructor and a Retrieval Tuning Module. By leveraging these capabilities, users can explore the potential of RCG for improving generative AI performance while maintaining privacy standards. The tool is available at https://github.com/RCGAI/SimplyRetrieve with an MIT license.Comment: 12 pages, 6 figure

Multi-scale Simulation of Subsequent Tsunami Waves in Japan Excited by Air Pressure Waves Due to the 2022 Tonga Volcanic Eruption

The 2022 Hunga Tonga-Hunga Ha’apai eruption generated tsunamis that propagated across the Pacific Ocean. Along the coast of Japan, nearshore amplification led to amplitudes of nearly 1 m at some locations, with varying peak tsunami occurrence times. The leading tsunami wave can generally be reproduced by Lamb waves, which are a type of air-pressure wave generated by an eruption. However, subsequent tsunamis that occurred several hours after the leading wave tended to be larger for unknown reasons. This study performs multi-scale numerical simulations to investigate subsequent tsunami waves in the vicinity of Japan induced by air pressure waves caused by the eruption. The atmospheric pressure field was created using a dispersion relation of atmospheric gravity wave and tuned by physical parameters based on observational records. The tsunami simulations used the adaptive mesh refinement method, incorporating detailed bathymetry and topography to solve the tsunami at various spatial scales. The simulations effectively reproduced the tsunami waveforms observed at numerous coastal locations, and results indicate that the factors contributing to the maximum tsunami amplitude differ by region. In particular, bay resonance plays a major role in determining the maximum amplitude at many sites along the east coast of Japan. However, large tsunami amplification at some west coast locations was not replicated, probably because it was caused by amplification during oceanic wave propagation rather than meteorological factors. These findings enhance our understanding of meteotsunami complexity and help distinguish tsunami amplification factors

Potential of extravasated platelet aggregation as a surrogate marker for overall survival in patients with advanced gastric cancer treated with preoperative docetaxel, cisplatin and S-1: a retrospective observational study

Background: The theory of extravasated platelet aggregation in cancer lesions was recently introduced. We investigated the association of platelet aggregation in gastric cancer stroma with clinicopathological features, chemotherapeutic response, pathological response, and survival. Methods: The study comprised 78 patients with advanced gastric cancer who had undergone gastrectomy with or without combination of docetaxel, cisplatin and S-1 (DCS) as preoperative chemotherapy between 2005 and 2014. The patients were divided into two groups: patients who had received preoperative DCS therapy forming the p-DCS group and patients who had not received preoperative DCS therapy forming the control group. The 39 patients in the control group had received gastrectomy and postoperative chemotherapy of S-1 alone. Platelet aggregation in biopsy specimens before preoperative DCS therapy in the p-DCS group and at the time of diagnosis in the control group were evaluated using CD42b immunohistochemical staining. Results: Twenty-four patients in the p-DCS group and 19 in the control group were found to have platelet aggregation in their cancer stroma. Patients with histologically confirmed platelet aggregation had significantly higher rates of chemoresistance (58.3%) than those without platelet aggregation (20.0%) (P = 0.019). According to multivariate analysis, CD42b expression (odds ratio: 5.102, 95% confidence interval: 1.039-25.00, P = 0.045) was correlated with chemoresistance. CD42b expression and histological non-responder status were both significantly correlated with poor overall survival (OS) (P = 0.012, P = 0.016); however, RECIST was not correlated with OS. In the control group, CD42b expression was also significantly correlated with poor overall survival (OS) (P = 0.033). In the p-DCS group, according to multivariate analysis, male sex (hazard ratio: 0.281, 95% confidence interval: 0.093-0.846, P = 0.024) was correlated with good prognosis and CD42b expression (hazard ratio: 4.406, 95% confidence interval: 1.325-14.65, P = 0.016) with poor prognosis. Conclusions: This study suggests that platelets in gastric cancer stroma may create a favorable microenvironment for chemoresistance. CD42b immunohistochemical staining of biopsy specimens is a promising candidate for being a prognostic marker in patients with gastric cancer. © 2017 The Author(s)

Predictive factors for postoperative tachyarrhythmia after thoracoscopic esophagectomy and the usefulness of landiolol hydrochloride for its treatment

Background: Tachyarrhythmia after esophagectomy is a severe complication that should not be underestimated because of its negative impact. The aims of this study were to clarify the cause and impact of postoperative tachyarrhythmia after thoracoscopic esophagectomy. Additionally, we analyzed the usefulness of landiolol administration for postoperative tachyarrhythmia. Methods: We evaluated the predictive factors for tachyarrhythmia onset after surgery and its clinical impact in 127 patients who underwent thoracoscopic esophagectomy with extended lymphadenectomy. Moreover, we analyzed the efficacy of landiolol for postoperative tachyarrhythmia. Results: Tachyarrhythmia developed in 38 of the 127 patients. Multivariate analysis showed that advanced age, heart disease, and hyperlipidemia were associated with postoperative tachyarrhythmia. Hyponatremia, hypoalbuminemia, and leukocytosis on postoperative day 3 were significantly associated with tachyarrhythmia onset. The incidence of all complications and respiratory complications, including pneumonia, was significantly higher in patients with than in those without tachyarrhythmia. The mortality rate in the tachyarrhythmia group tended to be higher than that in the nontachyarrhythmia group. Landiolol as a treatment for tachyarrhythmia immediately decreased heart rate and safely reduced subsequent respiratory complications. Conclusion: In elderly patients with cardiac disease or hyperlipidemia, surgeons should be alert for the occurrence of tachyarrhythmia after esophagectomy. Postoperative tachyarrhythmia is a marker of morbidities with particular emphasis on respiratory complications. However, it can be adequately managed by landiolol, resulting in fewer respiratory complications. Landiolol might be a safe and convenient agent for managing postoperative tachyarrhythmia after thoracoscopic esophagectomy, resulting in lower mortality and morbidity rates. © 2013 The Japan Esophageal Society and Springer