ORCID Profile
0000-0001-8897-2928
Current Organisations
Kitasato University
,
University of Natural Resources and Life Sciences
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Publisher: Elsevier BV
Date: 06-2000
Abstract: Trophoblast invasion is a critical process in development of most mammals that shares similarities with the invasive behavior of tumor cells. In the present investigation, a cDNA subtraction library was constructed between invasive trophoblast at day 8 of murine development and mature noninvasive placenta at day 18 of gestation. One of the differentially expressed clones, Epcs26, was mapped to the X chromosome and revealed no homology to any known gene. It was predominantly expressed in parietal endoderm, undifferentiated cells of the ectoplacental cone, and a few trophoblast giant cells. Another gene, designated Epcs50, was mapped to chromosome 19. It exhibited homologies to the mouse Mps1 gene and, like Mps1, may have a distant relationship to the lytic protein perforin. High expression was detected in parietal endoderm cells and in a subset of secondary trophoblast giant cells. Two sequences, Epcs24 and Epcs68, exhibited an extensive open reading frame that shared the common features of the cysteine proteinase cathepsin L. Expression was confined to an undefined subpopulation of trophoblast giant cells. Both genes were mapped to chromosome 13 in close proximity to cathepsins L and J. The known functions of MPS1 and cathepsin L proteins indicate that the related proteins EPCS50, EPCS24, and EPCS68 participate in conferring invasive properties to the mouse trophoblast.
Publisher: The Royal Society
Date: 04-2015
DOI: 10.1098/RSOS.140219
Abstract: Quantifying bio ersity aspects such as species presence/ absence, richness and abundance is an important challenge to answer scientific and resource management questions. In practice, bio ersity can only be assessed from biological material taken by surveys, a difficult task given limited time and resources. A type of random s ling, or often called sub-s ling, is a commonly used technique to reduce the amount of time and effort for investigating large quantities of biological s les. However, it is not immediately clear how (sub-)s ling affects the estimate of bio ersity aspects from a quantitative perspective. This paper specifies the effect of (sub-)s ling as attenuation of the species abundance distribution (SAD), and articulates how the s ling bias is induced to the SAD by random s ling. The framework presented also reveals some confusion in previous theoretical studies.
Publisher: Springer Science and Business Media LLC
Date: 16-03-2023
DOI: 10.1038/S41467-023-37127-2
Abstract: While human activities are known to elicit rapid turnover in species composition through time, the properties of the species that increase or decrease their spatial occupancy underlying this turnover are less clear. Here, we used an extensive dataset of 238 metacommunity time series of multiple taxa spread across the globe to evaluate whether species that are more widespread (large-ranged species) differed in how they changed their site occupancy over the 10–90 years the metacommunities were monitored relative to species that are more narrowly distributed (small-ranged species). We found that on average, large-ranged species tended to increase in occupancy through time, whereas small-ranged species tended to decrease. These relationships were stronger in marine than in terrestrial and freshwater realms. However, in terrestrial regions, the directional changes in occupancy were less extreme in protected areas. Our findings provide evidence for systematic decreases in occupancy of small-ranged species, and that habitat protection could mitigate these losses in the face of environmental change.
Publisher: Oxford University Press (OUP)
Date: 06-05-2005
DOI: 10.1093/BIOINFORMATICS/BTI478
Abstract: The Medaka Expression Pattern Database (MEPD) is a database for gene expression patterns determined by in situ hybridization in the small freshwater fish medaka (Oryzias latipes). Data have been collected from various research groups and MEPD is developing into a central expression pattern depository within the medaka community. Gene expression patterns are described by images and terms of a detailed medaka anatomy ontology of over 4000 terms, which we have developed for this purpose and submitted to Open Biological Ontologies. Sequences have been annotated via BLAST match results and using Gene Ontology terms. These new features will facilitate data analyses using bioinformatics approaches and allow cross-species comparisons of gene expression patterns. Presently, MEPD has 19,757 entries, for 1024 of them the expression pattern has been determined.
Publisher: Springer Science and Business Media LLC
Date: 11-2003
DOI: 10.1038/NRG1206
Publisher: Elsevier BV
Date: 2008
DOI: 10.1016/J.JBIOMECH.2007.10.007
Abstract: A stochastic model of swimming speed over the course of a male 200m freestyle swimming race is proposed. It builds on a dynamical model reflecting the trade-off between drag and propulsion in swimming. The parameters of the model are estimated from elapsed time data observed at several points along the pool. The model fits the data well and also provides a good description of the swimming strategies of each swimmer from phase to phase in the race. An in idual factor measuring how much faster or slower the in idual swims relative to the average swimming speed of the race is simultaneously estimated in the course of fitting the model. This factor is, as expected, closely related to the final outcome of the race.
Publisher: Wiley
Date: 15-03-2019
DOI: 10.1111/ELE.13242
Abstract: Scientists disagree about the nature of bio ersity change. While there is evidence for widespread declines from population surveys, assemblage surveys reveal a mix of declines and increases. These conflicting conclusions may be caused by the use of different metrics: assemblage metrics may average out drastic changes in in idual populations. Alternatively, differences may arise from data sources: populations monitored in idually, versus whole-assemblage monitoring. To test these hypotheses, we estimated population change metrics using assemblage data. For a set of 23 241 populations, 16 009 species, in 158 assemblages, we detected significantly accelerating extinction and colonisation rates, with both rates being approximately balanced. Most populations (85%) did not show significant trends in abundance, and those that did were balanced between winners (8%) and losers (7%). Thus, population metrics estimated with assemblage data are commensurate with assemblage metrics and reveal sustained and increasing species turnover.
Publisher: Wiley
Date: 23-11-2022
Abstract: Quantifying growth patterns and energy allocation strategies is essential to comprehend the biological characteristics of organisms and their interactions with broader biological communities in which they reside. Mathematical models, such as mono‐ and diphasic allometric energy‐based growth models, play a pivotal role in delineating such body growth patterns. However, modelling approaches often face some major challenges that stem from both model nonlinearity and data limitation in practice. The present study investigates the nature of the challenges and develops a flexible diphasic allometric growth model. The proposed modelling framework offers an effective parameter estimation approach directly built upon statistical smoothing techniques and numerical optimisation methods. The simulation study undertaken demonstrates that the proposed approach can provide accurate parameter estimates. The illustrative ex le analyses the in idual body and gonadic weight of subtropical cutlassfish Trichiurus japonicus from the cooler northern and warmer southern coasts of Taiwan. The results reveal the linear growth of fish in the south compared with those in the north, which distinctive growth pattern results from the lower dependency to body mass in the somatic and gonadic growth. The proposed unified modelling framework offers new advances in growth modelling to shed light upon the intraspecific life‐history strategies, quantifying growth patterns and energy allocation strategies.
Publisher: Springer Science and Business Media LLC
Date: 07-03-2014
Abstract: Milk yield and its composition vary according to in idual cows as well as to a variety of different environment conditions, such as temperature. Previous studies suggest that heat exerts considerable negative effects on milk production and its composition, especially during summer months. We investigate the production and fat composition of milk from in idual dairy cows and develop a modelling framework that investigates the effect of temperature by extending a traditional lactation curve model onto a more flexible statistical modelling framework, a generalised additive model (GAM). The GAM simultaneously copes with multiple different conditions (temperature, parity, days of lactation, etc.), and, importantly, their non-linear relationships. Our analysis of retrospective data suggests that in idual cows respond differently to heat cows producing relatively high quantities of milk tend to be particularly sensitive to heat. Our model also suggests that most dairy cows studied fall into three distinct cases that underpin the variation of the milk fat ratio by different mechanisms.
Publisher: American Association for the Advancement of Science (AAAS)
Date: 18-04-2014
Abstract: Although the rate of species extinction has increased markedly as a result of human activity across the biosphere, conservation has focused on endangered species rather than on shifts in assemblages. Dornelas et al. (p. 296 see the Perspective by Pandolfi and Lovelock ), using an extensive set of bio ersity time series of species occurrences in both marine and terrestrial habitats from the past 150 years, find species turnover above expected but do not find evidence of systematic bio ersity loss. This result could be caused by homogenization of species assemblages by invasive species, shifting distributions induced by climate change, and asynchronous change across the planet. All of which indicates that it is time to review conservation priorities.
Publisher: Wiley
Date: 03-11-2021
DOI: 10.1111/GCB.15947
Abstract: The species composition of plant and animal assemblages across the globe has changed substantially over the past century. How do the dynamics of in idual species cause this change? We classified species into seven unique categories of temporal dynamics based on the ordered sequence of presences and absences that each species contributes to an assemblage time series. We applied this framework to 14,434 species trajectories comprising 280 assemblages of temperate marine fishes surveyed annually for 20 or more years. Although 90% of the assemblages erged in species composition from the baseline year, this compositional change was largely driven by only 8% of the species' trajectories. Quantifying the reorganization of assemblages based on species shared temporal dynamics should facilitate the task of monitoring and restoring bio ersity. We suggest ways in which our framework could provide informative measures of compositional change, as well as leverage future research on pattern and process in ecological systems.
Publisher: Oxford University Press (OUP)
Date: 02-03-2012
DOI: 10.1111/J.1467-9876.2011.01030.X
Abstract: In ecology, a common form of statistical analysis relates a biological variable to variables that delineate the physical environment, typically by fitting a regression model or one of its extensions. Unfortunately, the biological data and the physical data are frequently obtained from separate sources of data. In such cases there is no guarantee that the biological and physical data are co-located and the regression model cannot be used. A common and pragmatic solution is to predict the physical variables at the locations of the biological variables and then to use the predictions as if they were observations. We show that this procedure can cause potentially misleading inferences and we use generalized linear models as an ex le. We propose a Berkson error model which overcomes the limitations. The differences between using predicted covariates and the Berkson error model are illustrated by using data from the marine environment, and a simulation study based on these data.
Publisher: Wiley
Date: 09-01-2017
DOI: 10.1002/ECY.1660
Abstract: We present new data and analyses revealing fundamental flaws in a critique of two recent meta-analyses of local-scale temporal bio ersity change. First, the conclusion that short-term time series lead to biased estimates of long-term change was based on two errors in the simulations used to support it. Second, the conclusion of negative relationships between temporal bio ersity change and study duration was entirely dependent on unrealistic model assumptions, the use of a subset of data, and inclusion of one outlier data point in one study. Third, the finding of a decline in local bio ersity, after eliminating post-disturbance studies, is not robust to alternative analyses on the original data set, and is absent in a larger, updated data set. Finally, the undebatable point, noted in both original papers, that studies in the ecological literature are geographically biased, was used to cast doubt on the conclusion that, outside of areas converted to croplands or asphalt, the distribution of bio ersity trends is centered approximately on zero. Future studies may modify conclusions, but at present, alternative conclusions based on the geographic-bias argument rely on speculation. In sum, the critique raises points of uncertainty typical of all ecological studies, but does not provide an evidence-based alternative interpretation.
Publisher: Springer Science and Business Media LLC
Date: 04-2004
DOI: 10.1038/NATURE02426
Publisher: Springer Science and Business Media LLC
Date: 12-1994
DOI: 10.1007/BF00292022
Abstract: Expansion microscopy (ExM) has been successfully used to improve the spatial resolution when imaging tissues by optical microscopy. In ExM, proteins of a fixed s le are crosslinked to a swellable acrylamide gel, which expands when incubated in water. Therefore, ExM allows enlarged subcellular structures to be resolved that would otherwise be hidden to standard confocal microscopy. Herein, we aim to validate ExM for the study of peroxisomes, mitochondria, nuclei and the plasma membrane. Upon comparison of the expansion factors of these cellular compartments in HEK293 cells within the same gel, we found significant differences, of a factor of above 2, in expansion factors. For peroxisomes, the expansion factor differed even between peroxisomal membrane and matrix marker this underlines the need for a thorough validation of expansion factors of this powerful technique. We further give an overview of possible quantification methods for the determination of expansion factors of intracellular organelles, and we highlight some potentials and challenges.
Publisher: Wiley
Date: 29-09-2022
DOI: 10.1002/ECY.3820
Abstract: Bio ersity metrics often integrate data on the presence and abundance of multiple species. Yet our understanding of covariation between changes to the numbers of in iduals, the evenness of species relative abundances, and the total number of species remains limited. Using in idual‐based rarefaction curves, we show how expected positive relationships among changes in abundance, evenness and richness arise, and how they can break down. We then examined interdependencies between changes in abundance, evenness and richness in more than 1100 assemblages s led either through time or across space. As predicted, richness changes were greatest when abundance and evenness changed in the same direction, and countervailing changes in abundance and evenness acted to constrain the magnitude of changes in species richness. Site‐to‐site differences in abundance, evenness, and richness were often decoupled, and pairwise relationships between these components across assemblages were weak. In contrast, changes in species richness and relative abundance were strongly correlated for assemblages varying through time. Temporal changes in local bio ersity showed greater inertia and stronger relationships between the component changes when compared to site‐to‐site variation. Overall, local variation in assemblage ersity was rarely due to repeated passive s les from an approximately static species abundance distribution. Instead, changing species relative abundances often dominated local variation in ersity. Moreover, how changing relative abundances combined with changes to total abundance frequently determined the magnitude of richness changes. Embracing the interdependencies between changing abundance, evenness and richness can provide new information to better understand bio ersity change in the Anthropocene.
Publisher: Springer Science and Business Media LLC
Date: 26-08-2008
Publisher: Springer Science and Business Media LLC
Date: 27-06-2018
Publisher: American Association for the Advancement of Science (AAAS)
Date: 07-07-2017
Abstract: Temporal fluctuations in species richness are frequently regulated, exhibiting a tendency to return toward a central level.
Publisher: Springer Science and Business Media LLC
Date: 2007
Publisher: The Royal Society
Date: 24-05-2023
Abstract: Benevolent social behaviours, such as parental care, are thought to enable mildly deleterious mutations to persist. We tested this prediction experimentally using the burying beetle Nicrophorus vespilloides , an insect with biparental care. For 20 generations, we allowed replicate experimental burying beetle populations to evolve either with post-hatching care (‘Full Care’ populations) or without it (‘No Care’ populations). We then established new lineages, seeded from these experimental populations, which we inbred to assess their mutation load. Outbred lineages served as controls. We also tested whether the deleterious effects of a greater mutation load could be concealed by parental care by allowing half the lineages to receive post-hatching care, while half did not. We found that inbred lineages from the Full Care populations went extinct more quickly than inbred lineages from the No Care populations—but only when offspring received no post-hatching care. We infer that Full Care lineages carried a greater mutation load, but that the associated deleterious effects on fitness could be overcome if larvae received parental care. We suggest that the increased mutation load caused by parental care increases a population's dependence upon care. This could explain why care is seldom lost once it has evolved.
Publisher: Public Library of Science (PLoS)
Date: 30-04-2015
Publisher: Springer Science and Business Media LLC
Date: 02-09-2020
DOI: 10.1186/S12942-020-00228-Y
Abstract: Detecting the geographical tendency for the presence of a disease or incident is, particularly at an early stage, a key challenge for preventing severe consequences. Given recent rapid advancements in information technologies, it is required a comprehensive framework that enables simultaneous detection of multiple spatial clusters, whether disease cases are randomly scattered or clustered around specific epicenters on a larger scale. We develop a new methodology that detects multiple spatial disease clusters and evaluates its performance compared to existing other methods. A novel framework for spatial multiple-cluster detection is developed. The framework directly stands on the integrated bases of scan statistics and generalized linear models, adopting a new information criterion that selects the appropriate number of disease clusters. We evaluated the proposed approach using a real dataset, the hospital admission for chronic obstructive pulmonary disease (COPD) in England, and simulated data, whether the approach tends to select the correct number of clusters. A case study and simulation studies conducted both confirmed that the proposed method performed better compared to conventional cluster detection procedures, in terms of higher sensitivity. We proposed a new statistical framework that simultaneously detects and evaluates multiple disease clusters in a large study space, with high detection power compared to conventional approaches.
Publisher: Elsevier BV
Date: 11-2015
DOI: 10.1016/J.RESUSCITATION.2015.08.003
Abstract: Over 100,000 patients are diagnosed every year as out-of-hospital cardiac arrest (OHCA) cases in Japan and their number has continued to rise for the last decade, presenting a challenge for preventive public health research as well as emergency medical care. The purpose of this study was to identify whether there are any temporal patterns in daily OHCA presentations in Japan. Records of OHCA patients (n=701,651) transported by ambulance over the course of six years (1st January 2005 to 10th March 2011) in Japan were obtained from the All-Japan Utstein registry data of cardiopulmonary arrest patients. Time periods within which the incidence of OHCA significantly increased were identified by a temporal cluster detection test using scan statistics. The risk ratios of OHCA for the detected periods were calculated and adjusted according to a Poisson regression model accounting for effects of other factors. The risk of OHCA significantly rises 1.3-1.6 times around New Year's Day in Japan. Our analysis revealed the increased daily incidence of OHCA around every New Year's Day in Japan.
Publisher: Cold Spring Harbor Laboratory
Date: 22-09-2023
Publisher: Springer Science and Business Media LLC
Date: 04-09-2013
Abstract: Some of the most marked temporal fluctuations in species abundances are linked to seasons. In theory, multispecies assemblages can persist if species use shared resources at different times, thereby minimizing interspecific competition. However, there is scant empirical evidence supporting these predictions and, to the best of our knowledge, seasonal variation has never been explored in the context of fluctuation-mediated coexistence. Using an exceptionally well-documented estuarine fish assemblage, s led monthly for over 30 years, we show that temporal shifts in species abundances underpin species coexistence. Species fall into distinct seasonal groups, within which spatial resource use is more heterogeneous than would be expected by chance at those times when competition for food is most intense. We also detect seasonal variation in the richness and evenness of the community, again linked to shifts in resource availability. These results reveal that spatiotemporal shifts in community composition minimize competitive interactions and help stabilize total abundance.
Publisher: Oxford University Press (OUP)
Date: 12-02-2014
DOI: 10.1111/BIJ.12217
Publisher: Springer Science and Business Media LLC
Date: 08-04-2016
Publisher: Springer Science and Business Media LLC
Date: 11-2004
DOI: 10.1038/NG1104-1133
Abstract: The goal of the Complex Trait Consortium is to promote the development of resources that can be used to understand, treat and ultimately prevent pervasive human diseases. Existing and proposed mouse resources that are optimized to study the actions of isolated genetic loci on a fixed background are less effective for studying intact polygenic networks and interactions among genes, environments, pathogens and other factors. The Collaborative Cross will provide a common reference panel specifically designed for the integrative analysis of complex systems and will change the way we approach human health and disease.
Publisher: Proceedings of the National Academy of Sciences
Date: 12-02-2018
Abstract: The Earth’s ecosystems are under unprecedented pressure, yet the nature of contemporary bio ersity change is not well understood. Growing evidence that community size is regulated highlights the need for improved understanding of community dynamics. As stability in community size could be underpinned by marked temporal turnover, a key question is the extent to which changes in both bio ersity dimensions (temporal α- and temporal β- ersity) covary within and among the assemblages that comprise natural communities. Here, we draw on a multiassemblage dataset (encompassing vertebrates, invertebrates, and unicellular plants) from a tropical freshwater ecosystem and employ a cyclic shift randomization to assess whether any directional change in temporal α- ersity and temporal β- ersity exceeds baseline levels. In the majority of cases, α- ersity remains stable over the 5-y time frame of our analysis, with little evidence for systematic change at the community level. In contrast, temporal β- ersity changes are more prevalent, and the two ersity dimensions are decoupled at both the within- and among-assemblage level. Consequently, a pressing research challenge is to establish how turnover supports regulation and when elevated temporal β- ersity jeopardizes community integrity.
Publisher: Public Library of Science (PLoS)
Date: 21-11-2018
Publisher: Wiley
Date: 12-11-2015
DOI: 10.1002/ECE3.1800
Publisher: Cold Spring Harbor Laboratory
Date: 05-05-2022
DOI: 10.1101/2022.05.05.490718
Abstract: Benevolent social behaviours, such as parental care, are thought to enable mildly deleterious mutations to persist. We tested this prediction experimentally using the burying beetle Nicrophorus vespilloides , an insect with biparental care. For 20 generations, we allowed replicate experimental burying beetle populations to evolve either with post-hatching care (‘Full Care’ populations) or without it (‘No Care’ populations). We then established new lineages, seeded from these experimental populations, which we inbred to assess their mutation load. Outbred lineages served as controls. We also tested whether the deleterious effects of a greater mutation load could be concealed by parental care by allowing half the lineages to receive post-hatching care, while half did not. We found that inbred lineages from the Full Care populations went extinct more quickly than inbred lineages from the No Care populations – but only when offspring received no post-hatching care. We infer that Full Care lineages carried a greater mutation load, but that the associated deleterious effects on fitness could be overcome if larvae received parental care. We suggest that the increased mutation load caused by parental care increases a population’s dependence upon care. This could explain why care is seldom lost once it has evolved.
Publisher: Elsevier BV
Date: 02-1999
Abstract: Comparative fluorescence in situ hybridization mapping using DNA libraries from flow-sorted mouse chromosomes and region-specific mouse BAC clones on rat chromosomes reveals chromosomal homologies between mouse (Mus musculus, MMU) and rat (Rattus norvegicus, RNO). Each of the MMU 2, 3, 4, 6, 7, 9, 12, 14, 15, 16, 18, 19, and X chromosomes paints only a single rat chromosome or chromosome segment and, thus, the chromosomes are largely conserved between the two species. In contrast, the painting probes for MMU chromosomes 1, 5, 8, 10, 11, 13, and 17 produce split hybridization signals in the rat, disclosing evolutionary chromosome rearrangements. Comparative mapping data delineate several large linkage groups on RNO 1, 2, 4, 7, and 14 that are conserved in human but erged in the mouse. On the other hand, there are linkage groups in the mouse, i.e., on MMU 1, 8, 10, and 11, that are disrupted in both rat and human. In addition, we have hybridized probes for Nap2, p57, Igf2, H19, and Sh3d2c from MMU 7 to RNO 1q and found the orientation of the imprinting gene cluster and Sh3d2c to be the same in mouse and rat. Hybridization of rat genomic DNA shows blocks of (rat-specific) repetitive sequences in the pericentromeric region of RNO chromosomes 3-5, 7-13, and 20 on the short arms of RNO chromosomes 3, 12, and 13 and on the entire Y chromosome.
Publisher: Wiley
Date: 22-08-2015
Location: United Kingdom of Great Britain and Northern Ireland
Location: United Kingdom of Great Britain and Northern Ireland
No related grants have been discovered for Heinz Himmelbauer.