cometadata/datacite-titles-descriptions-related-identifiers huggingface dataset:
DOI: 10.6084/m9.figshare.5896894.v1
title: Trap Rule from Spatially extended hybrid methods: a review

description: Many biological and physical systems exhibit behaviour at multiple spatial, temporal or population scales. Multiscale processes provide challenges when they are to be simulated using numerical techniques. While coarser methods such as partial differential equations are typically fast to simulate, they lack the individual-level detail that may be required in regions of low concentration or small spatial scale. However, to simulate at such an individual level throughout a domain and in regions where concentrations are high can be computationally expensive. Spatially coupled hybrid methods provide a bridge, allowing for multiple representations of the same species in one spatial domain by partitioning space into distinct modelling subdomains. Over the past 20 years, such hybrid methods have risen to prominence, leading to what is now a very active research area across multiple disciplines including chemistry, physics and mathematics. There are three main motivations for undertaking this review. Firstly, we have collated a large number of spatially extended hybrid methods and presented them in a single coherent document, while comparing and contrasting them, so that anyone with a need for a multiscale hybrid method will be able to find the most appropriate one for their need. Secondly, we have provided canonical examples with algorithms and accompanying code, serving to demonstrate how these types of methods work in practice. Finally, we have presented papers that employ these methods on real biological and physical problems, demonstrating their utility. We also consider some open research questions in the area of hybrid method development and the future directions for the field.
DOI: 10.6084/m9.figshare.5896906.v1
title: PLOT GCM from Spatially extended hybrid methods: a review

description: Many biological and physical systems exhibit behaviour at multiple spatial, temporal or population scales. Multiscale processes provide challenges when they are to be simulated using numerical techniques. While coarser methods such as partial differential equations are typically fast to simulate, they lack the individual-level detail that may be required in regions of low concentration or small spatial scale. However, to simulate at such an individual level throughout a domain and in regions where concentrations are high can be computationally expensive. Spatially coupled hybrid methods provide a bridge, allowing for multiple representations of the same species in one spatial domain by partitioning space into distinct modelling subdomains. Over the past 20 years, such hybrid methods have risen to prominence, leading to what is now a very active research area across multiple disciplines including chemistry, physics and mathematics. There are three main motivations for undertaking this review. Firstly, we have collated a large number of spatially extended hybrid methods and presented them in a single coherent document, while comparing and contrasting them, so that anyone with a need for a multiscale hybrid method will be able to find the most appropriate one for their need. Secondly, we have provided canonical examples with algorithms and accompanying code, serving to demonstrate how these types of methods work in practice. Finally, we have presented papers that employ these methods on real biological and physical problems, demonstrating their utility. We also consider some open research questions in the area of hybrid method development and the future directions for the field.
DOI: 10.6084/m9.figshare.5904853
title: Supplementary data - Offspring from Maternal modulation of paternal effects on offspring development.

description: The paternal transmission of environmentally induced phenotypes across generations has been reported to occur following a number of qualitatively different exposures and appear to be driven, at least in part, by epigenetic factors that are inherited via the sperm. However, previous studies of paternal germline transmission have not addressed the role of mothers in the propagation of paternal effects to offspring. We hypothesized that paternal exposure to nutritional restriction would impact male mate quality and subsequent maternal reproductive investment with consequences for the transmission of paternal germline effects. In the current report, using embryo transfer in mice, we demonstrate that sperm factors in adult food restricted males can influence growth rate, hypothalamic gene expression and behaviour in female offspring. However, under natural mating conditions females mated with food restricted males show increased pre- and postnatal care, and phenotypic outcomes observed during embryo transfer conditions are absent or reversed. We demonstrate that these compensatory changes in maternal investment are associated with a reduced mate preference for food restricted males and elevated gene expression within the maternal hypothalamus. Therefore, paternal experience can influence offspring development via germline inheritance, but mothers can serve as a modulating factor in determining the impact of paternal influences on offspring development.
DOI: 10.6084/m9.figshare.5904859
title: Supplementary data - Maternal from Maternal modulation of paternal effects on offspring development.

description: The paternal transmission of environmentally induced phenotypes across generations has been reported to occur following a number of qualitatively different exposures and appear to be driven, at least in part, by epigenetic factors that are inherited via the sperm. However, previous studies of paternal germline transmission have not addressed the role of mothers in the propagation of paternal effects to offspring. We hypothesized that paternal exposure to nutritional restriction would impact male mate quality and subsequent maternal reproductive investment with consequences for the transmission of paternal germline effects. In the current report, using embryo transfer in mice, we demonstrate that sperm factors in adult food restricted males can influence growth rate, hypothalamic gene expression and behaviour in female offspring. However, under natural mating conditions females mated with food restricted males show increased pre- and postnatal care, and phenotypic outcomes observed during embryo transfer conditions are absent or reversed. We demonstrate that these compensatory changes in maternal investment are associated with a reduced mate preference for food restricted males and elevated gene expression within the maternal hypothalamus. Therefore, paternal experience can influence offspring development via germline inheritance, but mothers can serve as a modulating factor in determining the impact of paternal influences on offspring development.
DOI: 10.6084/m9.figshare.5904853.v2
title: Supplementary data - Offspring from Maternal modulation of paternal effects on offspring development.

description: The paternal transmission of environmentally induced phenotypes across generations has been reported to occur following a number of qualitatively different exposures and appear to be driven, at least in part, by epigenetic factors that are inherited via the sperm. However, previous studies of paternal germline transmission have not addressed the role of mothers in the propagation of paternal effects to offspring. We hypothesized that paternal exposure to nutritional restriction would impact male mate quality and subsequent maternal reproductive investment with consequences for the transmission of paternal germline effects. In the current report, using embryo transfer in mice, we demonstrate that sperm factors in adult food restricted males can influence growth rate, hypothalamic gene expression and behaviour in female offspring. However, under natural mating conditions females mated with food restricted males show increased pre- and postnatal care, and phenotypic outcomes observed during embryo transfer conditions are absent or reversed. We demonstrate that these compensatory changes in maternal investment are associated with a reduced mate preference for food restricted males and elevated gene expression within the maternal hypothalamus. Therefore, paternal experience can influence offspring development via germline inheritance, but mothers can serve as a modulating factor in determining the impact of paternal influences on offspring development.
DOI: 10.6084/m9.figshare.5904859.v2
title: Supplementary data - Maternal from Maternal modulation of paternal effects on offspring development.

description: The paternal transmission of environmentally induced phenotypes across generations has been reported to occur following a number of qualitatively different exposures and appear to be driven, at least in part, by epigenetic factors that are inherited via the sperm. However, previous studies of paternal germline transmission have not addressed the role of mothers in the propagation of paternal effects to offspring. We hypothesized that paternal exposure to nutritional restriction would impact male mate quality and subsequent maternal reproductive investment with consequences for the transmission of paternal germline effects. In the current report, using embryo transfer in mice, we demonstrate that sperm factors in adult food restricted males can influence growth rate, hypothalamic gene expression and behaviour in female offspring. However, under natural mating conditions females mated with food restricted males show increased pre- and postnatal care, and phenotypic outcomes observed during embryo transfer conditions are absent or reversed. We demonstrate that these compensatory changes in maternal investment are associated with a reduced mate preference for food restricted males and elevated gene expression within the maternal hypothalamus. Therefore, paternal experience can influence offspring development via germline inheritance, but mothers can serve as a modulating factor in determining the impact of paternal influences on offspring development.
DOI: 10.6084/m9.figshare.5904853.v1
title: Supplementary data - Offspring from Maternal modulation of paternal effects on offspring development

description: The paternal transmission of environmentally induced phenotypes across generations has been reported to occur following a number of qualitatively different exposures and appear to be driven, at least in part, by epigenetic factors that are inherited <i>via</i> the sperm. However, previous studies of paternal germline transmission have not addressed the role of mothers in the propagation of paternal effects to offspring. We hypothesized that paternal exposure to nutritional restriction would impact male mate quality and subsequent maternal reproductive investment with consequences for the transmission of paternal germline effects. In the current report, using embryo transfer in mice, we demonstrate that sperm factors in adult food restricted males can influence growth rate, hypothalamic gene expression and behaviour in female offspring. However, under natural mating conditions females mated with food restricted males show increased pre- and postnatal care, and phenotypic outcomes observed during embryo transfer conditions are absent or reversed. We demonstrate that these compensatory changes in maternal investment are associated with a reduced mate preference for food restricted males and elevated gene expression within the maternal hypothalamus. Therefore, paternal experience can influence offspring development <i>via</i> germline inheritance, but mothers can serve as a modulating factor in determining the impact of paternal influences on offspring development.
DOI: 10.6084/m9.figshare.5904859.v1
title: Supplementary data - Maternal from Maternal modulation of paternal effects on offspring development

description: The paternal transmission of environmentally induced phenotypes across generations has been reported to occur following a number of qualitatively different exposures and appear to be driven, at least in part, by epigenetic factors that are inherited <i>via</i> the sperm. However, previous studies of paternal germline transmission have not addressed the role of mothers in the propagation of paternal effects to offspring. We hypothesized that paternal exposure to nutritional restriction would impact male mate quality and subsequent maternal reproductive investment with consequences for the transmission of paternal germline effects. In the current report, using embryo transfer in mice, we demonstrate that sperm factors in adult food restricted males can influence growth rate, hypothalamic gene expression and behaviour in female offspring. However, under natural mating conditions females mated with food restricted males show increased pre- and postnatal care, and phenotypic outcomes observed during embryo transfer conditions are absent or reversed. We demonstrate that these compensatory changes in maternal investment are associated with a reduced mate preference for food restricted males and elevated gene expression within the maternal hypothalamus. Therefore, paternal experience can influence offspring development <i>via</i> germline inheritance, but mothers can serve as a modulating factor in determining the impact of paternal influences on offspring development.
DOI: 10.6084/m9.figshare.5918803
title: Dataset S1 from Age-based soldier polyethism: old termite soldiers take more risks than young soldiers.

description: Who should take on risky tasks in an age-heterogeneous society? Life-history theory predicts that, in social insects, riskier tasks should be undertaken by sterile individuals with a shorter life expectancy. The loss of individuals with shorter life expectancy is less costly for colony reproductive success than the loss of individuals with longer life expectancy. Termite colonies have a sterile soldier caste, specialized defenders engaged in the most risky tasks. Here we show that termite soldiers exhibit age-dependent polyethism, as old soldiers are engaged in front-line defence more than young soldiers. Our nest defence experiment showed that old soldiers went to the front line and blocked the nest opening against approaching predatory ants more often than young soldiers. We also found that young soldiers were more biased toward choosing central nest defence as royal guards than old soldiers. These results demonstrate that termite soldiers have age-based task allocation, by which ageing predisposes soldiers to switch to more dangerous tasks. This age-dependent soldier task allocation increases the life expectancy of soldiers, allowing them to promote their lifetime contribution to colony reproductive success.
DOI: 10.6084/m9.figshare.5918803.v2
title: Dataset S1 from Age-based soldier polyethism: old termite soldiers take more risks than young soldiers.

description: Who should take on risky tasks in an age-heterogeneous society? Life-history theory predicts that, in social insects, riskier tasks should be undertaken by sterile individuals with a shorter life expectancy. The loss of individuals with shorter life expectancy is less costly for colony reproductive success than the loss of individuals with longer life expectancy. Termite colonies have a sterile soldier caste, specialized defenders engaged in the most risky tasks. Here we show that termite soldiers exhibit age-dependent polyethism, as old soldiers are engaged in front-line defence more than young soldiers. Our nest defence experiment showed that old soldiers went to the front line and blocked the nest opening against approaching predatory ants more often than young soldiers. We also found that young soldiers were more biased toward choosing central nest defence as royal guards than old soldiers. These results demonstrate that termite soldiers have age-based task allocation, by which ageing predisposes soldiers to switch to more dangerous tasks. This age-dependent soldier task allocation increases the life expectancy of soldiers, allowing them to promote their lifetime contribution to colony reproductive success.
DOI: 10.6084/m9.figshare.5918803.v1
title: Dataset S1 from Age-based soldier polyethism: old termite soldiers take more risks than young soldiers

description: Who should take on risky tasks in an age-heterogeneous society? Life-history theory predicts that, in social insects, riskier tasks should be undertaken by sterile individuals with a shorter life expectancy. The loss of individuals with shorter life expectancy is less costly for colony reproductive success than the loss of individuals with longer life expectancy. Termite colonies have a sterile soldier caste, specialized defenders engaged in the most risky tasks. Here we show that termite soldiers exhibit age-dependent polyethism, as old soldiers are engaged in front-line defence more than young soldiers. Our nest defence experiment showed that old soldiers went to the front line and blocked the nest opening against approaching predatory ants more often than young soldiers. We also found that young soldiers were more biased toward choosing central nest defence as royal guards than old soldiers. These results demonstrate that termite soldiers have age-based task allocation, by which ageing predisposes soldiers to switch to more dangerous tasks. This age-dependent soldier task allocation increases the life expectancy of soldiers, allowing them to promote their lifetime contribution to colony reproductive success.
DOI: 10.6084/m9.figshare.5918830
title: Tables S1-S6 from Comparative limb proportions reveal differential locomotor morphofunctions of alligatoroids and crocodyloids.

description: Specimens, locality information, and raw measurements of skull, limbs, and trunk, and additional results.
DOI: 10.6084/m9.figshare.5918860
title: Supplementary Information 2 from A longitudinal study of phenotypic changes in early domestication of house mice.

description: Raw data on the occurrence of white patches and spots of fur in all investigated house mouse specimens from the study population between 2010 and 2016. ID, signifies individual mice; Date, year-month-day of examination of the corresponding specimen; White, occurrence of white patches or spots of fur (0=wild type, no white fur present; 1=presence of white fur patches and/or spots).
DOI: 10.6084/m9.figshare.5918875
title: Supplementary Information 3 from A longitudinal study of phenotypic changes in early domestication of house mice.

description: Raw data on head length and associated variables in all investigated house mouse specimens (pups) from the study population between 2007 and 2016. PupID, signifies individual pups; Date, date at which the pups have been examined (year-month-day); Temp., temperature (°C) in the barn at the day of pup examination; ObsID, ID of the observer who has examined the pup; LitterID, ID of the litter, i.e., pups in same location and of same age; Age, age of the pup in days (day of birth is day 1); sex, M=male; F=female; Weight, weight of the pups in grams; Headlength, total length of the head (in mm) from the tip of the snout to the back of the skull.
DOI: 10.6084/m9.figshare.5918860.v2
title: Supplementary Information 2 from A longitudinal study of phenotypic changes in early domestication of house mice.

description: Raw data on the occurrence of white patches and spots of fur in all investigated house mouse specimens from the study population between 2010 and 2016. ID, signifies individual mice; Date, year-month-day of examination of the corresponding specimen; White, occurrence of white patches or spots of fur (0=wild type, no white fur present; 1=presence of white fur patches and/or spots).
DOI: 10.6084/m9.figshare.5918875.v2
title: Supplementary Information 3 from A longitudinal study of phenotypic changes in early domestication of house mice.

description: Raw data on head length and associated variables in all investigated house mouse specimens (pups) from the study population between 2007 and 2016. PupID, signifies individual pups; Date, date at which the pups have been examined (year-month-day); Temp., temperature (°C) in the barn at the day of pup examination; ObsID, ID of the observer who has examined the pup; LitterID, ID of the litter, i.e., pups in same location and of same age; Age, age of the pup in days (day of birth is day 1); sex, M=male; F=female; Weight, weight of the pups in grams; Headlength, total length of the head (in mm) from the tip of the snout to the back of the skull.
DOI: 10.6084/m9.figshare.5918860.v1
title: Supplementary Information 2 from A longitudinal study of phenotypic changes in early domestication of house mice

description: Raw data on the occurrence of white patches and spots of fur in all investigated house mouse specimens from the study population between 2010 and 2016. ID, signifies individual mice; Date, year-month-day of examination of the corresponding specimen; White, occurrence of white patches or spots of fur (0=wild type, no white fur present; 1=presence of white fur patches and/or spots).
DOI: 10.6084/m9.figshare.5918875.v1
title: Supplementary Information 3 from A longitudinal study of phenotypic changes in early domestication of house mice

description: Raw data on head length and associated variables in all investigated house mouse specimens (pups) from the study population between 2007 and 2016. PupID, signifies individual pups; Date, date at which the pups have been examined (year-month-day); Temp., temperature (°C) in the barn at the day of pup examination; ObsID, ID of the observer who has examined the pup; LitterID, ID of the litter, i.e., pups in same location and of same age; Age, age of the pup in days (day of birth is day 1); sex, M=male; F=female; Weight, weight of the pups in grams; Headlength, total length of the head (in mm) from the tip of the snout to the back of the skull.
DOI: 10.6084/m9.figshare.5918944
title: Description of data from Developmental plasticity of the stress response in female but not in male guppies.

description: Read me file containing the information about the data presented in the data set document.
DOI: 10.6084/m9.figshare.5918938
title: Dataset from Developmental plasticity of the stress response in female but not in male guppies.

description: Data of cortisol collection experiment on fish reared in a 2x2 design manipulating early life experience of predation and density.
DOI: 10.6084/m9.figshare.5918944.v2
title: Description of data from Developmental plasticity of the stress response in female but not in male guppies.

description: Read me file containing the information about the data presented in the data set document.
DOI: 10.6084/m9.figshare.5918938.v2
title: Dataset from Developmental plasticity of the stress response in female but not in male guppies.

description: Data of cortisol collection experiment on fish reared in a 2x2 design manipulating early life experience of predation and density.
DOI: 10.6084/m9.figshare.5918944.v1
title: Description of data from Developmental plasticity of the stress response in female but not in male guppies

description: Read me file containing the information about the data presented in the data set document.
DOI: 10.48370/pb/bohcvh
title: Pierwszy dataset z cyfrowym identyfikatorem DOI

description: Pierwszy testowy dataset z cyfrowym identyfikatorem DOI
DOI: 10.6084/m9.figshare.5918938.v1
title: Dataset from Developmental plasticity of the stress response in female but not in male guppies

description: Data of cortisol collection experiment on fish reared in a 2x2 design manipulating early life experience of predation and density.
DOI: 10.6084/m9.figshare.5925208
title: Supplementary Datafile2 from Trade-off between fertility and predation risk drives a geometric sequence in the pattern of group sizes in baboons.

description: Fertility data
DOI: 10.6084/m9.figshare.5925199
title: Supplementary Datafile1 from Trade-off between fertility and predation risk drives a geometric sequence in the pattern of group sizes in baboons.

description: Group size data
DOI: 10.6084/m9.figshare.5925208.v2
title: Supplementary Datafile2 from Trade-off between fertility and predation risk drives a geometric sequence in the pattern of group sizes in baboons.

description: Fertility data