Predicting the population viability of an endangered amphibian under environmental and demographic uncertainty

Population viability analyses (PVAs) represent a key component of many recovery plans for threatened and endangered species. Demography links the processes that affect individuals to population-level patterns, and hence projections constructed from demographic data are the most common tools for PVAs. We constructed a size-structured integral projection model (IPM) for the United States federally endangered Reticulated Flatwoods Salamander, Ambystoma bishopi, to evaluate demographic influences on population growth and predict the efficacy of future management actions. Flatwoods salamanders breed in ephemeral wetlands in the Southeastern United States. The ephemeral nature of breeding sites can result in complete recruitment failure in drought years when wetlands fail to fill, or dry before metamorphosis occurs. As a result, this species exhibits marked temporal variability in vital rates that must be accounted for in projection models. We constructed a stochastic IPM using 13 years of mark-recapture data (2010–2023) from two breeding wetlands. Variable survival rates exhibited by flatwoods salamanders, coupled with a high probability of recruitment failure, result in a low predicted probability of population persistence. Sensitivity analyses revealed age at maturity and the frequency of recruitment exerted the greatest influence on population growth, and thus managers should prioritize conservation efforts that target these demographic processes. Additional management should consider strategies to dampen temporal variability in larval survival, something that could be achieved through emergency salvage operations, captive rearing efforts, and manipulation of wetland hydroperiods

A Simple Standard for Sharing Ontological Mappings (SSSOM)

Despite progress in the development of standards for describing and exchanging scientific information, the lack of easy-to-use standards for mapping between different representations of the same or similar objects in different databases poses a major impediment to data integration and interoperability. Mappings often lack the metadata needed to be correctly interpreted and applied. For example, are two terms equivalent or merely related? Are they narrow or broad matches? Or are they associated in some other way? Such relationships between the mapped terms are often not documented, which leads to incorrect assumptions and makes them hard to use in scenarios that require a high degree of precision (such as diagnostics or risk prediction). Furthermore, the lack of descriptions of how mappings were done makes it hard to combine and reconcile mappings, particularly curated and automated ones. We have developed the Simple Standard for Sharing Ontological Mappings (SSSOM) which addresses these problems by: (i) Introducing a machine-readable and extensible vocabulary to describe metadata that makes imprecision, inaccuracy and incompleteness in mappings explicit. (ii) Defining an easy-to-use simple table-based format that can be integrated into existing data science pipelines without the need to parse or query ontologies, and that integrates seamlessly with Linked Data principles. (iii) Implementing open and community-driven collaborative workflows that are designed to evolve the standard continuously to address changing requirements and mapping practices. (iv) Providing reference tools and software libraries for working with the standard. In this paper, we present the SSSOM standard, describe several use cases in detail and survey some of the existing work on standardizing the exchange of mappings, with the goal of making mappings Findable, Accessible, Interoperable and Reusable (FAIR). The SSSOM specification can be found at http://w3id.org/sssom/spec

STCF Conceptual Design Report: Volume 1 -- Physics & Detector

International audienceThe Super $\tau$-Charm facility (STCF) is an electron-positron collider proposed by the Chinese particle physics community. It is designed to operate in a center-of-mass energy range from 2 to 7 GeV with a peak luminosity of $0.5\times 10^{35}{\rm cm}^{-2}{\rm s}^{-1}$ or higher. The STCF will produce a data sample about a factor of 100 larger than that by the present $\tau$-Charm factory -- the BEPCII, providing a unique platform for exploring the asymmetry of matter-antimatter (charge-parity violation), in-depth studies of the internal structure of hadrons and the nature of non-perturbative strong interactions, as well as searching for exotic hadrons and physics beyond the Standard Model. The STCF project in China is under development with an extensive R&D program. This document presents the physics opportunities at the STCF, describes conceptual designs of the STCF detector system, and discusses future plans for detector R&D and physics case studies

STCF Conceptual Design Report: Volume 1 -- Physics & Detector

International audienceThe Super $\tau$-Charm facility (STCF) is an electron-positron collider proposed by the Chinese particle physics community. It is designed to operate in a center-of-mass energy range from 2 to 7 GeV with a peak luminosity of $0.5\times 10^{35}{\rm cm}^{-2}{\rm s}^{-1}$ or higher. The STCF will produce a data sample about a factor of 100 larger than that by the present $\tau$-Charm factory -- the BEPCII, providing a unique platform for exploring the asymmetry of matter-antimatter (charge-parity violation), in-depth studies of the internal structure of hadrons and the nature of non-perturbative strong interactions, as well as searching for exotic hadrons and physics beyond the Standard Model. The STCF project in China is under development with an extensive R&D program. This document presents the physics opportunities at the STCF, describes conceptual designs of the STCF detector system, and discusses future plans for detector R&D and physics case studies