Modeling Recruitment of Birth Cohorts to the Breeding Population:A Hidden Markov Model Approach

McCrea, Rachel and Worthington, Hannah and King, Ruth and Smout, Sophie and Pomeroy, Patrick (2021) Modeling Recruitment of Birth Cohorts to the Breeding Population:A Hidden Markov Model Approach. Frontiers in Ecology and Evolution, 9. ISSN 2296-701X

Abstract

Long-term capture-recapture studies provide an opportunity to investigate the population dynamics of long-lived species through individual maturation and adulthood and/or time. We consider capture-recapture data collected on cohorts of female gray seals (Halichoerus grypus) born during the 1990s and later observed breeding on the Isle of May, Firth of Forth, Scotland. Female gray seals can live for 30+ years but display individual variability in their maturation rates and so recruit into the breeding population across a range of ages. Understanding the partially hidden process by which individuals transition from immature to breeding members, and in particular the identification of any changes to this process through time, are important for understanding the factors affecting the population dynamics of this species. Age-structured capture-recapture models can explicitly relate recruitment, and other demographic parameters of interest, to the age of individuals and/or time. To account for the monitoring of the seals from several birth cohorts we consider an age-structured model that incorporates a specific cohort-structure. Within this model we focus on the estimation of the distribution of the age of recruitment to the breeding population at this colony. Understanding this recruitment process, and identifying any changes or trends in this process, will offer insight into individual year effects and give a more realistic recruitment profile for the current UK gray seal population model. The use of the hidden Markov model provides an intuitive framework following the evolution of the true underlying states of the individuals. The model breaks down the different processes of the system: recruitment into the breeding population; survival; and the associated observation process. This model specification results in an explicit and compact expression for the model with associated efficiency in model fitting. Further, this framework naturally leads to extensions to more complex models, for example the separation of first-time from return breeders, through relatively simple changes to the mathematical structure of the model.