Population abundance in arctic grayling using genetics and close‐kin mark‐recapture

Prystupa, Samuel; McCracken, Gregory R.; Perry, Robert; Ruzzante, Daniel E.

doi:10.1002/ece3.7378

Cited by 18 publications

(23 citation statements)

References 37 publications

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“…The third is the case involves the development of integrated models that combine several data sources into a single analysis (Maunder & Punt, 2013). An example of this direction is to provide additional information about migration to ongoing CKMR projects for stock assessment in fisheries (e.g., Bravington, Grewe, & Davies, 2016; Conn et al, 2020; Hillary et al, 2018; Prystupa et al, 2021; Trenkel et al, 2022), which would utilize kinship pairs for simultaneous estimation of population parameters. If the population structure is defined hypothetically, the data accumulated in such projects could be readily connected to our theory via likelihood methods.…”

Section: Discussionmentioning

confidence: 99%

“…When PO pairs found in offspring samples and parent samples from population 2 in the second year are available, the standard parental number estimator can be obtained (Bravington, Skaug, & Anderson, 2016) as follows: where is the observed number of PO pairs found in the offspring samples of size n O,2 and parent samples of size n P,2 . This term “+1” reduces bias, especially when is small (e.g., Prystupa, McCracken, Perry, & Ruzzante, 2021), where a similar derivation of this bias correction is provided in the literature Akita (2020a). By replacing N 2 by in Eqs.…”

Section: Theorymentioning

confidence: 95%

“…where H PO,2 is the observed number of PO pairs found in the offspring samples of size n O,2 and parent samples of size n P,2 . This term "+1" reduces bias, especially when H PO,2 is small (e.g., Prystupa, McCracken, Perry, & Ruzzante, 2021), where a similar derivation of this bias correction is provided in the literature Akita (2020a). By replacing N 2 by N 2 in Eqs.…”

Section: Estimation Of Parent Number By Po Pairs In a Populationmentioning

confidence: 99%

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Estimating contemporary migration numbers of adults based on kinship relationships in iteroparous species

Akita

2022

Preprint

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In this paper, we describe the development of estimators for the contemporary migration number and rate of adults between two populations in iteroparous species. The proposed estimators are based on known half-sibling (HS) and/or parent--offspring (PO) relationships observed between the populations across breeding seasons. The rationale is that the HS and PO pairs exhibit information about the occurrence frequency of parental movements during the breeding interval. The proposed method allows for variance in the average number of offspring per parent both within and between populations. In addition, coupled with the PO pairs found within the population, the estimators can be obtained from only genetic data. Generally, a sample size representing the square root of the population size is required to obtain meaningful information regarding migration. We describe a detailed evaluation of the performance of the estimators by running an individual-based model, and the results provide guidance regarding sample sizes to ensure the required accuracy and precision. Furthermore, given that there are few effective methods to estimate adult movement (especially when populations cannot be genetically distinct), we discuss the usefulness of this proposed kinship assignment method in terms of conservation biology and wildlife management.

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Section: Discussionmentioning

confidence: 99%

Section: Theorymentioning

confidence: 95%

Section: Estimation Of Parent Number By Po Pairs In a Populationmentioning

confidence: 99%

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Estimating contemporary migration numbers of adults based on kinship relationships in iteroparous species

Akita

2022

Preprint

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“…We fit this model in a frequentist framework using the lme4 R package (Bates et al, 2015). To estimate the Trout Creek spawning adult population size, we used the close‐kin mark–recapture approach presented in Prystupa et al (2021).…”

Section: Methodsmentioning

confidence: 99%

Hybridization decreases native cutthroat trout reproductive fitness

et al. 2022

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Examining natural selection in wild populations is challenging, but crucial to understanding many ecological and evolutionary processes. Additionally, in hybridizing populations, natural selection may be an important determinant of the eventual outcome of hybridization. We characterized several components of relative fitness in hybridizing populations of Yellowstone cutthroat trout and rainbow trout in an effort to better understand the prolonged persistence of both parental species despite predictions of extirpation. Thousands of genomic loci enabled precise quantification of hybrid status in adult and subsequent juvenile generations; a subset of those data also identified parent–offspring relationships. We used linear models and simulations to assess the effects of ancestry on reproductive output and mate choice decisions. We found a relatively low number of late‐stage (F3+) hybrids and an excess of F2 juveniles relative to the adult generation in one location, which suggests the presence of hybrid breakdown decreasing the fitness of F2+ hybrids later in life. Assessments of reproductive output showed that Yellowstone cutthroat trout are more likely to successfully reproduce and produce slightly more offspring than their rainbow trout and hybrid counterparts. Mate choice appeared to be largely random, though we did find statistical support for slight female preference for males of similar ancestry. Together, these results show that native Yellowstone cutthroat trout are able to outperform rainbow trout in terms of reproduction and suggest that management action to exclude rainbow trout from spawning locations may bolster the now‐rare Yellowstone cutthroat trout.

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“…Here, the “+1” term reduces bias, especially when

{\overset{true˜}{H}}_{PO, 2}

is small (e.g. Prystupa et al, 2021), where a similar derivation of this bias correction is provided in the literature Akita, 2020a. By replacing

N_{2}

with

\overset{N_{2}}{true}

in Equations 13 and 14, we obtain the following estimators:

\overset{M_{4}}{true} goodbreak= \frac{n_{normalO, 2} n_{normalP, 2} N_{1} ()(, {\overset{true˜}{H}}_{HS, bet} goodbreak+ {\overset{true˜}{H}}_{PO, bet})}{n_{normalO, 1} ()(, 2 n_{normalO, 2} goodbreak+ n_{normalP, 2}) ()(, {\overset{true˜}{H}}_{PO, 2} goodbreak+ 1)},

and

\overset{m_{4}}{true} goodbreak= \frac{n_{normalO, 2} n_{normalP, 2} ()(, {\overset{true˜}{H}}_{HS, bet} goodbreak+ {\overset{true˜}{H}}_{PO, bet})}{n_{normalO, 1} ()(, 2 n_{normalO, 2} goodbreak+ n_{normalP, 2}) ()(, {\overset{true˜}{H}}_{PO, 2} goodbreak+ 1)} .

The estimator of migration number (Equation 16) requires the (unknown) parent number in population 1 (

N_{1}

); however, the estimator of migration rate (Equation 17) can be obtained using only the observed n...…”

Section: Theorymentioning

confidence: 99%

Estimating contemporary migration numbers of adults based on kinship relationships in iteroparous species

Akita

2022

Molecular Ecology Resources

View full text Add to dashboard Cite

This paper describes the development of estimators for the contemporary migration number and rate of adults between two populations in iteroparous species. The proposed estimators are based on known half‐sibling (HS) and/or parent–offspring (PO) relationships observed between populations across breeding seasons. The rationale is that HS and PO pairs exhibit information about the occurrence frequency of parental movements during the breeding interval. The proposed method allows for variance in the average number of offspring per parent within and between populations. In addition, coupled with the PO pairs found within the population, the estimators can be obtained using only genetic data. Generally, a sample size representing the square root of the population size is required to obtain meaningful migration information. We describe a detailed evaluation of the performance of the proposed estimators by running an individual‐based model, and the results provide guidance regarding sample sizes to ensure the required accuracy and precision. In addition, given that there are few effective methods to estimate adult movement (especially when populations cannot be genetically distinct), we discuss the usefulness of the proposed kinship assignment method in terms of conservation biology and wildlife management.

show abstract

Population abundance in arctic grayling using genetics and close‐kin mark‐recapture

Cited by 18 publications

References 37 publications

Estimating contemporary migration numbers of adults based on kinship relationships in iteroparous species

Estimating contemporary migration numbers of adults based on kinship relationships in iteroparous species

Hybridization decreases native cutthroat trout reproductive fitness

Estimating contemporary migration numbers of adults based on kinship relationships in iteroparous species

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