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Comparative genomics of rainbow trout (Oncorhynchus mykiss): Is the genetic architecture of migratory behavior conserved among populations?

Rainbow trout (Oncorhynchus mykiss) are a partially migratory species wherein some individuals undergo long‐distance anadromous migrations, and others stay as residents in their native freshwater streams. The decision to migrate is known to be highly heritable, and yet, the underlying genes and alle...

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Autores principales: Clare, Catherine I., Nichols, Krista M., Thrower, Frank P., Berntson, Ewann A., Hale, Matthew C.
Formato: Online Artículo Texto
Lenguaje:English
Publicado: John Wiley and Sons Inc. 2023
Materias:
Acceso en línea:https://www.ncbi.nlm.nih.gov/pmc/articles/PMC10293719/
https://www.ncbi.nlm.nih.gov/pubmed/37384247
http://dx.doi.org/10.1002/ece3.10241
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author Clare, Catherine I.
Nichols, Krista M.
Thrower, Frank P.
Berntson, Ewann A.
Hale, Matthew C.
author_facet Clare, Catherine I.
Nichols, Krista M.
Thrower, Frank P.
Berntson, Ewann A.
Hale, Matthew C.
author_sort Clare, Catherine I.
collection PubMed
description Rainbow trout (Oncorhynchus mykiss) are a partially migratory species wherein some individuals undergo long‐distance anadromous migrations, and others stay as residents in their native freshwater streams. The decision to migrate is known to be highly heritable, and yet, the underlying genes and alleles associated with migration are not fully characterized. Here we used a pooled approach of whole‐genome sequence data from migratory and resident trout of two native populations—Sashin Creek, Alaska and Little Sheep Creek, Oregon—to obtain a genome‐wide perspective of the genetic architecture of resident and migratory life history. We calculated estimates of genetic differentiation, genetic diversity, and selection between the two phenotypes to locate regions of interest and then compared these associations between populations. We identified numerous genes and alleles associated with life history development in the Sashin Creek population with a notable area on chromosome 8 that may play a critical role in the development of the migratory phenotype. However, very few alleles appeared to be associated with life history development in the Little Sheep Creek system, suggesting population‐specific genetic effects are likely important in the development of anadromy. Our results indicate that a migratory life history is not controlled by a singular gene or region but supports the idea that there are many independent ways for a migratory phenotype to emerge in a population. Therefore, conserving and promoting genetic diversity in migratory individuals is paramount to conserving these populations. Ultimately, our data add to a growing body of literature that suggests that population‐specific genetic effects, likely mediated through environmental variation, contribute to life history development in rainbow trout.
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spelling pubmed-102937192023-06-28 Comparative genomics of rainbow trout (Oncorhynchus mykiss): Is the genetic architecture of migratory behavior conserved among populations? Clare, Catherine I. Nichols, Krista M. Thrower, Frank P. Berntson, Ewann A. Hale, Matthew C. Ecol Evol Research Articles Rainbow trout (Oncorhynchus mykiss) are a partially migratory species wherein some individuals undergo long‐distance anadromous migrations, and others stay as residents in their native freshwater streams. The decision to migrate is known to be highly heritable, and yet, the underlying genes and alleles associated with migration are not fully characterized. Here we used a pooled approach of whole‐genome sequence data from migratory and resident trout of two native populations—Sashin Creek, Alaska and Little Sheep Creek, Oregon—to obtain a genome‐wide perspective of the genetic architecture of resident and migratory life history. We calculated estimates of genetic differentiation, genetic diversity, and selection between the two phenotypes to locate regions of interest and then compared these associations between populations. We identified numerous genes and alleles associated with life history development in the Sashin Creek population with a notable area on chromosome 8 that may play a critical role in the development of the migratory phenotype. However, very few alleles appeared to be associated with life history development in the Little Sheep Creek system, suggesting population‐specific genetic effects are likely important in the development of anadromy. Our results indicate that a migratory life history is not controlled by a singular gene or region but supports the idea that there are many independent ways for a migratory phenotype to emerge in a population. Therefore, conserving and promoting genetic diversity in migratory individuals is paramount to conserving these populations. Ultimately, our data add to a growing body of literature that suggests that population‐specific genetic effects, likely mediated through environmental variation, contribute to life history development in rainbow trout. John Wiley and Sons Inc. 2023-06-26 /pmc/articles/PMC10293719/ /pubmed/37384247 http://dx.doi.org/10.1002/ece3.10241 Text en © 2023 The Authors. Ecology and Evolution published by John Wiley & Sons Ltd. https://creativecommons.org/licenses/by/4.0/This is an open access article under the terms of the http://creativecommons.org/licenses/by/4.0/ (https://creativecommons.org/licenses/by/4.0/) License, which permits use, distribution and reproduction in any medium, provided the original work is properly cited.
spellingShingle Research Articles
Clare, Catherine I.
Nichols, Krista M.
Thrower, Frank P.
Berntson, Ewann A.
Hale, Matthew C.
Comparative genomics of rainbow trout (Oncorhynchus mykiss): Is the genetic architecture of migratory behavior conserved among populations?
title Comparative genomics of rainbow trout (Oncorhynchus mykiss): Is the genetic architecture of migratory behavior conserved among populations?
title_full Comparative genomics of rainbow trout (Oncorhynchus mykiss): Is the genetic architecture of migratory behavior conserved among populations?
title_fullStr Comparative genomics of rainbow trout (Oncorhynchus mykiss): Is the genetic architecture of migratory behavior conserved among populations?
title_full_unstemmed Comparative genomics of rainbow trout (Oncorhynchus mykiss): Is the genetic architecture of migratory behavior conserved among populations?
title_short Comparative genomics of rainbow trout (Oncorhynchus mykiss): Is the genetic architecture of migratory behavior conserved among populations?
title_sort comparative genomics of rainbow trout (oncorhynchus mykiss): is the genetic architecture of migratory behavior conserved among populations?
topic Research Articles
url https://www.ncbi.nlm.nih.gov/pmc/articles/PMC10293719/
https://www.ncbi.nlm.nih.gov/pubmed/37384247
http://dx.doi.org/10.1002/ece3.10241
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