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2. Revealing the evolutionary history and contemporary population structure of Pacific salmon in the Fraser River through genome resequencing.

Author

Christensen, Kris A, Flores, Anne-Marie, Sakhrani, Dionne, Biagi, Carlo A, Devlin, Robert H, Sutherland, Ben J G, Withler, Ruth E, Rondeau, Eric B, and Koop, Ben F

Subjects
*SOCKEYE salmon, *COHO salmon, *CHINOOK salmon, *PACIFIC salmon, *PRINCIPAL components analysis
Abstract

The Fraser River once supported massive salmon returns. However, over the last century, the largest returns have consistently been less than half of the recorded historical maximum. There is substantial interest from surrounding communities and governments to increase salmon returns for both human use and functional ecosystems. To generate resources for this endeavor, we resequenced genomes of Chinook (Oncorhynchus tshawytscha), coho (Oncorhynchus kisutch), and sockeye salmon (Oncorhynchus nerka) from the Fraser River at moderate coverage (∼16×). A total of 954 resequenced genomes were analyzed, with 681 collected specifically for this study from tissues sampled between 1997 and 2021. An additional 273 were collected from previous studies. At the species level, Chinook salmon appeared to have 1.6–2.1× more SNPs than coho or sockeye salmon, respectively. This difference may be attributable to large historical declines of coho and sockeye salmon. At the population level, 3 Fraser River genetic groups were identified for each species using principal component and admixture analyses. These were consistent with previous research and supports the continued use of these groups in conservation and management efforts. Environmental factors and a migration barrier were identified as major factors influencing the boundaries of these genetic groups. Additionally, 20 potentially adaptive loci were identified among the genetic groups. This information may be valuable in new management and conservation efforts. Furthermore, the resequenced genomes are an important resource for contemporary genomics research on Fraser River salmon and have been made publicly available. [ABSTRACT FROM AUTHOR]

Published
2024
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3. Context Matters: Outcome Assessments for Associate's Degree Psychology Programs

Author

Amsel, Eric, McGregor, Loretta Neal, Alexander, Donna, Leppien-Christensen, Kris, Gerber, Bryan, Wilson-Doenges, Georjeanna, and Hailstorks, Robin

Abstract

The article highlights the importance and challenges of identifying program-level outcome assessment strategies for associate's degree psychology programs. We discuss the value of such program outcomes for quality assurance, improved teaching and learning, and efficient transfer. However, as we document, there is little uniformity in the psychology courses offered in associate's degree programs, which are tailored to the unique context of the institution. As a result, the foundational outcomes offered in the American Psychological Association "Guidelines for the Undergraduate Psychology Major 2.0" may not apply to all institutional contexts. The Associate's Integration subcommittee of the Summit on National Assessment in Psychology developed new outcomes aligned to the foundational ones in "Guidelines 2.0" to address the need for assessments across all institutional contexts. We conclude with suggestions for future discussion, research, and policy regarding program assessment for associate's degree students.

Published
2020
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10. Spinning the Christmas Color Wheel.

Author

SHIMKO, LAURA and CHRISTENSEN, KRIS

Abstract

Her Christmas kitchen features all the colors of the rainbow - and then some. The powder blue La-canche range and coral center island make holiday cooking just as fun as holiday eating. [Extracted from the article]

Published
2023

12. Population-size history inferences from the coho salmon (Oncorhynchus kisutch) genome

Author

Rondeau, Eric B, primary, Christensen, Kris A, additional, Minkley, David R, additional, Leong, Jong S, additional, Chan, Michelle T T, additional, Despins, Cody A, additional, Mueller, Anita, additional, Sakhrani, Dionne, additional, Biagi, Carlo A, additional, Rougemont, Quentin, additional, Normandeau, Eric, additional, Jones, Steven J M, additional, Devlin, Robert H, additional, Withler, Ruth E, additional, Beacham, Terry D, additional, Naish, Kerry A, additional, Yáñez, José M, additional, Neira, Roberto, additional, Bernatchez, Louis, additional, Davidson, William S, additional, and Koop, Ben F, additional

Published
2023
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13. Timing of Postfertilization Pressure Shock Treatment for the Production of Mitotic Gynogens in Six Salmonid Species

Author

Biagi, Carlo A., primary, Leggatt, Rosalind A., additional, Sakhrani, Dionne, additional, Wetklo, Mike, additional, Vandersteen, Wendy E., additional, Christensen, Kris A., additional, Rondeau, Eric B., additional, Watson, Breanna M., additional, Wellband, Kyle W., additional, Koop, Ben F., additional, Withler, Ruth E., additional, and Devlin, Robert H., additional

Published
2022
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14. Isolation-by-distance and population-size history inferences from the coho salmon (Oncorhynchus kisutch) genome

Author

Rondeau, Eric B., primary, Christensen, Kris A., additional, Minkley, David R., additional, Leong, Jong S., additional, Chan, Michelle T.T., additional, Despins, Cody A., additional, Mueller, Anita, additional, Sakhrani, Dionne, additional, Biagi, Carlo A., additional, Rougemont, Quentin, additional, Normandeau, Eric, additional, Jones, Steven J.M., additional, Devlin, Robert H., additional, Withler, Ruth E., additional, Beacham, Terry D., additional, Naish, Kerry A., additional, Yáñez, José M., additional, Neira, Roberto, additional, Bernatchez, Louis, additional, Davidson, William S., additional, and Koop, Ben F., additional

Published
2022
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16. Correction: The sockeye salmon genome, transcriptome, and analyses identifying population defining regions of the genome

Author

Christensen, Kris A., primary, Rondeau, Eric B., additional, Minkley, David R., additional, Sakhrani, Dionne, additional, Biagi, Carlo A., additional, Flores, Anne-Marie, additional, Withler, Ruth E., additional, Pavey, Scott A., additional, Beacham, Terry D., additional, Godin, Theresa, additional, Taylor, Eric B., additional, Russello, Michael A., additional, Devlin, Robert H., additional, and Koop, Ben F., additional

Published
2021
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17. Genome assembly, transcriptome and SNP database for chum salmon (Oncorhynchus keta)

Author

Rondeau, Eric B., primary, Christensen, Kris A., additional, Sakhrani, Dionne, additional, Biagi, Carlo A., additional, Wetklo, Mike, additional, Johnson, Hollie A., additional, Despins, Cody A., additional, Leggatt, Rosalind A., additional, Minkley, David R., additional, Withler, Ruth E., additional, Beacham, Terry D., additional, Koop, Ben F., additional, and Devlin, Robert H., additional

Published
2021
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18. The pink salmon genome: Uncovering the genomic consequences of a two-year life cycle

Author

Christensen, Kris A., primary, Rondeau, Eric B., additional, Sakhrani, Dionne, additional, Biagi, Carlo A., additional, Johnson, Hollie, additional, Joshi, Jay, additional, Flores, Anne-Marie, additional, Leelakumari, Sreeja, additional, Moore, Richard, additional, Pandoh, Pawan K., additional, Withler, Ruth E., additional, Beacham, Terry D., additional, Leggatt, Rosalind A., additional, Tarpey, Carolyn M., additional, Seeb, Lisa W., additional, Seeb, James E., additional, Jones, Steven J. M., additional, Devlin, Robert H., additional, and Koop, Ben F., additional

Published
2021
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21. The pink salmon genome: uncovering the genomic consequences of a strict two-year life-cycle

Author

Christensen, Kris A., primary, Rondeau, Eric B., additional, Sakhrani, Dionne, additional, Biagi, Carlo A., additional, Johnson, Hollie, additional, Joshi, Jay, additional, Flores, Anne-Marie, additional, Leelakumari, Sreeja, additional, Moore, Richard, additional, Pandoh, Pawan K., additional, Withler, Ruth E., additional, Beacham, Terry D., additional, Leggatt, Rosalind A., additional, Tarpey, Carolyn M., additional, Seeb, Lisa W., additional, Seeb, James E., additional, Jones, Steven J.M., additional, Devlin, Robert H., additional, and Koop, Ben F., additional

Published
2021
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22. Assessing the effects of genotype-by-environment interaction on epigenetic, transcriptomic, and phenotypic response in a Pacific salmon

Author

Christensen, Kris A, Le Luyer, Jeremy, Chan, Michelle T T, Rondeau, Eric B, Koop, Ben F, Bernatchez, Louis, Devlin, Robert H, Christensen, Kris A, Le Luyer, Jeremy, Chan, Michelle T T, Rondeau, Eric B, Koop, Ben F, Bernatchez, Louis, and Devlin, Robert H

Abstract

Genotype-by-environment (GxE) interactions are non-parallel reaction norms among individuals with different genotypes in response to different environmental conditions. GxE interactions are an extension of phenotypic plasticity and consequently studying such interactions improves our ability to predict effects of different environments on phenotype as well as the fitness of genetically distinct organisms and their capacity to interact with ecosystems. Growth hormone transgenic coho salmon grow much faster than non-transgenics when raised in tank environments, but show little difference in growth when reared in nature-like streams. We used this model system to evaluate potential mechanisms underlying this growth rate GxE interaction, performing RNA-seq to measure gene transcription and whole-genome bisulfite sequencing to measure gene methylation in liver tissue. Gene ontology (GO) term analysis revealed stress as an important biological process potentially influencing growth rate GxE interactions. While few genes with transcription differences also had methylation differences, in promoter or gene regions, many genes were differentially methylated between tank and stream environments. A GO term analysis of differentially methylated genes between tank and stream environments revealed increased methylation in the stream environment of more than 95% of the differentially methylated genes, many with biological processes unrelated to liver function. The lower nutritional condition of the stream environment may cause increased negative regulation of genes less vital for liver tissue function than when fish are reared in tanks with unlimited food availability. These data show a large effect of rearing environment both on gene expression and methylation, but it is less clear that the detected epigenetic marks are responsible for the observed altered growth and physiological responses.

Published
2021
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23. Retraction: The Arctic charr (Salvelinus alpinus) genome and transcriptome assembly

Author

Christensen, Kris A., primary, Rondeau, Eric B., additional, Minkley, David R., additional, Leong, Jong S., additional, Nugent, Cameron M., additional, Danzmann, Roy G., additional, Ferguson, Moira M., additional, Stadnik, Agnieszka, additional, Devlin, Robert H., additional, Muzzerall, Robin, additional, Edwards, Michael, additional, Davidson, William S., additional, and Koop, Ben F., additional

Published
2021
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25. The sockeye salmon genome, transcriptome, and analyses identifying population defining regions of the genome

Author

Christensen, Kris A., primary, Rondeau, Eric B., additional, Minkley, David R., additional, Sakhrani, Dionne, additional, Biagi, Carlo A., additional, Flores, Anne-Marie, additional, Withler, Ruth E., additional, Pavey, Scott A., additional, Beacham, Terry D., additional, Godin, Theresa, additional, Taylor, Eric B., additional, Russello, Michael A., additional, Devlin, Robert H., additional, and Koop, Ben F., additional

Published
2020
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26. Comparative Genomic Analysis of Three Salmonid Species Identifies Functional Candidate Genes Involved in Resistance to the Intracellular Bacterium Piscirickettsia salmonis

Author

Yáñez, José M., primary, Yoshida, Grazyella M., additional, Parra, Ángel, additional, Correa, Katharina, additional, Barría, Agustín, additional, Bassini, Liane N., additional, Christensen, Kris A., additional, López, Maria E., additional, Carvalheiro, Roberto, additional, Lhorente, Jean P., additional, and Pulgar, Rodrigo, additional

Published
2019
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27. Whole Genome Linkage Disequilibrium and Effective Population Size in a Coho Salmon (Oncorhynchus kisutch) Breeding Population Using a High-Density SNP Array

Author

Barría, Agustín, primary, Christensen, Kris A., additional, Yoshida, Grazyella, additional, Jedlicki, Ana, additional, Leong, Jong S., additional, Rondeau, Eric B., additional, Lhorente, Jean P., additional, Koop, Ben F., additional, Davidson, William S., additional, and Yáñez, José M., additional

Published
2019
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29. Design and characterization of an 87k SNP genotyping array for Arctic charr (Salvelinus alpinus)

Author

Nugent, Cameron M., primary, Leong, Jong S., additional, Christensen, Kris A., additional, Rondeau, Eric B., additional, Brachmann, Matthew K., additional, Easton, Anne A., additional, Ouellet-Fagg, Christine L., additional, Crown, Michelle T. T., additional, Davidson, William S., additional, Koop, Ben F., additional, Danzmann, Roy G., additional, and Ferguson, Moira M., additional

Published
2019
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30. Comparative genomic analysis of three salmonid species identifies functional candidate genes involved in resistance to the intracellular bacteriaPiscirickettsia salmonis

Author

Yáñez, José M., primary, Yoshida, Grazyella M., additional, Parra, Ángel, additional, Correa, Katharina, additional, Barría, Agustín, additional, Bassini, Liane N., additional, Christensen, Kris A., additional, López, Maria E., additional, Carvalheiro, Roberto, additional, Lhorente, Jean P., additional, and Pulgar, Rodrigo, additional

Published
2019
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31. The Arctic charr (Salvelinus alpinus) genome and transcriptome assembly

Author

Christensen, Kris A., primary, Rondeau, Eric B., additional, Minkley, David R., additional, Leong, Jong S., additional, Nugent, Cameron M., additional, Danzmann, Roy G., additional, Ferguson, Moira M., additional, Stadnik, Agnieszka, additional, Devlin, Robert H., additional, Muzzerall, Robin, additional, Edwards, Michael, additional, Davidson, William S., additional, and Koop, Ben F., additional

Published
2018
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39. THE ART of Gifting.

Author

Allison, Courtney, Torres, Jickie, Dombrowski, Margie Monin, Brink, Anne, Christensen, Kris, and Lee, Kelly

Published
2018

40. Each vertebra alone

Author

Christensen, Kris

Subjects
Poetry, Humanities, Social sciences, Women's issues/gender studies
Abstract

EACH VERTEBRA ALONE August arrived yesterday. Tractors breaking summer from the stems. Now envelopes sail shadows of a woman's fingers collecting like distance in old metal bins. Behind each stamp: [...]

Published
2002

46. Favorite COLLECTIBLES.

Author

Allison, Courtney, Brink, Anne, Dombrowski, Margie Monin, Christensen, Kris, and Wood, KariAnne

Published
2018

50. Biogeographical Origins of Hawaiian Diplopterygium pinnatum by Long Distance Wind Dispersal

Author

Jennifer Glowienka, John Addis, Kay Satre, Christensen, Kris, Jennifer Glowienka, John Addis, Kay Satre, and Christensen, Kris

Abstract

This study was designed to investigate a possible biogeographical origin and mechanism of dispersal ofthe Hawaiian fern Diplopterygium pinnatum. Molecular phylogenetic analyses were conducted on trnL-F and rbcL, cpDNA regions, for seven species of the genus Diplopterygium and three outgroups. Maximum parsimony and maximum likelihood analyses were used for phylogenetic reconstruction. Three hypotheses were tested: that the ancestor ofD. pinnatum originated from 1) an IndoPacific source and traveled to Hawaii via the jet stream, 2) an American source and traveled to Hawaii via the trade winds, or 3) an Austral source and traveled to Hawaii by a combination of an intertropical convergence zone (ITCZ) shift, Hadley cell air movement, and the trade winds. The two methods ofreconstruction, maximum parsimony and maximum likelihood, produced similar trees with similar support. The second hypothesis was rejected and the first and third hypotheses cannot be distinguished.

Published
2006

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