Publications (Clicking on the reprint icon will take you to the publication reprint.)

Quantitative trait loci affecting response to crowding stress in an F2 generation of rainbow trout produced through phenotypic selection - (Peer Reviewed Journal)

(09-May-13)

RNA-seq analysis of stress response in rainbow trout - (Abstract Only)

Liu, S., Gao, G., Palti, Y., Weber, G.M., Rexroad III, C.E. 2013. RNA-seq analysis of stress response in rainbow trout. Annual International Plant & Animal Genome Conference. P0511.

Identification and characterization of long non-coding RNAs in rainbow trout eggs - (Abstract Only)

Wang, J., Ma, H., Rexroad III, C.E., Yao, J. 2013. Identification and characterization of long non-coding RNAs in rainbow trout eggs. Annual International Plant & Animal Genome Conference. P0509.

Effect of sexual maturation on muscle gene expression of rainbow trout on a high nutritional plane: RNA-Seq approach - (Abstract Only)

Salem, M., Manor, M.L., Aussanasuwannakul, A., Kenney, P., Weber, G.M., Slider, S.D., Yao, J. 2013. Effect of sexual maturation on muscle gene expression of rainbow trout on a high nutritional plane: RNA-Seq approach. Aquaculture Conference Proceedings. February 22-25, 2013, Nashville, Tennessee. p. 912.

Single nucleotide polymorphism (SNP) discovery in rainbow trout using restriction site associated DNA (RAD) sequencing of doubled haploids and assessment of polymorphism in a population survey - (Abstract Only)

Palti, Y., Gao, G., Miller, M., Vallejo, R.L., Wheeler, P.A., Quillet, E., Yao, J., Thorgaard, G.H., Salem, M., Rexroad III, C.E. 2013. Single nucleotide polymorphism (SNP) discovery in rainbow trout using restriction site associated DNA (RAD) sequencing of doubled haploids and assessment of polymorphism in a population survey. Annual International Plant & Animal Genome Conference. P0507.

QTL affecting stress response to crowding in a rainbow trout broodstock population - (Peer Reviewed Journal)

Rexroad III, C.E., Vallejo, R.L., Liu, S., Palti, Y., Weber, G.M. 2012. QTL affecting stress response to crowding in a rainbow trout broodstock population . BioMed Central (BMC) Genetics. 13:97. DOI:10.1186/1471-2156-13-97

Identifying genes affectng stress response in rainbow trout - (Abstract Only)

Rexroad Iii, C.E., Liu, S., Gao, G., Palti, Y., Weber, G.M., Vallejo, R.L. 2013. Identifying genes affectng stress response in rainbow trout. Aquaculture Conference Proceedings. P0182.

Mapping of QTL for bacterial cold water disease resistance in rainbow trout - (Abstract Only)

Palti, Y., Vallejo, R.L., Welch, T.J., Evenhuis, J., Leeds, T.D., Gao, G., Liu, S., Rexroad III, C.E., Wiens, G.D. 2013. Mapping of QTL for bacterial cold water disease resistance in rainbow trout. Aquaculture Conference Proceedings. P0296.

A deleterious effect associated with UNH159 is attenuated in twin embryos of an inbred line of tilapia (Oreochromis aureus) - (Peer Reviewed Journal)

Shirak, A., Palti, Y., Bern, O., Kocher, T.D., Hulata, G., Ron, M., Avtalion, R. 2013. A deleterious effect associated with UNH159 is attenuated in twin embryos of an inbred line of tilapia (Oreochromis aureus). Journal of Fish Biology. 82:42-53.

Pathogenic infection confounds induction of the estrogenic biomarker vitellogenin in rainbow trout - (Peer Reviewed Journal)

Burki, R., Krasnov, A., Bettage, K., Rexroad III, C.E., Afanasyev, S., Antikainen, M., Burkhardt-Holm, P., Wahli, T., Segner, H. 2012. Pathogenic infection confounds induction of the estrogenic biomarker vitellogenin in rainbow trout. Journal of Society of Environmental Toxicology and Chemistry. 31(10):2318-2323.

Characterization of the rainbow trout oocyte microRNA transcriptome - (Peer Reviewed Journal)

Ma, H., Hostuttler, M.A., Wei, H., Rexroad III, C.E., Yao, J. 2012. Characterization of the rainbow trout oocyte microRNA transcriptome. PLoS One. 7(6):1-8.

Molecular characterization and expression analysis of Zar1 and Zar1-like genes in rainbow trout - (Abstract Only)

Lin, C., Wang, L., Hao, M., Hostuttler, M.A., Rexroad III, C.E., Yao, J. 2012. Molecular characterization and expression analysis of Zar1 and Zar1-like genes in rainbow trout. Society for the Study of Reproduction Annual Meeting. 564.

RNA-Seq identifies SNP markers for growth traits in rainbow trout - (Peer Reviewed Journal)

Salem, M., Vallejo, R.L., Leeds, T.D., Palti, Y., Liu, S., Sabbagh, A., Rexroad III, C.E., Yao, J. 2012. RNA-Seq identifies SNP markers for growth traits in rainbow trout. PLoS One. 7(5):e36264.

Quantitative trait loci analyses and RNA-seq identify genes affecting stress response in rainbow trout - (Abstract Only)

Rexroad III, C.E., Liu, S., Gao, G., Palti, Y., Weber, G.M., Vallejo, R.L. 2012. Quantitative trait loci analyses and RNA-seq identify genes affecting stress response in rainbow trout [abstract]. p. 185.

Use of RADs and doubled haploids to identify SNPs in rainbow trout - (Abstract Only)

Rexroad III, C.E., Salem, M., Miller, M., Yao, J., Gao, G., Liu, S., Thorgaard, G., Palti, Y. 2012. Use of RADs and doubled haploids to identify SNPs in rainbow trout [abstract]. p. 246.

Mapping of QTL for bacterial cold water disease resistance in rainbow trout - (Abstract Only)

Palti, Y., Vallejo, R.L., Welch, T.J., Leeds, T.D., Evenhuis, J., Gao, G., Liu, S., Rexroad III, C.E., Wiens, G.D. 2012. Mapping of QTL for bacterial cold water disease resistance in rainbow trout [abstract]. International Symposium on Genetics in Aquaculture. p. 354.

Analysis of differential gene expression in response to handling and confinement stress in rainbow trout using whole transcriptome RNA-seq - (Abstract Only)

Liu, S., Gao, G., Castano-Sanchez, C., Palti, Y., Rexroad III, C.E. 2012. Analysis of differential gene expression in response to handling and confinement stress in rainbow trout using whole transcriptome RNA-seq [abstract]. International Symposium on Genetics in Aquaculture. p. 367.

Molecular crosstalk between a chemical and a biological stressor and consequences on disease manifestation in rainbow trout - (Peer Reviewed Journal)

Burki, R., Krasnov, A., Bettage, K., Rexroad III, C.E., Afanasyev, S., Antikainen, M., Burkhardt-Holm, P., Wahli, T., Segner, H. 2012. Molecular crosstalk between a chemical and a biological stressor and consequences on disease manifestation in rainbow trout. Aquatic Toxicology. 127:2-8.

New in-depth rainbow trout transcriptome reference and digital atlas of gene expression - (Abstract Only)

Salem, M., Rexroad III, C.E., Thorgaard, G., Yao, J. 2012. New in-depth rainbow trout transcriptome reference and digital atlas of gene expression. Annual International Plant & Animal Genome Conference. W045.

Identification of differentially expressed miRNAs potentially associated with egg quality in rainbow trout (Oncorhynchus mykiss) - (Abstract Only)

Ma, H., Hostuttler, M.A., Weber, G.M., Rexroad III, C.E., Wei, H., Wang, L., Yao, J. 2012. Identification of differentially expressed miRNAs potentially associated with egg quality in rainbow trout (Oncorhynchus mykiss). Annual International Plant & Animal Genome Conference. W041.

Mapping of QTL for bacterial cold water disease resistance in rainbow trout - (Abstract Only)

Palti, Y., Vallejo, R.L., Welch, T.J., Leeds, T.D., Evenhuis, J., Liu, S., Rexroad III, C.E., Wiens, G.D. 2012. Mapping of QTL for bacterial cold water disease resistance in rainbow trout. Plant and Animal Genome Conference. P0662.

Generation of a reference transcriptome for evaluating rainbow trout responses to various stressors - (Peer Reviewed Journal)

Sanchez, C., Weber, G.M., Gao, G., Cleveland, B.M., Yao, J., Rexroad III, C.E. 2011. Generation of a reference transcriptome for evaluating rainbow trout responses to various stressors. Biomed Central (BMC) Genomics. 12:626.

Detection of quantitative trait loci (QTL) for resistance to bacterial cold water disease and spleen size in rainbow trout - (Abstract Only)

Palti, Y., Vallejo, R.L., Welch, T.J., Evenhuis, J., Leeds, T.D., Liu, S., Rexroad III, C.E., Wiens, G.D. 2011. Detection of quantitative trait loci (QTL) for resistance to bacterial cold water disease and spleen size in rainbow trout. Aquaculture America Conference. 4.

A microsatellite linkage map of striped bass (Morone saxatilis) reveals conserved synteny with the hree-spined stickleback (Gasterosteus aculeatus) - (Peer Reviewed Journal)

Liu, S., Rexroad III, C.E., Couch, C.R., Cordes, J.R., Reece, K.S., Sullivan, C.V. 2011. A microsatellite linkage map of striped bass (Morone saxatilis) reveals conserved synteny with the hree-spined stickleback (Gasterosteus aculeatus). Marine Biotechnology. 14(2):237-244.

Next-generation sequencing reveals a conserved haplotype controlling parallel adaptation in geographically distant rainbow trout (Oncorhynchus mykiss) populations - (Peer Reviewed Journal)

Miller, M.R., Brunelli, J.P., Wheeler, P.A., Liu, S., Rexroad III, C.E., Palti, Y., Doe, C.Q., Thorgaard, G.H. 2012. Next-generation sequencing reveals a conserved haplotype controlling parallel adaptation in geographically distant rainbow trout (Oncorhynchus mykiss) populations. Molecular Ecology. 21(2):237-249.

Analysis of BAC-end sequences in rainbow trout: content characterization and assessment of synteny between trout and other fish genomes - (Peer Reviewed Journal)

Genet, C., Dehais, P., Palti, Y., Gavory, F., Wincker, P., Quillet, E., Boussaha, M., Gao, G. 2011. Analysis of BAC-end sequences in rainbow trout: content characterization and assessment of synteny between trout and other fish genomes. Biomed Central (BMC) Genomics. 12:314.

A first generation integrated map of the rainbow trout genome - (Peer Reviewed Journal)

Palti, Y., Genet, C., Luo, M., Charlet, A., Gao, G., Hu, Y., Castano-Sanchez, C., Yao, J., Vallejo, R.L., Rexroad III, C.E. 2011. A first generation integrated map of the rainbow trout genome. Biomed Central (BMC) Genomics. 12:180. DOI: 10.1186/1471-2164-12-180.

Importin a8 (KPNA7) interacts with STL3, an oocyte-specific protein in rainbow trout (Oncorhynchus mykiss) - (Abstract Only)

Wang, L., Ma, H., Rexroad III, C.E., Yao, J. 2011. Importin a8 (KPNA7) interacts with STL3, an oocyte-specific protein in rainbow trout (Oncorhynchus mykiss). Society for the Study of Reproduction Annual Meeting. Paper No. 301-400.

Importin alpha8 (KPNA7) interacts with STL3, an oocyte-specific protein in rainbow trout (Oncorhynchus mykiss) - (Abstract Only)

Wag, L., Ma, H., Yao, J., Rexroad III, C.E. 2012. Importin alpha8 (KPNA7) interacts with STL3, an oocyte-specific protein in rainbow trout (Oncorhynchus mykiss). Society for the Study of Reproduction Annual Meeting. 152.

Toll-like receptors in bony fish: from genomics to function - (Review Article)

Palti, Y. 2012. Toll-like receptors in bony fish: from genomics to function. Developmental and Comparative Immunology. 35(12):1263-1272.

Association between IL-10a SNPs and resistance to cyprinid herpesvirus-3 infection in common carp (Cyprinus carpio) - (Peer Reviewed Journal)

Kongchum, P., Sandel, E., Lutzky, S., Hallerman, E., Hulata, G., David, L., Palti, Y. 2011. Association between IL-10a SNPs and resistance to cyprinid herpesvirus-3 infection in common carp (Cyprinus carpio). Aquaculture. 315(3-4):417-421.

Candidate gene markers for selective breeding of CyHV-3-resistant common carp - (Trade Journal)

Kongchum, P., David, L., Hallerman, E., Hulata, G., Palti, Y. 2011. Candidate gene markers for selective breeding of CyHV-3-resistant common carp. Global Aquaculture Advocate. 14:78-79.

Detection of quantitative trait loci affecting response to crowding stress in rainbow trout - (Abstract Only)

Vallejo, R.L., Rexroad III, C.E., Liu, S., Palti, Y., Weber, G.M. 2011. Detection of quantitative trait loci affecting response to crowding stress in rainbow trout. Gordon Research Conference Proceedings: Quantitative genetics & Genomics: From Genome to Phenotype. p. 151.

Rapid and accurate sequencing of the rainbow trout physical map using Illumina technology - (Abstract Only)

Palti, Y. 2011. Rapid and accurate sequencing of the rainbow trout physical map using Illumina technology [abstract]. Fish Genome Meeting, Hinxton,UK. p. 241.

A microsatellite linkage map of striped bass (Morone saxatilis) - (Abstract Only)

Liu, S., Rexroad III, C.E., Couch, C.R., Cordes, J.R., Reece, K.S., Sullivan, C.V. 2011. A microsatellite linkage map of striped bass (Morone saxatilis) [abstract]. Plant and Animal Genome Conference. p. 628.

MicroRNA transcriptome profile of rainbow trout (Oncorhynchus mykiss) egg - (Abstract Only)

Ma, H., Hostuttler, M.A., Rexroad III, C.E., Yao, J. 2011. MicroRNA transcriptome profile of rainbow trout (Oncorhynchus mykiss) egg [abstract]. Plant and Animal Genome Conference. p. 627.

Molecular cloning, characterization and expression analysis of TLR9, MyD88 and TRAF6 genes in common carp (Cyprinus carpio) - (Peer Reviewed Journal)

Kongchum, P., David, L., Hallerman, E., Hulata, G., Palti, Y. 2011. Molecular cloning, characterization and expression analysis of TLR9, MyD88 and TRAF6 genes in common carp (Cyprinus carpio). Fish and Shellfish Immunology. 30: 361-371.

Genomic analysis of the stress response of rainbow trout - (Abstract Only)

Rexroad III, C.E., Vallejo, R.L., Liu, S., Castano Sanchez, C., Yao, J., Palti, Y., Weber, G.M. 2011. Genomic analysis of the stress response of rainbow trout. Aquaculture America Conference. 272.

Isolation of innate immune response genes, expression analysis, polymorphism identification and development of genetic marker for linkage analysis in common carp (Cyprinus carpio) - (Abstract Only)

Kongchum, P., Hallerman, E., Hulata, G., David, L., Palti, Y. 2011. Isolation of innate immune response genes, expression analysis, polymorphism identification and development of genetic marker for linkage analysis in common carp (Cyprinus carpio). Plant and Animal Genome Conference. W053.

Rapid and accurate sequencing of the rainbow trout physical map using Illumina technology - (Abstract Only)

Miller, M.R., Palti, Y., Luo, M., Miller, J.A., Brunelli, J.P., Wheeler, P.A., Rexroad III, C.E., Thorgaard, G.H., Doe, C.Q. 2011. Rapid and accurate sequencing of the rainbow trout physical map using Illumina technology. Plant and Animal Genome Conference. W045.

Status of the rainbow trout genome reference sequence assembly - (Government Publication)

Palti, Y., Rexroad III, C.E. 2010. Status of the rainbow trout genome reference sequence assembly. Government Publication/Report. 1:1-9.

Detection of QTL for spleen size and disease resistance in rainbow trout - (Abstract Only)

Palti, Y., Vallejo, R.L., Welch, T.J., Leeds, T.D., Evenhuis, J., Liu, S., Rexroad III, C.E., Wiens, G.D. 2011. Detection of QTL for spleen size and disease resistance in rainbow trout. Plant and Animal Genome Conference. p. 643.

Genomic analysis of the rainbow trout response to crowding - (Abstract Only)

Rexroad III, C.E., Vallejo, R.L., Liu, S., Castano, C., Yao, J., Palti, Y., Weber, G.M. 2011. Genomic analysis of the rainbow trout response to crowding. Plant and Animal Genome Conference. P630.

Molecular characterization of the Akt-TOR signaling pathway in rainbow trout: potential role in muscle growth/degradation - (Abstract Only)

Qi, N., Salem, M., Kenney, B., Leeds, T.D., Rexroad IIII, C.E., Yao, J. 2011. Molecular characterization of the Akt-TOR signaling pathway in rainbow trout: potential role in muscle growth/degradation. Plant and Animal Genome Conference. W042.

Unlocking genetic secrets of the fast/slow growth in rainbow trout with next-generation sequencing - (Abstract Only)

Salem, M., Leeds, T.D., Rexroad III, C.E., Yao, J. 2011. Unlocking genetic secrets of the fast/slow growth in rainbow trout with next-generation sequencing. Plant and Animal Genome Conference. W041.

Characterization of the rainbow trout transcriptome using Sanger and 454-pyrosequencing approaches - (Peer Reviewed Journal)

Salem, M., Rexroad III, C.E., Wang, J., Thorgaard, G.H., Yao, J. 2010. Characterization of the rainbow trout transcriptome using Sanger and 454-pyrosequencing approaches. Biomed Central (BMC) Genomics. 11:564.

SNP analysis with duplicated fish genomes: differentiation of SNPs, paralogous sequence variants and multi-site variants - (Book / Chapter)

Castano, C., Palti, Y., Rexroad III, C.E. 2011. SNP analysis with duplicated fish genomes: differentiation of SNPs, paralogous sequence variants and multi-site variants. In: Liu, Z.J., editor. Next Generation Sequencing and Whole Genome Selection in Aquaculture. 1st edition. Malden, MA: Wiley-Blackwell. p. 133-150.

Evidence of major genes affecting resistance to bacterial cold water disease in rainbow trout using Bayesian methods of segregation analysis - (Peer Reviewed Journal)

Vallejo, R.L., Wiens, G.D., Rexroad III, C.E., Welch, T.J., Evenhuis, J., Leeds, T.D., Janss, L.L., Palti, Y. 2010. Evidence of major genes affecting resistance to bacterial cold water disease in rainbow trout using Bayesian methods of segregation analysis. Journal of Animal Science. 88:3814-3832.

Towards molecular biomarkers for muscle atrophy and fillet quality in rainbow trout - (Abstract Only)

Salem, M., Kenney, P., Rexroad III, C.E., Yao, J. 2011. Towards molecular biomarkers for muscle atrophy and fillet quality in rainbow trout. Aquaculture America Conference. 34.

Relating instrumental texture, determined relating instrumental texture, determined attachments, to sensory analysis of rainbow trout, Oncorhynchus mykiss, fillets - (Peer Reviewed Journal)

Aussanasuwannakul, A., Kenney, P., Brannan, R.G., Slider, S.D., Salem, M., Yao, J. 2010. Relating instrumental texture, determined relating instrumental texture, determined attachments, to sensory analysis of rainbow trout, Oncorhynchus mykiss, fillets. Journal of Food Science. 75:S365-S374. DOI: 10.1111/j. 1750-3841.2010.01770.x.

Genetic management of broodstock populations with DNA markers in rainbow trout - (Abstract Only)

Vallejo, R.L., Rexroad III, C.E., Liu, S., Palti, Y. 2010. Genetic management of broodstock populations with DNA markers in rainbow trout. World Congress of Genetics Applied in Livestock Production, Liepzig, Germany. CDROM.

Genetic management of broodstock populations with DNA markers in rainbow trout - (Proceedings)

Vallejo, R.L., Rexroad III, C.E., Liu, S., Palti, Y. 2010. Genetic management of broodstock populations with DNA markers in rainbow trout. World Congress of Genetics Applied in Livestock Production, August 1 - 6, 2010, Liepzig, Germany. p 0928PP3-53.

SNP discovery and development of genetic markers for mapping immune response genes in common carp (Cyprinus carpio) - (Peer Reviewed Journal)

Kongchum, P., Palti, Y., Hallerman, E., Hulata, G., David, L. 2010. SNP discovery and development of genetic markers for mapping immune response genes in common carp (Cyprinus carpio). Fish and Shellfish Immunology. 29:356-361.

ADP-ribosylation factor-like protein 4C (ARL4C) interacts with galectin-3 during oocyte development and embryogenesis in rainbow trout (Oncorhynchus mykiss) - (Abstract Only)

Zhang, X., Rexroad Iii, C.E., Yao, J. 2010. ADP-ribosylation factor-like protein 4C (ARL4C) interacts with galectin-3 during oocyte development and embryogenesis in rainbow trout (Oncorhynchus mykiss) [abstract]. Society for the Study of Reproduction Annual Meeting. Paper No. 25.

Single nucleotide polymorphism discovery in rainbow trout - (Abstract Only)

Rexroad Iii, C.E., Castano, C., Smith, T.P., Vallejo, R.L., Jianbo, Y., Wiedmann, R.T. 2010. Single nucleotide plymorphism discovery in rainbow trout. Aquaculture America Conference.