Publications

For a complete list of Dr. De La Torre’s Publications, please see her GoogleScholar

  • De La Torre AR, Sekhwal MK, Neale DB. 2021. Selective sweeps and polygenic adaptation drive local adaptation along moisture and temperature gradients in natural populations of coast redwood and giant sequoia. Genes, 12(11):1826.
  • De la Torre AR, Sekhwal MK, Puiu D, Salzberg SL, Scott AD, Allen B, Neale DB, Chin ARO, Buckley TN. 2021. Genome-wide association identifies candidate genes for drought tolerance in coast redwood and giant sequoia. The Plant Journal, doi:10.1111/tpj.15592
  • Neale DB, Zimin AV, Zaman S, Scott AD, Shrestha B, Workman RE, Puiu D, Allen BJ, Sekhwal MK, De La Torre AR, McGuire PE, Burns E, Timp W, Wegrzyn JL, Salzberg SL. 2021. Assembled and annotated 26.5 Gbp coast redwood genome: a resource for estimating evolutionary adaptive potential and investigating hexaploidy origin. G3: Genes Genomes Genetics, doi:10.1093/g3journal/jkab380.
  • Houminar N, Doron-Faigenboim A, Shklar G, De La Torre AR, Neale D, Korol L, Ashkenazi M, Moshe Y, Riov J, Osem Y, David-Schwartz R. 2021. Transcriptome-based single-nucleotide polymorphism markers between Pinus brutia and Pinus halepensis and the analysis of hybrids. Tree Genetics & Genomes, 17:14, doi:10.1007/s11295-021-01496-w
  • De La Torre AR, Wilhite B, Puiu D, St. Clair JB, Crepeau MW, Salzberg SL, Langley CH, Allen B, Neale DB. 2021. Dissecting the polygenic basis of cold adaptation using genome-wide association of traits and environmental data in Douglas-fir. Genes, 12, 110.
  • Weiss M, Sniezko R, Puiu D, Crepeau MW, Stevens K, Salzberg SL, Langley CH, Neale DB, De La Torre AR. 2020. Genomic basis of white pine blister rust quantitative disease resistance and its relationship with qualitative resistance. The Plant Journal, doi:10.1111/tpj.14928.
  • De La Torre AR, Piot A, Liu B, Wilhite B, Weiss M, Porth I. 2020. Functional and morphological evolution in gymnosperms: a portrait of implicated gene families. Evolutionary Applications 00:1-18.
  • Sun YQ, Zhao W, Xu CQ, El-Kassaby YA, De La Torre AR, Mao JF. 2019. Genetic variation related to high elevation adaptation revealed by long-term common garden experiments in Pinus yunnanensis. Frontiers in Genetics 10:1405, doi:10.3389/fgene.2019.01405
  • Lin YC, Wang J, Delhomme N, Schiffthaler B, Sundström G, Zuccolo A, Nystedt B, Hvidsten TR, De La Torre AR, Cossu R, Hoppner M, Lantz H, Scofield DG, Zamani N, Johansson A, Mannapperuma C, Robinson KM et al. 2018. Functional and evolutionary genomic inferences in Populus through genome and population sequencing of American and European aspen. Proceedings of the National Academy of Sciences USA 115(46):E10970-E10978.
  • De La Torre AR, Puiu D, Crepeau MW, Stevens K, Salzberg SL, Langley CH, Neale DB. 2018. Genomic architecture of complex traits in Loblolly pine (Pinus taeda). New Phytologist 221:1789-1801.
  • Vasquez-Lobo A, De la Torre AR,Vangestel C, Martinez-Garcia PJ,Wegzryn JL, Calic I, Burton D, Davis D, Kinloch B, Neale DB.  2017. Finding loci associated to partial resistance to white pine blister rust on sugar pine (Pinus lambertianaDougl.). Tree Genetics & Genomes 13(108).
  • Li Z,De La Torre AR, Sterck L, Canovas FM, Avila C, Merino I, Cabezas JA, Cervera MT, Ingvarsson PK, Van de Peer Y. 2017. Single-copy genes as molecular markers for phylogenomic studies in seed plants. Genome Biology and Evolution 9(4): 1130-1147.
  • De La Torre AR, Lin YC, Van de Peer Y, Ingvarsson PK. 2015. Genome-wide analysis reveals diverged patterns of codon bias, gene expression, and rates of sequence evolution in Picea gene families. Genome Biology and Evolution 7(4): 1002-1015.
  • De La Torre AR, Ingvarsson PK, Aitken SN. 2015. Genetic architecture and genomic patterns of gene flow between hybridizing species of Picea. Heredity 00: 1-12.
  • Hamilton JA, De La Torre AR, Aitken SN. 2015. Fine-scale environmental variation contributes to introgression in a three-species spruce hybrid zone. Tree Genetics and Genomes 11:817. 
  • De La Torre AR, Birol I, Bousquet J, Ingvarsson PK, Jansson S, Jones SJM, Keeling CI, MacKay J, Nilsson O, Ritland K, Street N, Yanchuk A, Zerbe P, Bohlmann J. 2014. Insights into Conifer Giga-genomes. Plant Physiology 166: 1-9.
  • De La Torre AR, Roberts D, Aitken SN. 2014. Genome-wide admixture and ecological niche modeling reveal the maintenance of species boundaries despite long history of interspecific gene flow. Molecular Ecology 23:2046-2059.
  • De La Torre AR, Wang T, Jaquish B, Aitken SN. 2014. Adaptation and exogenous selection in the Picea glaucax P. engelmannii hybrid zone and its implications for forest management under cimate change. New Phytologist 201(2): 687-699.

Book chapters 

  • De La Torre AR. 2020. Comparative genomics of spruce and other gymnosperms. In: Porth I, De La Torre A. (eds) The Spruce Genome. Compendium of Plant Genomes, pages 97-105, Springer, Cham, Berlin, Germany.https://doi.org/10.1007/978-3-030-21001-4_6
  • Birol I, De La Torre AR. 2020. Sequencing and assembling the nuclear and organelle genomes of North American spruces. In: Porth I, De La Torre A. (eds) The Spruce Genome. Compendium of Plant Genomes, pages 1-8, Springer, Cham, Berlin, Germany. https://doi.org/10.1007/978-3-030-21001-4_1
  • Porth I, De La Torre AR, El-Kassaby YA. 2020. Prospects: The spruce genome, a model for understanding gymnosperm evolution and supporting tree improvement efforts. In: Porth I, De La Torre A. (eds) The Spruce Genome. Compendium of Plant Genomes, pages 215-218, Springer, Cham, Berlin, Germany.https://doi.org/10.1007/978-3-030-21001-4_13
  • La Torre AR. 2015. Genomic admixture and species delimitation in forest tree species. In: Evolutionary Biology: Biodiversification from Genotype to Phenotype (Pontarotti P. ed.), Springer International Publishing, Berlin, Germany. ISBN 978-3-319-19932-0. 460 pp. [link]
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