John Carlson

Professor of Molecular Genetics; Director, Schatz Center for Tree Molecular Genetics

John Carlson

Research Summary

Genome mapping, including genetic linkage mapping, molecular cytogenetics; studies of genetic diversity in forests.

Huck Affiliations

Links

Publication Tags

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Genome Genomics Genes Breeding Phylogeny Cultivars Rhizosphere Chloroplast Genome Paeonia Suffruticosa Microbiota Genetic Markers Climate Change Fraxinus Quercus Resource Transcriptome Genetic Variation Introgression Marker Bioenergy Hardwood Restoration Chromosomes Forests Dna

Most Recent Publications

A high-quality reference genome for Fraxinus pennsylvanica for ash species restoration and research

Matt Huff, Josiah Seaman, Di Wu, Tetyana Zhebentyayeva, Laura J. Kelly, Nurul Faridi, Charles D. Nelson, Endymion Cooper, Teodora Best, Kim Steiner, Jennifer Koch, Jeanne Romero Severson, John E. Carlson, Richard Buggs, Margaret Staton, 2022, Molecular Ecology Notes on p. 1284-1302

Adaptation of Sub Saharan African Faidherbia albida (Del.) A. Chev. provenances in the Sudano--Sahelian climatic condition of Cameroon

Tagne Aubin, Tamkam Tagne, Dorothy Tchatchoua, Tchatchoua Tchapda, Roseline Caspa, Caspa Gusua, Scott Poethig, John Carlson, Tetyana Zhebentyayeva, 2021, Journal of Animal and Plant Sciences on p. 16

Use of genomic resources to assess adaptive divergence and introgression in oaks

Desanka Lazic, Andrew L. Hipp, John E. Carlson, Oliver Gailing, 2021, Forests

Poplar Allene Oxide Synthase 1 Gene Promoter Drives Rapid and Localized Expression by Wounding

Bin Lei, Christopher J Frost, Tao Xu, Joshua R Herr, John Carlson, Haiying Liang, 2021,

Host genomic influence on bacterial composition in the switchgrass rhizosphere

Jeremy Sutherland, Terrence Bell, Ryan Trexler, John Carlson, Jesse R. Lasky, 2021, Molecular Ecology on p. 3934-3950

Oak population genomics

Oliver Gailing, Andrew Hipp, Christophe Plomion, John Carlson, 2021,

Corrigendum to Phylogenetic analysis based on chloroplast genome uncover evolutionary relationship of all the nine species and six cultivars of tree peony [Industrial Crops and Products 153 October (2020) 112567] (Industrial Crops & Products (2020) 153, (S0926669020304830), (10.1016/j.indcrop.2020.112567))

Lili Guo, Shuai Guo, Jiang Xu, Lixia He, John E. Carlson, Xiaogai Hou, 2020, Industrial Crops and Products

Inter-specific hybridization of Alnus rubra and Alnus rhombifolia: preliminary report of a new taxon and DNA marker resources for bioenergy feedstock production

Brian J. Stanton, Teodora Best, Nurul Islam-Faridi, Carlos Gantz, Kathy Haiby, Lianna J. Johnson, Rich Shuren, Alex Stanish, Margaret Staton, T. Casey Weathers, Di Wu, John E. Carlson, 2020, Tree Genetics and Genomes

Phylogenetic analysis based on chloroplast genome uncover evolutionary relationship of all the nine species and six cultivars of tree peony

Lili Guo, Shuai Guo, Jiang Xu, Lixia He, John E. Carlson, Xiaogai Hou, 2020, Industrial Crops and Products

“A reference genome assembly and adaptive trait analysis of Castanea mollissima ‘Vanuxem,’ a source of resistance to chestnut blight in restoration breeding”

Margaret Staton, Charles Addo-Quaye, Nathaniel Cannon, Jiali Yu, Tetyana Zhebentyayeva, Matthew Huff, Nurul Islam-Faridi, Shenghua Fan, Laura L. Georgi, C. Dana Nelson, Emily Bellis, Sara Fitzsimmons, Nathan Henry, Daniela Drautz-Moses, Rooksana E. Noorai, Stephen Ficklin, Christopher Saski, Mihir Mandal, Tyler K. Wagner, Nicole Zembower, Catherine Bodénès, Jason Holliday, Jared Westbrook, Jesse Lasky, Frederick V. Hebard, Stephan C. Schuster, Albert G. Abbott, John E. Carlson, 2020, Tree Genetics and Genomes

Most-Cited Papers

Functional genomics and microbiome profiling of the Asian longhorned beetle (Anoplophora glabripennis) reveal insights into the digestive physiology and nutritional ecology of wood feeding beetles

Erin D. Scully, Scott M. Geib, John E. Carlson, Ming Tien, Duane McKenna, Kelli Hoover, 2014, BMC Genomics

Genome and secretome analysis of the hemibiotrophic fungal pathogen, Moniliophthora roreri, which causes frosty pod rot disease of cacao: Mechanisms of the biotrophic and necrotrophic phases

Lyndel W. Meinhardt, Gustavo Gilson L. Costa, Daniela P.T. Thomazella, Paulo José P.L. Teixeira, Marcelo F. Carazzolle, Stephan C. Schuster, John E. Carlson, Mark J. Guiltinan, Piotr Mieczkowski, Andrew Farmer, Thiruvarangan Ramaraj, Jayne Crozier, Robert E. Davis, Jonathan Shao, Rachel L. Melnick, Gonçalo A.G. Pereira, Bryan A. Bailey, 2014, BMC Genomics

Substantial genome synteny preservation among woody angiosperm species: Comparative genomics of Chinese chestnut (Castanea mollissima) and plant reference genomes

Margaret Staton, Tetyana Zhebentyayeva, Bode Olukolu, Guang Chen Fang, Dana Nelson, John E. Carlson, Albert G. Abbott, 2015, BMC Genomics

Manipulating Wild and Tamed Phytobiomes: Challenges and Opportunities

Alyssa Collins, Terrence H Bell, Kevin Hockett, P Esker, Ricardo Alcala-Briseno, B Gugino, Ricardo Alcalá-Briseño, Mary Barbercheck, K Peter, Gwyn Beattie, Mary Ann Bruns, John Carlson, Taejung Chung, A Collins, Bryan Emmett, Paul Esker, Karen Garrett, Leland Glenna, Beth K. Gugino, María Del Mar Jiménez-Gasco, M del Mar Jimenez Gasco, Maria del Mar Jimenez Gasco, Linda Kinkel, Jasna Kovac, Kurt Kowalski, Kurt Kowalski, Johan Leveau, J Myrick, Gretchen Kuldau, K Peter, Johan Leveau, Matthew Michalska-Smith, Maria Salazar, Jessica Myrick, Ashley Shade, Kari Peter, Nejc Stopnisek, Xiaoqing Tan, Maria fernanda Vivanco Salazar, Maria Salazar, Ashley Shade, Amy Welty, Nejc Stopinsek, Nejc Stopnisek, Kyle Wickings, Etienne Yergeau, Xiaoqing Tan, Amy Welty, Kyle Wickings, Etienne Wickings, Etienne Yergeau, 2019, Phytobiomes Journal on p. 3-21

High-quality genetic mapping with ddRADseq in the non-model tree Quercus rubra

Arpita Konar, Olivia Choudhury, Rebecca Bullis, Lauren Fiedler, Jacqueline M. Kruser, Melissa T. Stephens, Oliver Gailing, Scott Schlarbaum, Mark V. Coggeshall, Margaret E. Staton, John E. Carlson, Scott Emrich, Jeanne Romero-Severson, 2017, BMC Genomics

Phylogenetic analysis based on chloroplast genome uncover evolutionary relationship of all the nine species and six cultivars of tree peony

Lili Guo, Shuai Guo, Jiang Xu, Lixia He, John E. Carlson, Xiaogai Hou, 2020, Industrial Crops and Products

Hardwood tree genomics: Unlocking woody plant biology

Gerald A. Tuskan, Andrew T. Groover, Jeremy Schmutz, Stephen Paul DiFazio, Alexander Myburg, Dario Grattapaglia, Lawrence B. Smart, Tongming Yin, Jean Marc Aury, Antoine Kremer, Thibault Leroy, Gregoire Le Provost, Christophe Plomion, John E. Carlson, Jennifer Randall, Jared Westbrook, Jane Grimwood, Wellington Muchero, Daniel Jacobson, Joshua K. Michener, 2018, Frontiers in Plant Science

The green ash transcriptome and identification of genes responding to abiotic and biotic stresses

Thomas Lane, Teodora Best, Nicole Zembower, Jack Davitt, Nathan Henry, Yi Xu, Jennifer Koch, Haiying Liang, John McGraw, Stephan Schuster, Donghwan Shim, Mark V. Coggeshall, John E. Carlson, Margaret E. Staton, 2016, BMC Genomics

Host-plant induced changes in microbial community structure and midgut gene expression in an invasive polyphage (Anoplophora glabripennis

Erin D. Scully, Scott M. Geib, Charles J. Mason, John E. Carlson, Ming Tien, Han Yi Chen, Scott Harding, Chung Jui Tsai, Kelli Hoover, 2018, Scientific Reports

Preliminary Genomic Characterization of Ten Hardwood Tree Species from Multiplexed Low Coverage Whole Genome Sequencing

Margaret Staton, Teodora Best, Sudhir Khodwekar, Sandra Owusu, Tao Xu, Yi Xu, Tara Jennings, Richard Cronn, A. Kathiravetpilla Arumuganathan, Mark Coggeshall, Oliver Gailing, Haiying Liang, Jeanne Romero-Severson, Scott Schlarbaum, John E. Carlson, 2015, PLoS One on p. 13