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 Institutes Affiliations


Most Recent Papers

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

Development of novel genic microsatellite markers from transcriptome sequencing in sugar maple (Acer saccharum Marsh.)

Monica Harmon, Thomas Lane, Margaret Staton, Mark V. Coggeshall, Teodora Best, Chien Chih Chen, Haiying Liang, Nicole Zembower, Daniela I. Drautz-Moses, Yap Zhei Hwee, Stephan C. Schuster, Scott E. Schlarbaum, John E. Carlson, Oliver Gailing, 2017, BMC Research Notes

Genome-wide association study identifies a major gene for beech bark disease resistance in American beech (Fagus grandifolia Ehrh.)

Irina Čalić, Jennifer Koch, David Carey, Charles Addo-Quaye, John E. Carlson, David B. Neale, 2017, BMC genomics

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

Construction of a Framework Genetic Linkage Map in Gleditsia triacanthos L

Oliver Gailing, Margaret E. Staton, Thomas Lane, Scott E. Schlarbaum, Rick Nipper, Sandra A. Owusu, John E. Carlson, 2017, Plant Molecular Biology Reporter on p. 177-187

Development of genic and genomic microsatellites in Gleditsia triacanthos L. (Fabaceae) using illumina sequencing

Yawen Wu, Ruhua Zhang, Margaret Staton, Scott E. Schlarbaum, Mark V. Coggeshall, Jeanne Romero-Severson, John E. Carlson, Nicole Zembower, Haiying Liang, Yi Xu, Daniela I. Drautz-Moses, Stephan C. Schuster, Oliver Gailing, 2017, Annals of Forest Research on p. 343-350

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

Pollen gene flow and molecular identification of full-sib families in small and isolated population fragments of Gleditsia triacanthos L

Sandra A. Owusu, Scott E. Schlarbaum, John E. Carlson, Oliver Gailing, 2016, Botany on p. 523-532

Genome sequence of fusarium isolate MYA-4552 from the midgut of Anoplophora glabripennis, an invasive, wood-boring beetle

Joshua R. Herr, Erin D. Scully, Scott M. Geib, Kelli Hoover, John E. Carlson, David M. Geiser, 2016, Genome Announcements

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

High-Impact Papers

The genome of Theobroma cacao

Xavier Argout, Jerome Salse, Jean Marc Aury, Mark J. Guiltinan, Gaetan Droc, Jerome Gouzy, Mathilde Allegre, Cristian Chaparro, Thierry Legavre, Siela N. Maximova, Michael Abrouk, Florent Murat, Olivier Fouet, Julie Poulain, Manuel Ruiz, Yolande Roguet, Maguy Rodier-Goud, Jose Fernandes Barbosa-Neto, Francois Sabot, Dave Kudrna, Jetty Siva S. Ammiraju, Stephan C. Schuster, John E. Carlson, Erika Sallet, Thomas Schiex, Anne Dievart, Melissa Kramer, Laura Gelley, Zi Shi, Aurélie Bérard, Christopher Viot, Michel Boccara, Ange Marie Risterucci, Valentin Guignon, Xavier Sabau, Michael J. Axtell, Zhaorong Ma, Yufan Zhang, Spencer Brown, Mickael Bourge, Wolfgang Golser, Xiang Song, Didier Clement, Ronan Rivallan, Mathias Tahi, Joseph Moroh Akaza, Bertrand Pitollat, Karina Gramacho, Anglique D'Hont, Dominique Brunel, Diogenes Infante, Ismael Kebe, Pierre Costet, Rod Wing, W. Richard McCombie, Emmanuel Guiderdoni, Francis Quetier, Olivier Panaud, Patrick Wincker, Stephanie Bocs, Claire Lanaud, 2011, Nature Genetics on p. 101-108

FLOWERING LOCUS T duplication coordinates reproductive and vegetative growth in perennial poplar

Chuan Yu Hsu, Joshua P. Adams, Hyejin Kim, Kyoungok No, Caiping Ma, Steven H. Strauss, Jenny Drnevich, Lindsay Vandervelde, Jeffrey D. Ellis, Brandon M. Rice, Norman Wickett, Lee E. Gunter, Gerald A. Tuskan, Amy M. Brunner, Grier P. Page, Abdelali Barakat, John E. Carlson, Claude W. DePamphilis, Dawn S. Luthe, Cetin Yuceer, 2011, Proceedings of the National Academy of Sciences of the United States of America on p. 10756-10761

Comparison of next generation sequencing technologies for transcriptome characterization

P. Kerr Wall, Jim Leebens-Mack, André S. Chanderbali, Abdelali Barakat, Erik Wolcott, Haiying Liang, Lena Landherr, Lynn P. Tomsho, Yi Hu, John E. Carlson, Hong Ma, Stephan C. Schuster, Douglas E. Soltis, Pamela S. Soltis, Naomi Altman, Claude W. de Pamphilis, 2009, BMC Genomics

Evolution of genome size and complexity in Pinus

Alison M. Morse, Daniel G. Peterson, M. Nurul Islam-Faridi, Katherine E. Smith, Zenaida Magbanua, Saul A. Garcia, Thomas L. Kubisiak, Henry V. Amerson, John E. Carlson, C. Dana Nelson, John M. Davis, 2009, PLoS One

The cinnamyl alcohol dehydrogenase gene family in Populus

Abdelali Barakat, Agnieszka Bagniewska-Zadworna, Alex Choi, Urmila Plakkat, Denis S. Diloreto, Priyadarshini Yellanki, John E. Carlson, 2009, BMC Plant Biology

Metagenomic Profiling Reveals Lignocellulose Degrading System in a Microbial Community Associated with a Wood-Feeding Beetle

Erin D. Scully, Scott M. Geib, Kelli Hoover, Ming Tien, Susannah G. Tringe, Kerrie W. Barry, Tijana Glavina del Rio, Mansi Chovatia, Joshua R. Herr, John E. Carlson, 2013, PLoS One

Effect of host tree species on cellulase activity and bacterial community composition in the gut of larval asian longhorned beetle

Scott M. Geib, Maria Del Mar Jimenez-Gasco, John E. Carlson, Ming Tien, Kelli Hoover, 2009, Environmental Entomology on p. 686-699

Populus euphratica

Sha Tang, Haiying Liang, Donghui Yan, Ying Zhao, Xiao Han, John E. Carlson, Xinli Xia, Weilun Yin, 2013, Plant molecular biology on p. 539-557

Genome and secretome analysis of the hemibiotrophic fungal pathogen, Moniliophthora roreri, which causes frosty pod rot disease of cacao

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

Phylogeny and expression profiling of CAD and CAD-like genes in hybrid Populus (P. deltoides × P. nigra)

Abdelali Barakat, Agnieszka Bagniewska-Zadworna, Christopher J. Frost, John E. Carlson, 2010, BMC Plant Biology