Expression quantitative trait loci mapping identified PtrXB38 as a key hub gene in adventitious root development in Populus

Yao, Tao; Zhang, Jin; Yates, Timothy B.; Shrestha, Him K.; Engle, Nancy L.; Ployet, Raphael; John, Cai; Feng, Kai; Bewg, William Patrick; Chen, Margot S. S.; Lu, Haiwei; Harding, Scott A.; Qiao, Zhenzhen; Jawdy, Sara S.; Shu, Mengjun; Yuan, Wenya; Mozaffari, Khadijeh; Harman‐Ware, Anne E.; Happs, Renee M.; York, Larry M.; Binder, Brad M.; Yoshinaga, Yuko; Daum, Christopher; Tschaplinski, Timothy J.; Abraham, Paul E.; Tsai, Chung‐Jui; Barry, Kerrie; Lipzen, Anna; Schmutz, Jeremy; Tuskan, Gerald A.; Chen, Jin‐Gui; Muchero, Wellington

doi:10.1111/nph.19126

Title: Expression quantitative trait loci mapping identified PtrXB38 as a key hub gene in adventitious root development in Populus

Journal Article · Mon Jul 24 00:00:00 EDT 2023 · New Phytologist

DOI:https://doi.org/10.1111/nph.19126· OSTI ID:1992416

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^[2]; Yates, Timothy B. ^[3]; Shrestha, Him K. ^[4]; Engle, Nancy L. ^[1]; Ployet, Raphael ^[1]; John, Cai ^[3]; Feng, Kai ^[1]; Bewg, William Patrick ^[5]; Chen, Margot S. S. ^[6]; Lu, Haiwei ^[7]; Harding, Scott A. ^[6]; Qiao, Zhenzhen ^[8]; Jawdy, Sara S. ^[1]; Shu, Mengjun ^[1]; Yuan, Wenya ^[9]; Mozaffari, Khadijeh ^[6]; Harman‐Ware, Anne E. ^[10]; Happs, Renee M. ^[10];

^[1] more »

Biosciences Division Oak Ridge National Laboratory Oak Ridge TN 37831 USA, Center for Bioenergy Innovation Oak Ridge National Laboratory Oak Ridge TN 37831 USA
Biosciences Division Oak Ridge National Laboratory Oak Ridge TN 37831 USA, Center for Bioenergy Innovation Oak Ridge National Laboratory Oak Ridge TN 37831 USA, State Key Laboratory of Subtropical Silviculture, College of Forestry and Biotechnology Zhejiang A&,F University Hangzhou 311300 China
Biosciences Division Oak Ridge National Laboratory Oak Ridge TN 37831 USA, Center for Bioenergy Innovation Oak Ridge National Laboratory Oak Ridge TN 37831 USA, Bredesen Center for Interdisciplinary Research University of Tennessee Knoxville TN 37996 USA
Biosciences Division Oak Ridge National Laboratory Oak Ridge TN 37831 USA, Graduate School of Genome Science and Technology University of Tennessee Knoxville TN 37996 USA
Center for Bioenergy Innovation Oak Ridge National Laboratory Oak Ridge TN 37831 USA, Warnell School of Forestry and Natural Resources University of Georgia Athens GA 30602 USA, Department of Genetics University of Georgia Athens GA 30602 USA, Department of Plant Biology University of Georgia Athens GA 30602 USA
Warnell School of Forestry and Natural Resources University of Georgia Athens GA 30602 USA, Department of Genetics University of Georgia Athens GA 30602 USA, Department of Plant Biology University of Georgia Athens GA 30602 USA
Biosciences Division Oak Ridge National Laboratory Oak Ridge TN 37831 USA, Department of Academic Education Central Community College – Hastings Hastings NE 68902 USA
Biosciences Division Oak Ridge National Laboratory Oak Ridge TN 37831 USA
State Key Laboratory of Subtropical Silviculture, College of Forestry and Biotechnology Zhejiang A&,F University Hangzhou 311300 China
Center for Bioenergy Innovation Oak Ridge National Laboratory Oak Ridge TN 37831 USA, Renewable Resources and Enabling Sciences Center National Renewable Energy Laboratory Golden CO 80401 USA
Department of Biochemistry &, Cellular and Molecular Biology University of Tennessee Knoxville TN 37996 USA
US Department of Energy Joint Genome Institute, Lawrence Berkeley National Laboratory Berkeley CA 94720 USA
Center for Bioenergy Innovation Oak Ridge National Laboratory Oak Ridge TN 37831 USA, State Key Laboratory of Subtropical Silviculture, College of Forestry and Biotechnology Zhejiang A&,F University Hangzhou 311300 China
US Department of Energy Joint Genome Institute, Lawrence Berkeley National Laboratory Berkeley CA 94720 USA, HudsonAlpha Institute for Biotechnology Huntsville AL 35806 USA

Summary Plant establishment requires the formation and development of an extensive root system with architecture modulated by complex genetic networks. Here, we report the identification of the PtrXB38 gene as an expression quantitative trait loci (eQTL) hotspot, mapped using 390 leaf and 444 xylem Populus trichocarpa transcriptomes. Among predicted targets of this trans‐eQTL were genes involved in plant hormone responses and root development. Overexpression of PtrXB38 in Populus led to significant increases in callusing and formation of both stem‐born roots and base‐born adventitious roots. Omics studies revealed that genes and proteins controlling auxin transport and signaling were involved in PtrXB38‐mediated adventitious root formation. Protein–protein interaction assays indicated that PtrXB38 interacts with components of endosomal sorting complexes required for transport machinery, implying that PtrXB38‐regulated root development may be mediated by regulating endocytosis pathway. Taken together, this work identified a crucial root development regulator and sheds light on the discovery of other plant developmental regulators through combining eQTL mapping and omics approaches.

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Research Organization:: Oak Ridge National Laboratory (ORNL), Oak Ridge, TN (United States); Lawrence Berkeley National Laboratory (LBNL), Berkeley, CA (United States); National Renewable Energy Laboratory (NREL), Golden, CO (United States)

Sponsoring Organization:: USDOE Office of Science (SC), Biological and Environmental Research (BER); USDOE Office of Energy Efficiency and Renewable Energy (EERE), Office of Sustainable Transportation. Bioenergy Technologies Office (BETO)

Grant/Contract Number:: AC05-00OR22725; AC02- 05CH11231; AC36-08GO28308

OSTI ID:: 1992416

Alternate ID(s):: OSTI ID: 1992752; OSTI ID: 1995464; OSTI ID: 1995637

Report Number(s):: NREL/JA-2800-87173

Journal Information:: New Phytologist, Journal Name: New Phytologist Vol. 239 Journal Issue: 6; ISSN 0028-646X

Publisher:: Wiley-BlackwellCopyright Statement

Country of Publication:: United Kingdom

Language:: English

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Related Subjects

54 ENVIRONMENTAL SCIENCES
59 BASIC BIOLOGICAL SCIENCES
auxin signaling
developmental regulator
expression quantitative trait loci
eQTLs
populus
PtrXB38
stem-born root formation
expression quantitative trait loci (eQTLs)

Title: Expression quantitative trait loci mapping identified PtrXB38 as a key hub gene in adventitious root development in Populus

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