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Title: Genetical genomics of Populus leaf shape variation

Abstract

Leaf morphology varies extensively among plant species and is under strong genetic control. Mutagenic screens in model systems have identified genes and established molecular mechanisms regulating leaf initiation, development, and shape. However, it is not known whether this diversity across plant species is related to naturally occurring variation at these genes. Quantitative trait locus (QTL) analysis has revealed a polygenic control for leaf shape variation in different species suggesting that loci discovered by mutagenesis may only explain part of the naturally occurring variation in leaf shape. Here we undertook a genetical genomics study in a poplar intersectional pseudo-backcross pedigree to identify genetic factors controlling leaf shape. Here, the approach combined QTL discovery in a genetic linkage map anchored to the Populus trichocarpa reference genome sequence and transcriptome analysis.

Authors:
 [1];  [2];  [3];  [4];  [1];  [2];  [1]
  1. Univ. of Florida, Gainesville, FL (United States)
  2. Michigan Technological Univ., Houghton, MI (United States)
  3. Univ. of Florida, Gainesville, FL (United States); Univ. Federal de Goias, Goiania (Brazil)
  4. Univ. Federal de Goias, Goiania (Brazil); Univ. of Florida, Gainesville, FL (United States)
Publication Date:
Research Org.:
Univ. of Florida, Gainesville, FL (United States)
Sponsoring Org.:
USDOE
OSTI Identifier:
1494217
Alternate Identifier(s):
OSTI ID: 1452685
Grant/Contract Number:  
SC0003893; FG02-05ER64114
Resource Type:
Published Article
Journal Name:
BMC Plant Biology
Additional Journal Information:
Journal Volume: 15; Journal Issue: 1; Journal ID: ISSN 1471-2229
Publisher:
BioMed Central
Country of Publication:
United States
Language:
English
Subject:
59 BASIC BIOLOGICAL SCIENCES; Leaf morphology; QTL analysis; Expression QTL; Genomics; Populus trichocarpa; ADP-ribosylation factor

Citation Formats

Drost, Derek R., Puranik, Swati, Novaes, Evandro, Novaes, Carolina R. D. B., Dervinis, Christopher, Gailing, Oliver, and Kirst, Matias. Genetical genomics of Populus leaf shape variation. United States: N. p., 2015. Web. doi:10.1186/s12870-015-0557-7.
Drost, Derek R., Puranik, Swati, Novaes, Evandro, Novaes, Carolina R. D. B., Dervinis, Christopher, Gailing, Oliver, & Kirst, Matias. Genetical genomics of Populus leaf shape variation. United States. doi:10.1186/s12870-015-0557-7.
Drost, Derek R., Puranik, Swati, Novaes, Evandro, Novaes, Carolina R. D. B., Dervinis, Christopher, Gailing, Oliver, and Kirst, Matias. Tue . "Genetical genomics of Populus leaf shape variation". United States. doi:10.1186/s12870-015-0557-7.
@article{osti_1494217,
title = {Genetical genomics of Populus leaf shape variation},
author = {Drost, Derek R. and Puranik, Swati and Novaes, Evandro and Novaes, Carolina R. D. B. and Dervinis, Christopher and Gailing, Oliver and Kirst, Matias},
abstractNote = {Leaf morphology varies extensively among plant species and is under strong genetic control. Mutagenic screens in model systems have identified genes and established molecular mechanisms regulating leaf initiation, development, and shape. However, it is not known whether this diversity across plant species is related to naturally occurring variation at these genes. Quantitative trait locus (QTL) analysis has revealed a polygenic control for leaf shape variation in different species suggesting that loci discovered by mutagenesis may only explain part of the naturally occurring variation in leaf shape. Here we undertook a genetical genomics study in a poplar intersectional pseudo-backcross pedigree to identify genetic factors controlling leaf shape. Here, the approach combined QTL discovery in a genetic linkage map anchored to the Populus trichocarpa reference genome sequence and transcriptome analysis.},
doi = {10.1186/s12870-015-0557-7},
journal = {BMC Plant Biology},
number = 1,
volume = 15,
place = {United States},
year = {2015},
month = {6}
}

Journal Article:
Free Publicly Available Full Text
Publisher's Version of Record
DOI: 10.1186/s12870-015-0557-7

Citation Metrics:
Cited by: 12 works
Citation information provided by
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Works referenced in this record:

Generation of cell polarity in plants links endocytosis, auxin distribution and cell fate decisions
journal, October 2008

  • Dhonukshe, Pankaj; Tanaka, Hirokazu; Goh, Tatsuaki
  • Nature, Vol. 456, Issue 7224
  • DOI: 10.1038/nature07409

Coordinated Polar Localization of Auxin Efflux Carrier PIN1 by GNOM ARF GEF
journal, October 1999


Genetic Architecture of Transcript-Level Variation in Differentiating Xylem of a Eucalyptus Hybrid
journal, January 2005


Overexpression of a novel small peptide ROTUNDIFOLIA4 decreases cell proliferation and alters leaf shape in Arabidopsis thaliana
journal, May 2004


Polar PIN Localization Directs Auxin Flow in Plants
journal, May 2006


The Arabidopsis GNOM ARF-GEF Mediates Endosomal Recycling, Auxin Transport, and Auxin-Dependent Plant Growth
journal, January 2003


A developmental framework for dissected leaf formation in the Arabidopsis relative Cardamine hirsuta
journal, August 2008

  • Barkoulas, Michalis; Hay, Angela; Kougioumoutzi, Evagelia
  • Nature Genetics, Vol. 40, Issue 9
  • DOI: 10.1038/ng.189

Genetic architecture of spring and autumn phenology in Salix
journal, January 2014


TCP14 and TCP15 affect internode length and leaf shape in Arabidopsis
journal, July 2011


A cross-species transcriptomics approach to identify genes involved in leaf development
journal, January 2008


Regulation of phyllotaxis by polar auxin transport
journal, November 2003

  • Reinhardt, Didier; Pesce, Eva-Rachele; Stieger, Pia
  • Nature, Vol. 426, Issue 6964
  • DOI: 10.1038/nature02081

Cell Polarity Signaling in Arabidopsis Involves a BFA-Sensitive Auxin Influx Pathway
journal, February 2002


Diversity of leaf traits related to productivity in 31 Populus deltoides x Populus nigra clones
journal, April 2005


Phytozome: a comparative platform for green plant genomics
journal, November 2011

  • Goodstein, David M.; Shu, Shengqiang; Howson, Russell
  • Nucleic Acids Research, Vol. 40, Issue D1
  • DOI: 10.1093/nar/gkr944

Conservation and molecular dissection of ROUGH SHEATH2 and ASYMMETRIC LEAVES1 function in leaf development
journal, May 2003

  • Theodoris, G.; Inada, N.; Freeling, M.
  • Proceedings of the National Academy of Sciences, Vol. 100, Issue 11
  • DOI: 10.1073/pnas.1132113100

Genetic Dissection of Transcriptional Regulation in Budding Yeast
journal, March 2002


Combining mapping and arraying: An approach to candidate gene identification
journal, November 2002

  • Wayne, M. L.; McIntyre, L. M.
  • Proceedings of the National Academy of Sciences, Vol. 99, Issue 23
  • DOI: 10.1073/pnas.222549199

Quantitative genetic analysis of biomass and wood chemistry of Populus under different nitrogen levels
journal, March 2009


Exploiting Differential Gene Expression and Epistasis to Discover Candidate Genes for Drought-Associated QTLs in Arabidopsis thaliana
journal, April 2015

  • Lovell, John T.; Mullen, Jack L.; Lowry, David B.
  • The Plant Cell, Vol. 27, Issue 4
  • DOI: 10.1105/tpc.15.00122

Networks in leaf development
journal, February 2005


Quantitative Trait Loci Controlling Leaf and Tassel Traits in a B73 × Mo17 Population of Maize
journal, January 2002


Transcription regulation and animal diversity
journal, July 2003


Phenotypic plasticity, QTL mapping and genomic characterization of bud set in black poplar
journal, January 2012

  • Fabbrini, Francesco; Gaudet, Muriel; Bastien, Catherine
  • BMC Plant Biology, Vol. 12, Issue 1
  • DOI: 10.1186/1471-2229-12-47

Genetic control of soybean seed isoflavone content: importance of statistical model and epistasis in complex traits
journal, July 2009

  • Gutierrez-Gonzalez, Juan Jose; Wu, Xiaolei; Zhang, Juan
  • Theoretical and Applied Genetics, Vol. 119, Issue 6
  • DOI: 10.1007/s00122-009-1109-z

Molecular genetics of growth and Development in Populus (Salicaceae). V. Mapping quantitative trait loci affecting leaf variation
journal, February 1997

  • Wu, R.; Bradshaw, H. D.; Stettler, R. F.
  • American Journal of Botany, Vol. 84, Issue 2
  • DOI: 10.2307/2446076

Genetic Dissection of Leaf Development in Brassica rapa Using a Genetical Genomics Approach
journal, January 2014

  • Xiao, Dong; Wang, Huange; Basnet, Ram Kumar
  • Plant Physiology, Vol. 164, Issue 3
  • DOI: 10.1104/pp.113.227348

The Genome of Black Cottonwood, Populus trichocarpa (Torr. & Gray)
journal, September 2006


Theoretical basis for separation of multiple linked gene effects in mapping quantitative trait loci
journal, December 1993


Quantitative trait loci mapping of floral and leaf morphology traits in Arabidopsis thaliana : evidence for modular genetic architecture
journal, May 2005


Dissection of Arabidopsis ADP-RIBOSYLATION FACTOR 1 Function in Epidermal Cell Polarity
journal, January 2005


Brefeldin A Acts to Stabilize an Abortive ARF–GDP–Sec7 Domain Protein Complex
journal, March 1999


Survival of the flexible: hormonal growth control and adaptation in plant development
journal, May 2009

  • Wolters, Hanno; Jürgens, Gerd
  • Nature Reviews Genetics, Vol. 10, Issue 5
  • DOI: 10.1038/nrg2558

The genetic basis for differences in leaf form between Arabidopsis thaliana and its wild relative Cardamine hirsuta
journal, July 2006

  • Hay, Angela; Tsiantis, Miltos
  • Nature Genetics, Vol. 38, Issue 8
  • DOI: 10.1038/ng1835

Global eQTL Mapping Reveals the Complex Genetic Architecture of Transcript-Level Variation in Arabidopsis
journal, December 2006


Diversification in the genetic architecture of gene expression and transcriptional networks in organ differentiation of Populus
journal, April 2010

  • Drost, D. R.; Benedict, C. I.; Berg, A.
  • Proceedings of the National Academy of Sciences, Vol. 107, Issue 18, p. 8492-8497
  • DOI: 10.1073/pnas.0914709107

Genetic variation of leaf traits related to productivity in a Populus deltoides × Populus nigra family
journal, February 2006

  • Marron, Nicolas; Ceulemans, Reinhart
  • Canadian Journal of Forest Research, Vol. 36, Issue 2
  • DOI: 10.1139/x05-245

Genetics of gene expression surveyed in maize, mouse and man
journal, March 2003

  • Schadt, Eric E.; Monks, Stephanie A.; Drake, Thomas A.
  • Nature, Vol. 422, Issue 6929
  • DOI: 10.1038/nature01434

A procedure for mini-preparations of genomic DNA from needles of silver fir (Abies alba mill.)
journal, June 1993

  • Ziegenhagen, B.; Guillemaut, P.; Scholz, F.
  • Plant Molecular Biology Reporter, Vol. 11, Issue 2
  • DOI: 10.1007/BF02670469

Turning on ARF: the Sec7 family of guanine-nucleotide-exchange factors
journal, February 2000


Mechanism of Leaf-Shape Determination
journal, June 2006


Coordinated Genetic Regulation of Growth and Lignin Revealed by Quantitative Trait Locus Analysis of cDNA Microarray Data in an Interspecific Backcross of Eucalyptus
journal, August 2004

  • Kirst, Matias; Myburg, Alexander A.; De León, José P. G.
  • Plant Physiology, Vol. 135, Issue 4
  • DOI: 10.1104/pp.103.037960

The genetics and genomics of the drought response in Populus
journal, November 2006


Genetical genomics: the added value from segregation
journal, July 2001


ASYMMETRIC LEAVES1 , an Arabidopsis gene that is involved in the control of cell differentiation in leaves
journal, March 2002


Identifying the molecular basis of QTLs: eQTLs add a new dimension
journal, February 2008


Genetical Genomics Identifies the Genetic Architecture for Growth and Weevil Resistance in Spruce
journal, September 2012


Auxin transport inhibitors block PIN1 cycling and vesicle trafficking
journal, September 2001

  • Geldner, Niko; Friml, Jiří; Stierhof, York-Dieter
  • Nature, Vol. 413, Issue 6854
  • DOI: 10.1038/35096571

An integrative genomics approach to infer causal associations between gene expression and disease
journal, June 2005

  • Schadt, Eric E.; Lamb, John; Yang, Xia
  • Nature Genetics, Vol. 37, Issue 7
  • DOI: 10.1038/ng1589

Leaf characteristics reflect growth rates of 2-year-old Populus trees
journal, August 1997

  • Harrington, C. A.; Radwan, M. A.; DeBell, D. S.
  • Canadian Journal of Forest Research, Vol. 27, Issue 8
  • DOI: 10.1139/x97-087

Mechanisms of auxin-dependent cell and tissue polarity
journal, December 2007

  • Boutté, Yohann; Ikeda, Yoshihisa; Grebe, Markus
  • Current Opinion in Plant Biology, Vol. 10, Issue 6
  • DOI: 10.1016/j.pbi.2007.07.008

Auxin: A Trigger for Change in Plant Development
journal, March 2009


Control of leaf vascular patterning by polar auxin transport
journal, April 2006