Expression profiles of cell-wall related genes vary broadly between two common maize inbreds during stem development
Abstract
The cellular machinery for cell wall synthesis and metabolism is encoded by members of large multi-gene families. Maize is both a genetic model for grass species and a potential source of lignocellulosic biomass from crop residues. Genetic improvement of maize for its utility as a bioenergy feedstock depends on identification of the specific gene family members expressed during secondary wall development in stems. High-throughput sequencing of transcripts expressed in developing rind tissues of stem internodes provided a comprehensive inventory of cell wall-related genes in maize (Zea mays, cultivar B73). Of 1239 of these genes, 854 were expressed among the internodes at =95 reads per 20 M, and 693 of them at =500 reads per 20 M. Grasses have cell wall compositions distinct from non-commelinid species; only one-quarter of maize cell wall-related genes expressed in stems were putatively orthologous with those of the eudicot Arabidopsis. Using a slope-metric algorithm, five distinct patterns for sub-sets of co-expressed genes were defined across a time course of stem development. For the subset of genes associated with secondary wall formation, fifteen sequence motifs were found in promoter regions. The same members of gene families were often expressed in two maize inbreds, B73 and Mo17, butmore »
- Authors:
-
- Purdue Univ., West Lafayette, IN (United States). Dept. of Botany & Plant Pathology; Purdue Univ., West Lafayette, IN (United States). Dept. of Biological Sciences; USDA-ARS, Wooster, OH (United States). Wheat Quality Research Unit
- Purdue Univ., West Lafayette, IN (United States). Dept. of Botany & Plant Pathology; Dept. de Alimentos e Nutrição Experimental, Sao Paulo (Brazil)
- Purdue Univ., West Lafayette, IN (United States). Dept. of Botany & Plant Pathology
- Purdue Univ., West Lafayette, IN (United States). Genomics Core Facility
- Purdue Univ., West Lafayette, IN (United States). Bioinformatics Core Facility; Cleveland Clinic, Cleveland, OH (United States). Dept. of Internal Medicine
- Dept. de Alimentos e Nutrição Experimental, Sao Paulo (Brazil); Purdue Univ., West Lafayette, IN (United States). Bioinformatics Core Facility
- National Renewable Energy Lab. (NREL), Golden, CO (United States). National Bioenergy Center; Los Alamos National Lab. (LANL), Los Alamos, NM (United States)
- National Renewable Energy Lab. (NREL), Golden, CO (United States). National Bioenergy Center
- Purdue Univ., West Lafayette, IN (United States). Dept. of Biological Sciences; Plant Center for Plant Biology, West Lafayette, IN (United States)
- Purdue Univ., West Lafayette, IN (United States). Dept. of Botany & Plant Pathology; Purdue Univ., West Lafayette, IN (United States). Dept. of Biological Sciences; Purdue Center for Plant Biology, West Lafayette, IN (United States)
- Publication Date:
- Research Org.:
- National Renewable Energy Lab. (NREL), Golden, CO (United States)
- Sponsoring Org.:
- USDOE Office of Science (SC), Biological and Environmental Research (BER) (SC-23); USDOE Office of Science (SC), Basic Energy Sciences (BES) (SC-22)
- OSTI Identifier:
- 1573961
- Report Number(s):
- NREL/JA-5100-74676
Journal ID: ISSN 1471-2164
- Grant/Contract Number:
- AC36-08GO28308
- Resource Type:
- Accepted Manuscript
- Journal Name:
- BMC Genomics
- Additional Journal Information:
- Journal Volume: 20; Journal Issue: 1; Journal ID: ISSN 1471-2164
- Publisher:
- Springer
- Country of Publication:
- United States
- Language:
- English
- Subject:
- 09 BIOMASS FUELS; Zea mays; maize; stem development; cell-wall biosynthesis; gene expression; transcript profiling; lignocellulosic biomass
Citation Formats
Penning, Bryan W., Shiga, Tânia M., Klimek, John F., SanMiguel, Philip J., Shreve, Jacob, Thimmapuram, Jyothi, Sykes, Robert W., Davis, Mark F., McCann, Maureen C., and Carpita, Nicholas C. Expression profiles of cell-wall related genes vary broadly between two common maize inbreds during stem development. United States: N. p., 2019.
Web. doi:10.1186/s12864-019-6117-z.
Penning, Bryan W., Shiga, Tânia M., Klimek, John F., SanMiguel, Philip J., Shreve, Jacob, Thimmapuram, Jyothi, Sykes, Robert W., Davis, Mark F., McCann, Maureen C., & Carpita, Nicholas C. Expression profiles of cell-wall related genes vary broadly between two common maize inbreds during stem development. United States. doi:10.1186/s12864-019-6117-z.
Penning, Bryan W., Shiga, Tânia M., Klimek, John F., SanMiguel, Philip J., Shreve, Jacob, Thimmapuram, Jyothi, Sykes, Robert W., Davis, Mark F., McCann, Maureen C., and Carpita, Nicholas C. Tue .
"Expression profiles of cell-wall related genes vary broadly between two common maize inbreds during stem development". United States. doi:10.1186/s12864-019-6117-z. https://www.osti.gov/servlets/purl/1573961.
@article{osti_1573961,
title = {Expression profiles of cell-wall related genes vary broadly between two common maize inbreds during stem development},
author = {Penning, Bryan W. and Shiga, Tânia M. and Klimek, John F. and SanMiguel, Philip J. and Shreve, Jacob and Thimmapuram, Jyothi and Sykes, Robert W. and Davis, Mark F. and McCann, Maureen C. and Carpita, Nicholas C.},
abstractNote = {The cellular machinery for cell wall synthesis and metabolism is encoded by members of large multi-gene families. Maize is both a genetic model for grass species and a potential source of lignocellulosic biomass from crop residues. Genetic improvement of maize for its utility as a bioenergy feedstock depends on identification of the specific gene family members expressed during secondary wall development in stems. High-throughput sequencing of transcripts expressed in developing rind tissues of stem internodes provided a comprehensive inventory of cell wall-related genes in maize (Zea mays, cultivar B73). Of 1239 of these genes, 854 were expressed among the internodes at =95 reads per 20 M, and 693 of them at =500 reads per 20 M. Grasses have cell wall compositions distinct from non-commelinid species; only one-quarter of maize cell wall-related genes expressed in stems were putatively orthologous with those of the eudicot Arabidopsis. Using a slope-metric algorithm, five distinct patterns for sub-sets of co-expressed genes were defined across a time course of stem development. For the subset of genes associated with secondary wall formation, fifteen sequence motifs were found in promoter regions. The same members of gene families were often expressed in two maize inbreds, B73 and Mo17, but levels of gene expression between them varied, with 30% of all genes exhibiting at least a 5-fold difference at any stage. Although presence-absence and copy-number variation might account for much of these differences, fold-changes of expression of a CADa and a FLA11 gene were attributed to polymorphisms in promoter response elements. Large genetic variation in maize as a species precludes the extrapolation of cell wall-related gene expression networks even from one common inbred line to another. Elucidation of genotype-specific expression patterns and their regulatory controls will be needed for association panels of inbreds and landraces to fully exploit genetic variation in maize and other bioenergy grass species.},
doi = {10.1186/s12864-019-6117-z},
journal = {BMC Genomics},
number = 1,
volume = 20,
place = {United States},
year = {2019},
month = {10}
}
Works referenced in this record:
Biomass recalcitrance: a multi-scale, multi-factor, and conversion-specific property: Fig. 1.
journal, June 2015
- McCann, Maureen C.; Carpita, Nicholas C.
- Journal of Experimental Botany, Vol. 66, Issue 14
Investigation of the Presence of Phenolic Compounds in Monocotyledonous Cell Walls, using UV Fluorescence Microscopy
journal, November 1994
- Rudall, P.
- Annals of Botany, Vol. 74, Issue 5
Identification of Novel Genes in Arabidopsis Involved in Secondary Cell Wall Formation Using Expression Profiling and Reverse Genetics
journal, June 2005
- Brown, David M.; Zeef, Leo A. H.; Ellis, Joanne
- The Plant Cell, Vol. 17, Issue 8
Genome-wide transcriptome analysis of the transition from primary to secondary stem development in Populus trichocarpa
journal, January 2010
- Dharmawardhana, Palitha; Brunner, Amy M.; Strauss, Steven H.
- BMC Genomics, Vol. 11, Issue 1
Comparative interrogation of the developing xylem transcriptomes of two wood-forming species: Populus trichocarpa and Eucalyptus grandis
journal, February 2015
- Hefer, Charles A.; Mizrachi, Eshchar; Myburg, Alexander A.
- New Phytologist, Vol. 206, Issue 4
Dynamics of biomass partitioning, stem gene expression, cell wall biosynthesis, and sucrose accumulation during development of Sorghum bicolor
journal, September 2016
- McKinley, Brian; Rooney, William; Wilkerson, Curtis
- The Plant Journal, Vol. 88, Issue 4
The Sorghum bicolor reference genome: improved assembly, gene annotations, a transcriptome atlas, and signatures of genome organization
journal, December 2017
- McCormick, Ryan F.; Truong, Sandra K.; Sreedasyam, Avinash
- The Plant Journal, Vol. 93, Issue 2
Genomics of plant cell wall biogenesis
journal, June 2005
- Yong, Weidong; Link, Bruce; O’Malley, Ronan
- Planta, Vol. 221, Issue 6
Genetic Resources for Maize Cell Wall Biology
journal, November 2009
- Penning, Bryan W.; Hunter, Charles T.; Tayengwa, Reuben
- Plant Physiology, Vol. 151, Issue 4
Patterns of DNA sequence polymorphism along chromosome 1 of maize (Zea mays ssp. mays L.)
journal, July 2001
- Tenaillon, M. I.; Sawkins, M. C.; Long, A. D.
- Proceedings of the National Academy of Sciences, Vol. 98, Issue 16
Maize Inbreds Exhibit High Levels of Copy Number Variation (CNV) and Presence/Absence Variation (PAV) in Genome Content
journal, November 2009
- Springer, Nathan M.; Ying, Kai; Fu, Yan
- PLoS Genetics, Vol. 5, Issue 11
Genetic Determinants for Enzymatic Digestion of Lignocellulosic Biomass Are Independent of Those for Lignin Abundance in a Maize Recombinant Inbred Population
journal, June 2014
- Penning, Bryan W.; Sykes, Robert W.; Babcock, Nicholas C.
- Plant Physiology, Vol. 165, Issue 4
Complementation contributes to transcriptome complexity in maize (Zea mays L.) hybrids relative to their inbred parents
journal, October 2012
- Paschold, A.; Jia, Y.; Marcon, C.
- Genome Research, Vol. 22, Issue 12
Genome-wide atlas of transcription during maize development
journal, March 2011
- Sekhon, Rajandeep S.; Lin, Haining; Childs, Kevin L.
- The Plant Journal, Vol. 66, Issue 4, p. 553-563
COBRA encodes a putative GPI-anchored protein, which is polarly localized and necessary for oriented cell expansion in Arabidopsis
journal, May 2001
- Schindelman, G.
- Genes & Development, Vol. 15, Issue 9
COBRA, an Arabidopsis Extracellular Glycosyl-Phosphatidyl Inositol-Anchored Protein, Specifically Controls Highly Anisotropic Expansion through Its Involvement in Cellulose Microfibril Orientation
journal, April 2005
- Roudier, François; Fernandez, Anita G.; Fujita, Miki
- The Plant Cell, Vol. 17, Issue 6
Maize Brittle stalk2 Encodes a COBRA-Like Protein Expressed in Early Organ Development But Required for Tissue Flexibility at Maturity
journal, October 2007
- Sindhu, Anoop; Langewisch, Tiffany; Olek, Anna
- Plant Physiology, Vol. 145, Issue 4
A plasma membrane-bound putative endo-1,4-beta -D-glucanase is required for normal wall assembly and cell elongation in Arabidopsis
journal, October 1998
- Nicol, F.
- The EMBO Journal, Vol. 17, Issue 19
Endo-(1,4)-β-Glucanase gene families in the grasses: temporal and spatial Co-transcription of orthologous genes1
journal, January 2012
- Buchanan, Margaret; Burton, Rachel A.; Dhugga, Kanwarpal S.
- BMC Plant Biology, Vol. 12, Issue 1
Structural models of primary cell walls in flowering plants: consistency of molecular structure with the physical properties of the walls during growth
journal, January 1993
- Carpita, Nicholas C.; Gibeaut, David M.
- The Plant Journal, Vol. 3, Issue 1
Characterization of IRX10 and IRX10-like reveals an essential role in glucuronoxylan biosynthesis in Arabidopsis
journal, February 2009
- Brown, David M.; Zhang, Zhinong; Stephens, Elaine
- The Plant Journal, Vol. 57, Issue 4
O-Acetylation of Plant Cell Wall Polysaccharides
journal, January 2012
- Gille, Sascha; Pauly, Markus
- Frontiers in Plant Science, Vol. 3
Two Trichome Birefringence-Like Proteins Mediate Xylan Acetylation, Which Is Essential for Leaf Blight Resistance in Rice
journal, November 2016
- Gao, Yaping; He, Congwu; Zhang, Dongmei
- Plant Physiology, Vol. 173, Issue 1
Grass cell wall feruloylation: distribution of bound ferulate and candidate gene expression in Brachypodium distachyon
journal, January 2013
- Molinari, Hugo B. C.; Pellny, Till K.; Freeman, Jackie
- Frontiers in Plant Science, Vol. 4
Arabidopsis Deficient in Cutin Ferulate Encodes a Transferase Required for Feruloylation of ω-Hydroxy Fatty Acids in Cutin Polyester
journal, December 2011
- Rautengarten, Carsten; Ebert, Berit; Ouellet, Mario
- Plant Physiology, Vol. 158, Issue 2
The polysaccharide composition of Poales cell walls
journal, January 1999
- Smith, Bronwen G.; Harris, Philip J.
- Biochemical Systematics and Ecology, Vol. 27, Issue 1
Cell Wall Architecture of the Elongating Maize Coleoptile
journal, October 2001
- Carpita, Nicholas C.; Defernez, Marianne; Findlay, Kim
- Plant Physiology, Vol. 127, Issue 2
Neural Network Analyses of Infrared Spectra for Classifying Cell Wall Architectures
journal, January 2007
- McCann, Maureen C.; Defernez, Marianne; Urbanowicz, Breeanna R.
- Plant Physiology, Vol. 143, Issue 3
Abundance of mixed linkage glucan in mature tissues and secondary cell walls of grasses
journal, February 2013
- Vega-Sanchez, Miguel; Verhertbruggen, Yves; Scheller, Henrik Vibe
- Plant Signaling & Behavior, Vol. 8, Issue 2
Pectin RG-I rhamnosyltransferases represent a novel plant-specific glycosyltransferase family
journal, August 2018
- Takenaka, Yuto; Kato, Kohei; Ogawa-Ohnishi, Mari
- Nature Plants, Vol. 4, Issue 9
Identification of an additional protein involved in mannan biosynthesis
journal, October 2012
- Wang, Yan; Mortimer, Jennifer C.; Davis, Jonathan
- The Plant Journal, Vol. 73, Issue 1
A DUF-246 family glycosyltransferase-like gene affects male fertility and the biosynthesis of pectic arabinogalactans
journal, April 2016
- Stonebloom, Solomon; Ebert, Berit; Xiong, Guangyan
- BMC Plant Biology, Vol. 16, Issue 1
Loosening of plant cell walls by expansins
journal, September 2000
- Cosgrove, Daniel J.
- Nature, Vol. 407, Issue 6802
The XTH Family of Enzymes Involved in Xyloglucan Endotransglucosylation and Endohydrolysis: Current Perspectives and a New Unifying Nomenclature
journal, December 2002
- Rose, Jocelyn K. C.; Braam, Janet; Fry, Stephen C.
- Plant and Cell Physiology, Vol. 43, Issue 12
Promzea: a pipeline for discovery of co-regulatory motifs in maize and other plant species and its application to the anthocyanin and phlobaphene biosynthetic pathways and the Maize Development Atlas
journal, January 2013
- Liseron-Monfils, Christophe; Lewis, Tim; Ashlock, Daniel
- BMC Plant Biology, Vol. 13, Issue 1
STAMP: a web tool for exploring DNA-binding motif similarities
journal, May 2007
- Mahony, S.; Benos, P. V.
- Nucleic Acids Research, Vol. 35, Issue Web Server
PlantPAN3.0: a new and updated resource for reconstructing transcriptional regulatory networks from ChIP-seq experiments in plants
journal, November 2018
- Chow, Chi-Nga; Lee, Tzong-Yi; Hung, Yu-Cheng
- Nucleic Acids Research, Vol. 47, Issue D1
The myb-homologous P gene controls phlobaphene pigmentation in maize floral organs by directly activating a flavonoid biosynthetic gene subset
journal, February 1994
- Grotewold, Erich; Drummond, Bruce J.; Bowen, Ben
- Cell, Vol. 76, Issue 3
Characterisation of a pine MYB that regulates lignification
journal, December 2003
- Patzlaff, Astrid; McInnis, Stephanie; Courtenay, Adrian
- The Plant Journal, Vol. 36, Issue 6
Characterisation of PtMYB1, an R2R3-MYB from pine xylem
journal, November 2003
- Patzlaff, Astrid; Newman, Lisa J.; Dubos, Christian
- Plant Molecular Biology, Vol. 53, Issue 4
A cis-element containing PAL-box functions in the expression of the wound-inducible peroxidase gene of horseradish
journal, May 2000
- Kaothien, P.; Shimokawatoko, Y.; Kawaoka, A.
- Plant Cell Reports, Vol. 19, Issue 6
Functional analysis of tobacco LIM protein Ntlim1 involved in lignin biosynthesis
journal, May 2000
- Kawaoka, Akiyoshi; Kaothien, Pulla; Yoshida, Kazuya
- The Plant Journal, Vol. 22, Issue 4
The orientation of transcription factor binding site motifs in gene promoter regions: does it matter?
journal, March 2016
- Lis, Monika; Walther, Dirk
- BMC Genomics, Vol. 17, Issue 1
Structure, organization and evolution of ADP-ribosylation factors in rice and foxtail millet and their expression in rice
journal, April 2016
- Muthamilarasan, Mehanathan; Mangu, Venkata R.; Zandkarimi, Hana
- Scientific Reports, Vol. 6, Issue 1
Identification of Gene Modules Associated with Drought Response in Rice by Network-Based Analysis
journal, May 2012
- Zhang, Lida; Yu, Shunwu; Zuo, Kaijing
- PLoS ONE, Vol. 7, Issue 5
Functional characterization of drought-responsive modules and genes in Oryza sativa: a network-based approach
journal, July 2015
- Sircar, Sanchari; Parekh, Nita
- Frontiers in Genetics, Vol. 6
Regulation of plant biomass production
journal, June 2010
- Demura, Taku; Ye, Zheng-Hua
- Current Opinion in Plant Biology, Vol. 13, Issue 3
Evolutionary conservation of the transcriptional network regulating secondary cell wall biosynthesis
journal, November 2010
- Zhong, Ruiqin; Lee, Chanhui; Ye, Zheng-Hua
- Trends in Plant Science, Vol. 15, Issue 11, p. 625-632
Transcriptional networks for lignin biosynthesis: more complex than we thought?
journal, April 2011
- Zhao, Qiao; Dixon, Richard A.
- Trends in Plant Science, Vol. 16, Issue 4, p. 227-233
Tracing Cell Wall Biogenesis in Intact Cells and Plants: Selective Turnover and Alteration of Soluble and Cell Wall Polysaccharides in Grasses
journal, October 1991
- Gibeaut, David M.; Carpita, Nicholas C.
- Plant Physiology, Vol. 97, Issue 2
Genetic variation and breeding strategies for improved cell wall digestibility in annual forage crops. A review
journal, May 2003
- Barrière, Yves; Guillet, Carine; Goffner, Deborah
- Animal Research, Vol. 52, Issue 3
Modifying crops to increase cell wall digestibility
journal, April 2012
- Jung, Hans-Joachim G.; Samac, Deborah A.; Sarath, Gautam
- Plant Science, Vol. 185-186
Improvement of biomass through lignin modification
journal, May 2008
- Li, Xu; Weng, Jing-Ke; Chapple, Clint
- The Plant Journal, Vol. 54, Issue 4
Enhancing cellulose utilization for fuels and chemicals by genetic modification of plant cell wall architecture
journal, April 2015
- Vermerris, Wilfred; Abril, Alejandra
- Current Opinion in Biotechnology, Vol. 32
Sugar release and growth of biofuel crops are improved by downregulation of pectin biosynthesis
journal, February 2018
- Biswal, Ajaya K.; Atmodjo, Melani A.; Li, Mi
- Nature Biotechnology, Vol. 36, Issue 3
Three Distinct Rice Cellulose Synthase Catalytic Subunit Genes Required for Cellulose Synthesis in the Secondary Wall
journal, August 2003
- Tanaka, Katsuyuki; Murata, Kazumasa; Yamazaki, Muneo
- Plant Physiology, Vol. 133, Issue 1
Cellulose synthesis in maize: isolation and expression analysis of the cellulose synthase (CesA) gene family
journal, September 2004
- Appenzeller, Laura; Doblin, Monika; Barreiro, Roberto
- Cellulose, Vol. 11, Issue 3/4
Cellulose biosynthesis and deposition in higher plants
journal, April 2008
- Taylor, Neil G.
- New Phytologist, Vol. 178, Issue 2
Catalytic Subunit Stoichiometry within the Cellulose Synthase Complex
journal, October 2014
- Gonneau, Martine; Desprez, Thierry; Guillot, Alain
- Plant Physiology, Vol. 166, Issue 4
The Arabidopsis Cellulose Synthase Complex: A Proposed Hexamer of CESA Trimers in an Equimolar Stoichiometry
journal, December 2014
- Hill, Joseph L.; Hammudi, Mustafa B.; Tien, Ming
- The Plant Cell, Vol. 26, Issue 12
Cellulose Synthase Stoichiometry in Aspen Differs from Arabidopsis and Norway Spruce
journal, May 2018
- Zhang, Xueyang; Dominguez, Pia Guadalupe; Kumar, Manoj
- Plant Physiology, Vol. 177, Issue 3
Glycome and Proteome Components of Golgi Membranes Are Common between Two Angiosperms with Distinct Cell-Wall Structures
journal, March 2019
- Okekeogbu, Ikenna O.; Pattathil, Sivakumar; González Fernández-Niño, Susana M.
- The Plant Cell, Vol. 31, Issue 5
Arabidopsis irregular xylem8 and irregular xylem9 : Implications for the Complexity of Glucuronoxylan Biosynthesis
journal, February 2007
- Peña, Maria J.; Zhong, Ruiqin; Zhou, Gong-Ke
- The Plant Cell, Vol. 19, Issue 2
Comparison of five xylan synthesis mutants reveals new insight into the mechanisms of xylan synthesis
journal, December 2007
- Brown, David M.; Goubet, Florence; Wong, Vicky W.
- The Plant Journal, Vol. 52, Issue 6
The Arabidopsis IRX10 and IRX10-LIKE glycosyltransferases are critical for glucuronoxylan biosynthesis during secondary cell wall formation
journal, February 2009
- Wu, Ai-Min; Rihouey, Christophe; Seveno, Martial
- The Plant Journal, Vol. 57, Issue 4
Glycosyl transferases in family 61 mediate arabinofuranosyl transfer onto xylan in grasses
journal, January 2012
- Anders, N.; Wilkinson, M. D.; Lovegrove, A.
- Proceedings of the National Academy of Sciences, Vol. 109, Issue 3
XAX1 from glycosyltransferase family 61 mediates xylosyltransfer to rice xylan
journal, October 2012
- Chiniquy, D.; Sharma, V.; Schultink, A.
- Proceedings of the National Academy of Sciences, Vol. 109, Issue 42
Remarkable variation in maize genome structure inferred from haplotype diversity at the bz locus
journal, November 2006
- Wang, Q.; Dooner, H. K.
- Proceedings of the National Academy of Sciences, Vol. 103, Issue 47
Pervasive gene content variation and copy number variation in maize and its undomesticated progenitor
journal, October 2010
- Swanson-Wagner, R. A.; Eichten, S. R.; Kumari, S.
- Genome Research, Vol. 20, Issue 12
Nonsyntenic Genes Drive Highly Dynamic Complementation of Gene Expression in Maize Hybrids
journal, October 2014
- Paschold, Anja; Larson, Nick B.; Marcon, Caroline
- The Plant Cell, Vol. 26, Issue 10
Nonsyntenic genes drive tissue-specific dynamics of differential, nonadditive and allelic expression patterns in maize hybrids
journal, April 2016
- Baldauf, Jutta; Marcon, Caroline; Paschold, Anja
- Plant Physiology
Identification and characterization of presence/absence variation in maize genotype Mo17
journal, April 2015
- Jiang, Lu; Lv, Yuanda; Li, Tan
- Genes & Genomics, Vol. 37, Issue 6
Gene duplication and exon shuffling by helitron-like transposons generate intraspecies diversity in maize
journal, July 2005
- Morgante, Michele; Brunner, Stephan; Pea, Giorgio
- Nature Genetics, Vol. 37, Issue 9
High-resolution genetic mapping of maize pan-genome sequence anchors
journal, April 2015
- Lu, Fei; Romay, Maria C.; Glaubitz, Jeffrey C.
- Nature Communications, Vol. 6, Issue 1
Comprehensive genotyping of the USA national maize inbred seed bank
journal, June 2013
- Romay, Maria C.; Millard, Mark J.; Glaubitz, Jeffrey C.
- Genome Biology, Vol. 14, Issue 6
Genome-wide association study of leaf architecture in the maize nested association mapping population
journal, January 2011
- Tian, Feng; Bradbury, Peter J.; Brown, Patrick J.
- Nature Genetics, Vol. 43, Issue 2
The Genetic Architecture of Maize Flowering Time
journal, August 2009
- Buckler, E. S.; Holland, J. B.; Bradbury, P. J.
- Science, Vol. 325, Issue 5941, p. 714-718
The Genetic Architecture Of Maize Height
journal, February 2014
- Peiffer, Jason A.; Romay, Maria C.; Gore, Michael A.
- Genetics, Vol. 196, Issue 4
Validation of PyMBMS as a High-throughput Screen for Lignin Abundance in Lignocellulosic Biomass of Grasses
journal, January 2014
- Penning, Bryan W.; Sykes, Robert W.; Babcock, Nicholas C.
- BioEnergy Research, Vol. 7, Issue 3
Ultrafast and memory-efficient alignment of short DNA sequences to the human genome
journal, January 2009
- Langmead, Ben; Trapnell, Cole; Pop, Mihai
- Genome Biology, Vol. 10, Issue 3
The developmental dynamics of the maize leaf transcriptome
journal, October 2010
- Li, Pinghua; Ponnala, Lalit; Gandotra, Neeru
- Nature Genetics, Vol. 42, Issue 12, p. 1060-1067
Characterizing Regulatory and Functional Differentiation between Maize Mesophyll and Bundle Sheath Cells by Transcriptomic Analysis
journal, July 2012
- Chang, Yao-Ming; Liu, Wen-Yu; Shih, Arthur Chun-Chieh
- Plant Physiology, Vol. 160, Issue 1
Genesis: cluster analysis of microarray data
journal, January 2002
- Sturn, A.; Quackenbush, J.; Trajanoski, Z.
- Bioinformatics, Vol. 18, Issue 1
edgeR: a Bioconductor package for differential expression analysis of digital gene expression data
journal, November 2009
- Robinson, M. D.; McCarthy, D. J.; Smyth, G. K.
- Bioinformatics, Vol. 26, Issue 1
Multiple sequence alignment with the Clustal series of programs
journal, July 2003
- Chenna, R.
- Nucleic Acids Research, Vol. 31, Issue 13
TreeDyn: towards dynamic graphics and annotations for analyses of trees
journal, October 2006
- Chevenet, François; Brun, Christine; Bañuls, Anne-Laure
- BMC Bioinformatics, Vol. 7, Issue 1
Works referencing / citing this record:
MOESM10 of Expression profiles of cell-wall related genes vary broadly between two common maize inbreds during stem development
text, January 2019
- Penning, Bryan; Shiga, TâNia; Klimek, John
- figshare
MOESM12 of Expression profiles of cell-wall related genes vary broadly between two common maize inbreds during stem development
text, January 2019
- Penning, Bryan; Shiga, TâNia; Klimek, John
- figshare
MOESM13 of Expression profiles of cell-wall related genes vary broadly between two common maize inbreds during stem development
text, January 2019
- Penning, Bryan; Shiga, TâNia; Klimek, John
- figshare
MOESM2 of Expression profiles of cell-wall related genes vary broadly between two common maize inbreds during stem development
text, January 2019
- Penning, Bryan; Shiga, TâNia; Klimek, John
- figshare
MOESM4 of Expression profiles of cell-wall related genes vary broadly between two common maize inbreds during stem development
text, January 2019
- Penning, Bryan; Shiga, TâNia; Klimek, John
- figshare
MOESM6 of Expression profiles of cell-wall related genes vary broadly between two common maize inbreds during stem development
text, January 2019
- Penning, Bryan; Shiga, TâNia; Klimek, John
- figshare
MOESM7 of Expression profiles of cell-wall related genes vary broadly between two common maize inbreds during stem development
text, January 2019
- Penning, Bryan; Shiga, TâNia; Klimek, John
- figshare
MOESM8 of Expression profiles of cell-wall related genes vary broadly between two common maize inbreds during stem development
text, January 2019
- Penning, Bryan; Shiga, TâNia; Klimek, John
- figshare
MOESM9 of Expression profiles of cell-wall related genes vary broadly between two common maize inbreds during stem development
text, January 2019
- Penning, Bryan; Shiga, TâNia; Klimek, John
- figshare
MOESM10 of Expression profiles of cell-wall related genes vary broadly between two common maize inbreds during stem development
text, January 2019
- Penning, Bryan; Shiga, TâNia; Klimek, John
- figshare
MOESM12 of Expression profiles of cell-wall related genes vary broadly between two common maize inbreds during stem development
text, January 2019
- Penning, Bryan; Shiga, TâNia; Klimek, John
- figshare
MOESM13 of Expression profiles of cell-wall related genes vary broadly between two common maize inbreds during stem development
text, January 2019
- Penning, Bryan; Shiga, TâNia; Klimek, John
- figshare
MOESM2 of Expression profiles of cell-wall related genes vary broadly between two common maize inbreds during stem development
text, January 2019
- Penning, Bryan; Shiga, TâNia; Klimek, John
- figshare
MOESM4 of Expression profiles of cell-wall related genes vary broadly between two common maize inbreds during stem development
text, January 2019
- Penning, Bryan; Shiga, TâNia; Klimek, John
- figshare
MOESM6 of Expression profiles of cell-wall related genes vary broadly between two common maize inbreds during stem development
text, January 2019
- Penning, Bryan; Shiga, TâNia; Klimek, John
- figshare
MOESM7 of Expression profiles of cell-wall related genes vary broadly between two common maize inbreds during stem development
text, January 2019
- Penning, Bryan; Shiga, TâNia; Klimek, John
- figshare
MOESM8 of Expression profiles of cell-wall related genes vary broadly between two common maize inbreds during stem development
text, January 2019
- Penning, Bryan; Shiga, TâNia; Klimek, John
- figshare
MOESM9 of Expression profiles of cell-wall related genes vary broadly between two common maize inbreds during stem development
text, January 2019
- Penning, Bryan; Shiga, TâNia; Klimek, John
- figshare