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The B73 maize genome: complexity, diversity, and dynamics

Authors :
Kristi Collura
Nay Thane
Sanzhen Liu
Sharon Wei
Joshua C. Stein
Jason Waligorski
Shanmugam Rajasekar
Robert A. Martienssen
Patrick S. Schnable
Marc Cotton
Georgina Lopez
R. Kelly Dawe
Jennifer Sgro
Krista Delaney
Linda McMahan
Krishna L. Kanchi
Qi Sun
Jeffrey L. Bennetzen
Asif T. Chinwalla
Zhijie Liu
Gernot G. Presting
Jennifer S. Hodges
Jianwei Zhang
Doreen Ware
William Spooner
Melissa Kramer
Stephanie Muller
Kelly Mead
Jeffrey A. Jeddeloh
Peter Van Buren
W. Richard McCombie
Thomas J. Wang
Stephanie M. Jackson
Beth Miller
Ananth Kalyanaraman
Wolfgang Golser
Rene Lomeli
Aswathy Sebastian
Ara Ko
Alan M. Myers
Carol Soderlund
Kai Ying
Thomas K. Wolfgruber
Lixing Yang
Sunita Kumari
Yujun Han
Jayson Talag
John D. Nguyen
Shawn Leonard
Shiran Pasternak
Chad Tomlinson
Barbara Gillam
Angelina Angelova
Weizu Chen
Bryan W. Penning
Catrina Fronick
Apurva Narechania
Zeljko Dujmic
Matt Cordes
Tina Graves
Cheng Ting Yeh
Jennifer Currie
Michael S. Waterman
Seunghee Lee
Amy Denise Reily
Sandra W. Clifton
Jean-Marc Deragon
Matthew W. Vaughn
Jessica Ruppert
Chengzhi Liang
Dan Nettleton
Maureen C. McCann
Michele Braidotti
Scott Kruchowski
Shiguo Zhou
Ning Jiang
Feiyu Du
Cindy Strong
Thomas P. Brutnell
Scott J. Emrich
Nicholas C. Carpita
Michael J. Levy
Srinivas Aluru
Yi Jia
Liya Ren
Laura Courtney
Teri Mueller
Ruifeng He
Marco Cardenas
Fusheng Wei
Brandon Delgado
Lalit Ponnala
Robert S. Fulton
Elizabeth Applebaum
Jinke Lin
Kevin L. Schneider
Le Yan
Kelsi Rotter
Ben Faga
Susan M. Rock
Elizabeth Ingenthron
Adam Scimone
Andrea Zuccolo
Cristian Chaparro
Neha Shah
Qihui Zhu
Hye-Ran Lee
Richard P. Westerman
Chuanzhu Fan
Dave Kudrna
Rachel Abbott
Lidia Nascimento
Jer Ming Chia
Kerri Ochoa
Lindsey Phelps
Elizabeth Ashley
Damon Lisch
Lucinda Fulton
Gabriel Scara
Bill Courtney
Lori Spiegel
Kim D. Delehaunty
Anupma Sharma
Andrew Levy
Hyeran Kim
Richard K. Wilson
Patrick Minx
Rod A. Wing
Phillip SanMiguel
An-Ping Hsia
Yan Fu
Kyung Kim
Nathan M. Springer
Regina S. Baucom
Woojin Kim
Jason Falcone
Pinghua Li
David C. Schwartz
W. Brad Barbazuk
Jamey Higginbotham
Susan R. Wessler
T. K. Thane
Jessica Henke
Hao Wang
Jiming Jiang
Yeisoo Yu
Sara Kohlberg
Claude Ambroise
Kevin Crouse
Theresa Zutavern
Pamela Marchetto
David Campos
Lifang Zhang
James C. Estill
Dawn H. Nagel
Marina Wissotski
Eddie Belter
Center for Plant Genomics
Iowa State University (ISU)
Cold Spring Harbor Laboratory (CSHL)
Department of Genetics [Saint-Louis]
Washington University in Saint Louis (WUSTL)
Ecology and Evolutionary Biology [Tucson] (EEB)
University of Arizona
Department of Genetics, Development, and Cell Biology
Department of Electrical and Computer Engineering [Iowa]
University of Iowa [Iowa City]
University of Florida [Gainesville] (UF)
Department of Genetics
University of Georgia [USA]
Cornell University [New York]
Department of Botany and Plant Pathology
Purdue University [West Lafayette]
Laboratoire Génome et développement des plantes (LGDP)
Université de Perpignan Via Domitia (UPVD)-Centre National de la Recherche Scientifique (CNRS)
Department of Agronomy
NimbleGen
Department of Horticulture
Michigan State University [East Lansing]
Michigan State University System-Michigan State University System
Lawrence Berkeley National Laboratory [Berkeley] (LBNL)
Department of Biological Sciences [West Lafayette]
Department of plant Biology
Source :
Science, Science, American Association for the Advancement of Science, 2009, 326 (5956), pp.1112-5. ⟨10.1126/science.1178534⟩
Publication Year :
2009
Publisher :
HAL CCSD, 2009.

Abstract

A-Maize-ing Maize is one of our oldest and most important crops, having been domesticated approximately 9000 years ago in central Mexico. Schnable et al. (p. 1112 ; see the cover) present the results of sequencing the B73 inbred maize line. The findings elucidate how maize became diploid after an ancestral doubling of its chromosomes and reveals transposable element movement and activity and recombination. Vielle-Calzada et al. (p. 1078 ) have sequenced the Palomero Toluqueño ( Palomero ) landrace, a highland popcorn from Mexico, which, when compared to the B73 line, reveals multiple loci impacted by domestication. Swanson-Wagner et al. (p. 1118 ) exploit possession of the genome to analyze expression differences occurring between lines. The identification of single nucleotide polymorphisms and copy number variations among lines was used by Gore et al. (p. 1115 ) to generate a Haplotype map of maize. While chromosomal diversity in maize is high, it is likely that recombination is the major force affecting the levels of heterozygosity in maize. The availability of the maize genome will help to guide future agricultural and biofuel applications (see the Perspective by Feuillet and Eversole ).

Subjects

Subjects :
0106 biological sciences
MESH: Genome, Plant
MESH: Sequence Analysis, DNA
MESH: Zea mays
MESH: Base Sequence
MESH: RNA, Plant
[SDV.BID.SPT]Life Sciences [q-bio]/Biodiversity/Systematics, Phylogenetics and taxonomy
01 natural sciences
Genome
Divergence
MESH: Ploidies
MESH: DNA Methylation
MESH: Genes, Plant
Nested association mapping
Copy-number variation
MESH: Genetic Variation
MESH: Chromosomes, Plant
2. Zero hunger
Genetics
0303 health sciences
Multidisciplinary
[SDV.BBM.BS]Life Sciences [q-bio]/Biochemistry, Molecular Biology/Structural Biology [q-bio.BM]
[SDV.BID.EVO]Life Sciences [q-bio]/Biodiversity/Populations and Evolution [q-bio.PE]
[SDV.BBM.MN]Life Sciences [q-bio]/Biochemistry, Molecular Biology/Molecular Networks [q-bio.MN]
Arabidopsis-Thaliana
[SDV.BIBS]Life Sciences [q-bio]/Quantitative Methods [q-bio.QM]
Retrotransposons
MESH: DNA Transposable Elements
Helitron
MESH: Centromere
MESH: Recombination, Genetic
MESH: DNA Copy Number Variations
Ploidy
Transposable element
Genome evolution
Evolution
[SDV.BC]Life Sciences [q-bio]/Cellular Biology
Biology
Methylation
[SDV.GEN.GPL]Life Sciences [q-bio]/Genetics/Plants genetics
03 medical and health sciences
MESH: Retroelements
MESH: Inbreeding
[SDV.BBM.GTP]Life Sciences [q-bio]/Biochemistry, Molecular Biology/Genomics [q-bio.GN]
Zea-Mays
[SDV.BBM.BC]Life Sciences [q-bio]/Biochemistry, Molecular Biology/Biochemistry [q-bio.BM]
MESH: DNA, Plant
Gene
030304 developmental biology
MESH: Molecular Sequence Data
Transposable Elements
[SDV.BBM.BM]Life Sciences [q-bio]/Biochemistry, Molecular Biology/Molecular biology
Plant
15. Life on land
MESH: Crops, Agricultural
[SDV.BV.AP]Life Sciences [q-bio]/Vegetal Biology/Plant breeding
Genes
[INFO.INFO-BI]Computer Science [cs]/Bioinformatics [q-bio.QM]
MESH: Chromosome Mapping
MESH: MicroRNAs
010606 plant biology & botany

Details

Language :
English
ISSN :
00368075 and 10959203
Database :
OpenAIRE
Journal :
Science, Science, American Association for the Advancement of Science, 2009, 326 (5956), pp.1112-5. ⟨10.1126/science.1178534⟩
Accession number :
edsair.doi.dedup.....a38c14fd35f408bb7354afd1a6486399
Full Text :
https://doi.org/10.1126/science.1178534⟩