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The Resource The maize genome, Jeffrey Bennetzen, Sherry Flint-Garcia, Candice Hirsch, Roberto Tuberosa, editors

The maize genome, Jeffrey Bennetzen, Sherry Flint-Garcia, Candice Hirsch, Roberto Tuberosa, editors

Editor
Contributor
Summary
This book discusses advances in our understanding of the structure and function of the maize genome since publication of the original B73 reference genome in 2009, and the progress in translating this knowledge into basic biology and trait improvement. Maize is an extremely important crop, providing a large proportion of the world's human caloric intake and animal feed, and serving as a model species for basic and applied research. The exceptionally high level of genetic diversity within maize presents opportunities and challenges in all aspects of maize genetics, from sequencing and genotyping to linking genotypes to phenotypes. Topics covered in this timely book range from (i) genome sequencing and genotyping techniques, (ii) genome features such as centromeres and epigenetic regulation, (iii) tools and resources available for trait genomics, to (iv) applications of allele mining and genomics-assisted breeding. This book is a valuable resource for researchers and students interested in maize genetics and genomics
Language
eng
Work
Publication
Extent
1 online resource (xiv, 388 pages)
Contents
  • Intro; Preface to the Series; Preface to "The Maize Genome" Volume; Contents; Genome Sequencing and Genotyping; 1 Draft Assembly of the F2 European Maize Genome Sequence and Its Comparison to the B73 Genome Sequence: A Characterization of Genotype-Specific Regions; Abstract; 1.1 F2 Is Characteristic from a European Hybridization Event; 1.2 B73- and F2-Specific Genome Region Discovery and Combination into a Draft B73-F2 Pan-Genome Sequence; 1.3 F2 Non-B73 Genes Are Expressed in Other Maize Lines, but Are not Well Conserved Outside Maize
  • 1.4 The Dispensable Genome: A Genomic Faction that Recombines Less Than the Rest of the Genome1.5 Analysis of PAV Alleles at the Population Level; 1.6 Tomorrow's Challenges in Maize Structural Variation; References; 2 The Maize Pan-Genome; Abstract; 2.1 Introduction; 2.2 Mechanisms that Generate Genome Content Variation; 2.2.1 Transposable Elements; 2.2.2 Unequal Recombination; 2.2.3 Non-allelic Homologues; 2.2.4 Horizontal Gene Transfer; 2.2.5 Genome Duplication and Fractionation; 2.3 Contemporary Tools to Measure Genome Content Variation; 2.3.1 Reference-Based Methods
  • 2.3.2 Non-Reference-Based Methods2.3.3 Iterative Mapping and Assembly; 2.4 History of Maize Genome Content Variation Studies; 2.4.1 Molecular and Cytogenetic Era; 2.4.2 Sanger Sequencing Era; 2.4.3 Array-Based Comparative Genomic Hybridization Era; 2.4.4 Second- and Third-Generation Sequencing Era; 2.5 Functional Importance of Genome Content Variation; 2.5.1 Gene and Genome Evolution; 2.5.2 Phenotypic Association and Cloned Genes; 2.5.3 Heterosis; 2.5.4 Dosage Balance; 2.6 Future Bioinformatic Challenges in the Era of Multiple Genome Assemblies; Acknowledgements; References
  • 3 Rapid, Affordable, and Scalable Genotyping for Germplasm Exploration in MaizeAbstract; 3.1 Introduction; 3.2 Array-Based Genotyping Platforms; 3.2.1 Illumina® GoldenGate™ Assay; 3.2.2 Illumina® MaizeSNP50 BeadChip; 3.2.3 600 K and 55 K Affymetrix® Axiom® Maize Genotyping Array; 3.3 Sequence-Based Genotyping Platforms; 3.3.1 Genotyping by Sequencing (GBS); 3.3.2 DArTseq; 3.3.3 rAmpSeq; 3.3.4 Transcriptome Sequencing; 3.4 Future Directions and Challenges: Cheap Sequencing and Data Sharing; Acknowledgements; References; Genome Structure and Phenomena; 4 Maize Transposable Element Dynamics
  • Abstract4.1 Introduction; 4.2 The Recent History of TE Activity in the Zea Lineage; 4.2.1 Panicoid Grass Genomes; 4.2.2 Three Diploid Zea Species; 4.2.3 Vertical Versus Horizontal TE Transmission; 4.3 The Transition Between Inactive and Active TE States; 4.3.1 Epigenetic and Genetic Regulation; 4.3.2 Mutational Control; 4.3.3 Stress-Induced Activation; 4.4 Selection for or Against General TE Activity; 4.5 Conclusions; Acknowledgements; References; 5 Genomics of Maize Centromeres; Abstract; 5.1 Introduction; 5.2 Genetic Composition of Maize Centromeres; 5.2.1 Centromere Repeats
Isbn
9783319974279
Instance
Label
The maize genome
Title
The maize genome
Statement of responsibility
Jeffrey Bennetzen, Sherry Flint-Garcia, Candice Hirsch, Roberto Tuberosa, editors
Contributor
Editor
Subject
Language
eng
Summary
This book discusses advances in our understanding of the structure and function of the maize genome since publication of the original B73 reference genome in 2009, and the progress in translating this knowledge into basic biology and trait improvement. Maize is an extremely important crop, providing a large proportion of the world's human caloric intake and animal feed, and serving as a model species for basic and applied research. The exceptionally high level of genetic diversity within maize presents opportunities and challenges in all aspects of maize genetics, from sequencing and genotyping to linking genotypes to phenotypes. Topics covered in this timely book range from (i) genome sequencing and genotyping techniques, (ii) genome features such as centromeres and epigenetic regulation, (iii) tools and resources available for trait genomics, to (iv) applications of allele mining and genomics-assisted breeding. This book is a valuable resource for researchers and students interested in maize genetics and genomics
Member of
Cataloging source
N$T
Dewey number
633.1/5233
Illustrations
illustrations
Index
no index present
LC call number
SB191.M2
LC item number
M35 2018
Literary form
non fiction
Nature of contents
  • dictionaries
  • bibliography
http://library.link/vocab/relatedWorkOrContributorName
  • Bennetzen, Jeffrey L.
  • Flint-Garcia, Sherry
  • Hirsch, Candice
  • Tuberosa, R.
Series statement
Compendium of plant genomes
http://library.link/vocab/subjectName
  • Corn
  • Corn
  • Genomes
Label
The maize genome, Jeffrey Bennetzen, Sherry Flint-Garcia, Candice Hirsch, Roberto Tuberosa, editors
Instantiates
Publication
Antecedent source
unknown
Bibliography note
Includes bibliographical references
Carrier category
online resource
Carrier category code
  • cr
Carrier MARC source
rdacarrier
Color
multicolored
Content category
text
Content type code
  • txt
Content type MARC source
rdacontent
Contents
  • Intro; Preface to the Series; Preface to "The Maize Genome" Volume; Contents; Genome Sequencing and Genotyping; 1 Draft Assembly of the F2 European Maize Genome Sequence and Its Comparison to the B73 Genome Sequence: A Characterization of Genotype-Specific Regions; Abstract; 1.1 F2 Is Characteristic from a European Hybridization Event; 1.2 B73- and F2-Specific Genome Region Discovery and Combination into a Draft B73-F2 Pan-Genome Sequence; 1.3 F2 Non-B73 Genes Are Expressed in Other Maize Lines, but Are not Well Conserved Outside Maize
  • 1.4 The Dispensable Genome: A Genomic Faction that Recombines Less Than the Rest of the Genome1.5 Analysis of PAV Alleles at the Population Level; 1.6 Tomorrow's Challenges in Maize Structural Variation; References; 2 The Maize Pan-Genome; Abstract; 2.1 Introduction; 2.2 Mechanisms that Generate Genome Content Variation; 2.2.1 Transposable Elements; 2.2.2 Unequal Recombination; 2.2.3 Non-allelic Homologues; 2.2.4 Horizontal Gene Transfer; 2.2.5 Genome Duplication and Fractionation; 2.3 Contemporary Tools to Measure Genome Content Variation; 2.3.1 Reference-Based Methods
  • 2.3.2 Non-Reference-Based Methods2.3.3 Iterative Mapping and Assembly; 2.4 History of Maize Genome Content Variation Studies; 2.4.1 Molecular and Cytogenetic Era; 2.4.2 Sanger Sequencing Era; 2.4.3 Array-Based Comparative Genomic Hybridization Era; 2.4.4 Second- and Third-Generation Sequencing Era; 2.5 Functional Importance of Genome Content Variation; 2.5.1 Gene and Genome Evolution; 2.5.2 Phenotypic Association and Cloned Genes; 2.5.3 Heterosis; 2.5.4 Dosage Balance; 2.6 Future Bioinformatic Challenges in the Era of Multiple Genome Assemblies; Acknowledgements; References
  • 3 Rapid, Affordable, and Scalable Genotyping for Germplasm Exploration in MaizeAbstract; 3.1 Introduction; 3.2 Array-Based Genotyping Platforms; 3.2.1 Illumina® GoldenGate™ Assay; 3.2.2 Illumina® MaizeSNP50 BeadChip; 3.2.3 600 K and 55 K Affymetrix® Axiom® Maize Genotyping Array; 3.3 Sequence-Based Genotyping Platforms; 3.3.1 Genotyping by Sequencing (GBS); 3.3.2 DArTseq; 3.3.3 rAmpSeq; 3.3.4 Transcriptome Sequencing; 3.4 Future Directions and Challenges: Cheap Sequencing and Data Sharing; Acknowledgements; References; Genome Structure and Phenomena; 4 Maize Transposable Element Dynamics
  • Abstract4.1 Introduction; 4.2 The Recent History of TE Activity in the Zea Lineage; 4.2.1 Panicoid Grass Genomes; 4.2.2 Three Diploid Zea Species; 4.2.3 Vertical Versus Horizontal TE Transmission; 4.3 The Transition Between Inactive and Active TE States; 4.3.1 Epigenetic and Genetic Regulation; 4.3.2 Mutational Control; 4.3.3 Stress-Induced Activation; 4.4 Selection for or Against General TE Activity; 4.5 Conclusions; Acknowledgements; References; 5 Genomics of Maize Centromeres; Abstract; 5.1 Introduction; 5.2 Genetic Composition of Maize Centromeres; 5.2.1 Centromere Repeats
Dimensions
unknown
Extent
1 online resource (xiv, 388 pages)
File format
unknown
Form of item
online
Isbn
9783319974279
Level of compression
unknown
Media category
computer
Media MARC source
rdamedia
Media type code
  • c
Other control number
10.1007/978-3-319-97427-9
Other physical details
illustrations.
Quality assurance targets
not applicable
Reformatting quality
unknown
Sound
unknown sound
Specific material designation
remote
System control number
  • on1076543342
  • (OCoLC)1076543342
Label
The maize genome, Jeffrey Bennetzen, Sherry Flint-Garcia, Candice Hirsch, Roberto Tuberosa, editors
Publication
Antecedent source
unknown
Bibliography note
Includes bibliographical references
Carrier category
online resource
Carrier category code
  • cr
Carrier MARC source
rdacarrier
Color
multicolored
Content category
text
Content type code
  • txt
Content type MARC source
rdacontent
Contents
  • Intro; Preface to the Series; Preface to "The Maize Genome" Volume; Contents; Genome Sequencing and Genotyping; 1 Draft Assembly of the F2 European Maize Genome Sequence and Its Comparison to the B73 Genome Sequence: A Characterization of Genotype-Specific Regions; Abstract; 1.1 F2 Is Characteristic from a European Hybridization Event; 1.2 B73- and F2-Specific Genome Region Discovery and Combination into a Draft B73-F2 Pan-Genome Sequence; 1.3 F2 Non-B73 Genes Are Expressed in Other Maize Lines, but Are not Well Conserved Outside Maize
  • 1.4 The Dispensable Genome: A Genomic Faction that Recombines Less Than the Rest of the Genome1.5 Analysis of PAV Alleles at the Population Level; 1.6 Tomorrow's Challenges in Maize Structural Variation; References; 2 The Maize Pan-Genome; Abstract; 2.1 Introduction; 2.2 Mechanisms that Generate Genome Content Variation; 2.2.1 Transposable Elements; 2.2.2 Unequal Recombination; 2.2.3 Non-allelic Homologues; 2.2.4 Horizontal Gene Transfer; 2.2.5 Genome Duplication and Fractionation; 2.3 Contemporary Tools to Measure Genome Content Variation; 2.3.1 Reference-Based Methods
  • 2.3.2 Non-Reference-Based Methods2.3.3 Iterative Mapping and Assembly; 2.4 History of Maize Genome Content Variation Studies; 2.4.1 Molecular and Cytogenetic Era; 2.4.2 Sanger Sequencing Era; 2.4.3 Array-Based Comparative Genomic Hybridization Era; 2.4.4 Second- and Third-Generation Sequencing Era; 2.5 Functional Importance of Genome Content Variation; 2.5.1 Gene and Genome Evolution; 2.5.2 Phenotypic Association and Cloned Genes; 2.5.3 Heterosis; 2.5.4 Dosage Balance; 2.6 Future Bioinformatic Challenges in the Era of Multiple Genome Assemblies; Acknowledgements; References
  • 3 Rapid, Affordable, and Scalable Genotyping for Germplasm Exploration in MaizeAbstract; 3.1 Introduction; 3.2 Array-Based Genotyping Platforms; 3.2.1 Illumina® GoldenGate™ Assay; 3.2.2 Illumina® MaizeSNP50 BeadChip; 3.2.3 600 K and 55 K Affymetrix® Axiom® Maize Genotyping Array; 3.3 Sequence-Based Genotyping Platforms; 3.3.1 Genotyping by Sequencing (GBS); 3.3.2 DArTseq; 3.3.3 rAmpSeq; 3.3.4 Transcriptome Sequencing; 3.4 Future Directions and Challenges: Cheap Sequencing and Data Sharing; Acknowledgements; References; Genome Structure and Phenomena; 4 Maize Transposable Element Dynamics
  • Abstract4.1 Introduction; 4.2 The Recent History of TE Activity in the Zea Lineage; 4.2.1 Panicoid Grass Genomes; 4.2.2 Three Diploid Zea Species; 4.2.3 Vertical Versus Horizontal TE Transmission; 4.3 The Transition Between Inactive and Active TE States; 4.3.1 Epigenetic and Genetic Regulation; 4.3.2 Mutational Control; 4.3.3 Stress-Induced Activation; 4.4 Selection for or Against General TE Activity; 4.5 Conclusions; Acknowledgements; References; 5 Genomics of Maize Centromeres; Abstract; 5.1 Introduction; 5.2 Genetic Composition of Maize Centromeres; 5.2.1 Centromere Repeats
Dimensions
unknown
Extent
1 online resource (xiv, 388 pages)
File format
unknown
Form of item
online
Isbn
9783319974279
Level of compression
unknown
Media category
computer
Media MARC source
rdamedia
Media type code
  • c
Other control number
10.1007/978-3-319-97427-9
Other physical details
illustrations.
Quality assurance targets
not applicable
Reformatting quality
unknown
Sound
unknown sound
Specific material designation
remote
System control number
  • on1076543342
  • (OCoLC)1076543342

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