Copy number polymorphism in plant genomes

An MLPA-Based Strategy for Discrete CNV Genotyping: CNV-miRNAs as an Example

(2013) Malgorzata Marcinkowska-Swojak et al.   HUMAN MUTATION

Copy number variation in potato - an asexually propagated autotetraploid species

(2013) Marina Iovene et al.   PLANT JOURNAL

Aluminum tolerance in maize is associated with higher MATE1 gene copy number

(2013) L. G. Maron et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

Resequencing rice genomes: an emerging new era of rice genomics

(2013) Xuehui Huang et al.   TRENDS IN GENETICS

Crop plants as models for understanding plant adaptation and diversification

(2013) Kenneth M. Olsen et al.   Frontiers in Plant Science

Rare De Novo Germline Copy-Number Variation in Testicular Cancer

(2012) Zsofia K. Stadler et al.   AMERICAN JOURNAL OF HUMAN GENETICS

Copy number variation of individual cattle genomes using next-generation sequencing

(2012) D. M. Bickhart et al.   GENOME RESEARCH

Molecular methods for genotyping complex copy number polymorphisms

(2012) Stuart Cantsilieris et al.   GENOMICS

A map of rice genome variation reveals the origin of cultivated rice

(2012) Xuehui Huang et al.   NATURE

Maize HapMap2 identifies extant variation from a genome in flux

(2012) Jer-Ming Chia et al.   NATURE GENETICS

A tandem segmental duplication (TSD) in green revolution gene Rht-D1b region underlies plant height variation

(2012) Yiyuan Li et al.   NEW PHYTOLOGIST

EPSPS gene amplification in glyphosate-resistant Italian ryegrass (Lolium perenne ssp. multiflorum) from Arkansas

(2012) Reiofeli A Salas et al.   PEST MANAGEMENT SCIENCE

Pod Corn Is Caused by Rearrangement at the Tunicate1 Locus

(2012) J.-J. Han et al.   PLANT CELL

Evolution of a Complex Disease Resistance Gene Cluster in Diploid Phaseolus and Tetraploid Glycine

(2012) T. Ashfield et al.   PLANT PHYSIOLOGY

Structural Variants in the Soybean Genome Localize to Clusters of Biotic Stress-Response Genes

(2012) L. K. McHale et al.   PLANT PHYSIOLOGY

Dynamic Nucleotide-Binding Site and Leucine-Rich Repeat-Encoding Genes in the Grass Family

(2012) S. Luo et al.   PLANT PHYSIOLOGY

Copy Number Variation Affecting the Photoperiod-B1 and Vernalization-A1 Genes Is Associated with Altered Flowering Time in Wheat (Triticum aestivum)

(2012) Aurora Díaz et al.   PLoS One

Maize (Zea mays L.) Genome Diversity as Revealed by RNA-Sequencing

(2012) Candice N. Hansey et al.   PLoS One

Molecular genetic basis of pod corn (Tunicate maize)

(2012) L. U. Wingen et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

Gene duplication as a mechanism of genomic adaptation to a changing environment

(2012) F. A. Kondrashov   PROCEEDINGS OF THE ROYAL SOCIETY B-BIOLOGICAL SCIENCES

Identification and characterization of three inherited genomic copy number variations associated with familial schizophrenia

(2012) Hsiao-Mei Liao et al.   SCHIZOPHRENIA RESEARCH

Copy Number Variation of Multiple Genes at Rhg1 Mediates Nematode Resistance in Soybean

(2012) D. E. Cook et al.   SCIENCE

Detection of copy number variations in rice using array-based comparative genomic hybridization

(2011) Ping Yu et al.   BMC GENOMICS

Analysis of Arabidopsis genome-wide variations before and after meiosis and meiotic recombination by resequencing Landsberg erecta and all four products of a single meiosis

(2011) P. Lu et al.   GENOME RESEARCH

Mechanism of Resistance of Evolved Glyphosate-Resistant Palmer Amaranth (Amaranthus palmeri)

(2011) Todd A. Gaines et al.   JOURNAL OF AGRICULTURAL AND FOOD CHEMISTRY

Parallel evolution of domesticated Caenorhabditis species targets pheromone receptor genes

(2011) Patrick T. McGrath et al.   NATURE

Mapping copy number variation by population-scale genome sequencing

(2011) Ryan E. Mills et al.   NATURE

Resequencing 50 accessions of cultivated and wild rice yields markers for identifying agronomically important genes

(2011) Xun Xu et al.   NATURE BIOTECHNOLOGY

Whole-genome sequencing of multiple Arabidopsis thaliana populations

(2011) Jun Cao et al.   NATURE GENETICS

Genome structural variation discovery and genotyping

(2011) Can Alkan et al.   NATURE REVIEWS GENETICS

Genome-Wide Comparison of Nucleotide-Binding Site-Leucine-Rich Repeat-Encoding Genes in Arabidopsis

(2011) Y.-L. Guo et al.   PLANT PHYSIOLOGY

Molecular Characterization of Rht-1 Dwarfing Genes in Hexaploid Wheat

(2011) S. Pearce et al.   PLANT PHYSIOLOGY

Natural Variation in Arabidopsis: From Molecular Genetics to Ecological Genomics

(2011) D. Weigel   PLANT PHYSIOLOGY

Copy Number Variation in Familial Parkinson Disease

(2011) Nathan Pankratz et al.   PLoS One

Targeted analysis of nucleotide and copy number variation by exon capture in allotetraploid wheat genome

(2011) Cyrille Saintenac et al.   GENOME BIOLOGY

Genome-wide patterns of genetic variation in sweet and grain sorghum (Sorghum bicolor)

(2011) Lei-Ying Zheng et al.   GENOME BIOLOGY

Structural Variation in the Human Genome and its Role in Disease

(2010) Paweł Stankiewicz et al.   Annual Review of Medicine

Functional bias in molecular evolution rate of Arabidopsis thaliana

(2010) Andrew S Warren et al.   BMC EVOLUTIONARY BIOLOGY

Germline copy number variations in BRCA1-associated ovarian cancer patients

(2010) Kosuke Yoshihara et al.   GENES CHROMOSOMES & CANCER

Copy Number Variation Shapes Genome Diversity in Arabidopsis Over Immediate Family Generational Scales

(2010) Seth DeBolt   Genome Biology and Evolution

Pervasive gene content variation and copy number variation in maize and its undomesticated progenitor

(2010) R. A. Swanson-Wagner et al.   GENOME RESEARCH

Herbicide Resistances in Amaranthus tuberculatus: A Call for New Options

(2010) Patrick J. Tranel et al.   JOURNAL OF AGRICULTURAL AND FOOD CHEMISTRY

Taking qPCR to a higher level: Analysis of CNV reveals the power of high throughput qPCR to enhance quantitative resolution

(2010) Suzanne Weaver et al.   METHODS

Genome-wide association study of 107 phenotypes in Arabidopsis thaliana inbred lines

(2010) Susanna Atwell et al.   NATURE

Genome-wide patterns of genetic variation among elite maize inbred lines

(2010) Jinsheng Lai et al.   NATURE GENETICS

Genome-wide association studies of 14 agronomic traits in rice landraces

(2010) Xuehui Huang et al.   NATURE GENETICS

Resequencing of 31 wild and cultivated soybean genomes identifies patterns of genetic diversity and selection

(2010) Hon-Ming Lam et al.   NATURE GENETICS

The Composition and Origins of Genomic Variation among Individuals of the Soybean Reference Cultivar Williams 82

(2010) W. J. Haun et al.   PLANT PHYSIOLOGY

The Rate and Molecular Spectrum of Spontaneous Mutations in Arabidopsis thaliana

(2010) S. Ossowski et al.   SCIENCE

CBF gene copy number variation at Frost Resistance-2 is associated with levels of freezing tolerance in temperate-climate cereals

(2010) Andrea K. Knox et al.   THEORETICAL AND APPLIED GENETICS

Substantial deletion overlap among divergent Arabidopsis genomes revealed by intersection of short reads and tiling arrays

(2010) Luca Santuari et al.   GENOME BIOLOGY

CNV discovery using SNP genotyping arrays

(2009) C. Yau et al.   CYTOGENETIC AND GENOME RESEARCH

High-Throughput Multiplex Sequencing to Discover Copy Number Variants in Drosophila

(2009) Bryce Daines et al.   GENETICS

Sensitive and accurate detection of copy number variants using read depth of coverage

(2009) S. Yoon et al.   GENOME RESEARCH

Origins and functional impact of copy number variation in the human genome

(2009) Donald F. Conrad et al.   NATURE

The DNA replication FoSTeS/MMBIR mechanism can generate genomic, genic and exonic complex rearrangements in humans

(2009) Feng Zhang et al.   NATURE GENETICS

15q13.3 microdeletions increase risk of idiopathic generalized epilepsy

(2009) Ingo Helbig et al.   NATURE GENETICS

Computational methods for discovering structural variation with next-generation sequencing

(2009) Paul Medvedev et al.   NATURE METHODS

Gene amplification confers glyphosate resistance in Amaranthus palmeri

(2009) T. A. Gaines et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

A First-Generation Haplotype Map of Maize

(2009) M. A. Gore et al.   SCIENCE

The B73 Maize Genome: Complexity, Diversity, and Dynamics

(2009) P. S. Schnable et al.   SCIENCE

Maize Inbreds Exhibit High Levels of Copy Number Variation (CNV) and Presence/Absence Variation (PAV) in Genome Content

(2009) Nathan M. Springer et al.   PLoS Genetics

The 1001 Genomes Project for Arabidopsis thaliana

(2009) Detlef Weigel et al.   GENOME BIOLOGY

Genome-wide Copy-Number-Variation Study Identified a Susceptibility Gene, UGT2B17, for Osteoporosis

(2008) Tie-Lin Yang et al.   AMERICAN JOURNAL OF HUMAN GENETICS

The current excitement about copy-number variation: how it relates to gene duplications and protein families

(2008) Jan O Korbel et al.   CURRENT OPINION IN STRUCTURAL BIOLOGY

Large recurrent microdeletions associated with schizophrenia

(2008) Hreinn Stefansson et al.   NATURE

Association between Microdeletion and Microduplication at 16p11.2 and Autism

(2008) Lauren A. Weiss et al.   NEW ENGLAND JOURNAL OF MEDICINE

Substantial biases in ultra-short read data sets from high-throughput DNA sequencing

(2008) J. C. Dohm et al.   NUCLEIC ACIDS RESEARCH

Excessive genomic DNA copy number variation in the Li-Fraumeni cancer predisposition syndrome

(2008) A. Shlien et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

Natural Selection Shapes Genome-Wide Patterns of Copy-Number Polymorphism in Drosophila melanogaster

(2008) J. J. Emerson et al.   SCIENCE