Towards integration of population and comparative genomics in forest trees
Published 2016 View Full Article
- Home
- Publications
- Publication Search
- Publication Details
Title
Towards integration of population and comparative genomics in forest trees
Authors
Keywords
-
Journal
NEW PHYTOLOGIST
Volume 212, Issue 2, Pages 338-344
Publisher
Wiley
Online
2016-08-30
DOI
10.1111/nph.14153
References
Ask authors/readers for more resources
Related references
Note: Only part of the references are listed.- Chromosome-scale shotgun assembly using an in vitro method for long-range linkage
- (2016) Nicholas H. Putnam et al. GENOME RESEARCH
- Variation in Linked Selection and Recombination Drive Genomic Divergence during Allopatric Speciation of European and American Aspens
- (2016) Jing Wang et al. MOLECULAR BIOLOGY AND EVOLUTION
- Open chromatin reveals the functional maize genome
- (2016) Eli Rodgers-Melnick et al. PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA
- Long-read sequence assembly of the gorilla genome
- (2016) D. Gordon et al. SCIENCE
- BUSCO: assessing genome assembly and annotation completeness with single-copy orthologs
- (2015) Felipe A. Simão et al. BIOINFORMATICS
- Natural Selection and Recombination Rate Variation Shape Nucleotide Polymorphism Across the Genomes of Three Related Populus Species
- (2015) J. Wang et al. GENETICS
- What to compare and how: Comparative transcriptomics for Evo-Devo
- (2015) Julien Roux et al. JOURNAL OF EXPERIMENTAL ZOOLOGY PART B-MOLECULAR AND DEVELOPMENTAL EVOLUTION
- Decoding the oak genome: public release of sequence data, assembly, annotation and publication strategies
- (2015) Christophe Plomion et al. Molecular Ecology Resources
- Single-molecule sequencing of the desiccation-tolerant grass Oropetium thomaeum
- (2015) Robert VanBuren et al. NATURE
- Evidence for extensive parallelism but divergent genomic architecture of adaptation along altitudinal and latitudinal gradients inPopulus trichocarpa
- (2015) Jason A. Holliday et al. NEW PHYTOLOGIST
- Genome-wide patterns of recombination, linkage disequilibrium and nucleotide diversity from pooled resequencing and single nucleotide polymorphism genotyping unlock the evolutionary history ofEucalyptus grandis
- (2015) Orzenil B. Silva-Junior et al. NEW PHYTOLOGIST
- The Plant Genome Integrative Explorer Resource: PlantGenIE.org
- (2015) David Sundell et al. NEW PHYTOLOGIST
- Comparative interrogation of the developing xylem transcriptomes of two wood-forming species:Populus trichocarpaandEucalyptus grandis
- (2015) Charles A. Hefer et al. NEW PHYTOLOGIST
- Exploiting SNPs for biallelic CRISPR mutations in the outcrossing woody perennialPopulusreveals 4-coumarate:CoA ligase specificity and redundancy
- (2015) Xiaohong Zhou et al. NEW PHYTOLOGIST
- ATTED-II in 2016: A Plant Coexpression Database Towards Lineage-Specific Coexpression
- (2015) Yuichi Aoki et al. PLANT AND CELL PHYSIOLOGY
- A resource for characterizing genome-wide binding and putative target genes of transcription factors expressed during secondary growth and wood formation inPopulus
- (2015) Lijun Liu et al. PLANT JOURNAL
- Improved white spruce (Picea glauca) genome assemblies and annotation of large gene families of conifer terpenoid and phenolic defense metabolism
- (2015) René L. Warren et al. PLANT JOURNAL
- The power of single molecule real-time sequencing technology in the de novo assembly of a eukaryotic genome
- (2015) Hiroaki Sakai et al. Scientific Reports
- Using optical mapping data for the improvement of vertebrate genome assemblies
- (2015) Kerstin Howe et al. GigaScience
- Using linkage maps to correct and scaffold de novo genome assemblies: methods, challenges, and computational tools
- (2015) Janna L. Fierst Frontiers in Genetics
- PacBio Sequencing and Its Applications
- (2015) Anthony Rhoads et al. GENOMICS PROTEOMICS & BIOINFORMATICS
- CRISPRing into the woods
- (2015) Chung-Jui Tsai et al. GM Crops & Food-Biotechnology in Agriculture and the Food Chain
- ComPlEx: conservation and divergence of co-expression networks in A. thaliana, Populus and O. sativa
- (2014) Sergiu Netotea et al. BMC GENOMICS
- The willow genome and divergent evolution from poplar after the common genome duplication
- (2014) Xiaogang Dai et al. CELL RESEARCH
- Structural variation and genome complexity: is dispensable really dispensable?
- (2014) Fabio Marroni et al. CURRENT OPINION IN PLANT BIOLOGY
- LANDSCAPE GENOMICS OFPOPULUS TRICHOCARPA: THE ROLE OF HYBRIDIZATION, LIMITED GENE FLOW, AND NATURAL SELECTION IN SHAPING PATTERNS OF POPULATION STRUCTURE
- (2014) Armando Geraldes et al. EVOLUTION
- A field guide to whole-genome sequencing, assembly and annotation
- (2014) Robert Ekblom et al. Evolutionary Applications
- An Arabidopsis gene regulatory network for secondary cell wall synthesis
- (2014) M. Taylor-Teeples et al. NATURE
- Sequencing of diverse mandarin, pummelo and orange genomes reveals complex history of admixture during citrus domestication
- (2014) G Albert Wu et al. NATURE BIOTECHNOLOGY
- Population genomics of Populus trichocarpa identifies signatures of selection and adaptive trait associations
- (2014) Luke M Evans et al. NATURE GENETICS
- High-resolution genetic maps ofEucalyptusimproveEucalyptus grandisgenome assembly
- (2014) Jérôme Bartholomé et al. NEW PHYTOLOGIST
- Genome-wide association implicates numerous genes underlying ecological trait variation in natural populations ofPopulus trichocarpa
- (2014) Athena D. McKown et al. NEW PHYTOLOGIST
- PLAZA 3.0: an access point for plant comparative genomics
- (2014) Sebastian Proost et al. NUCLEIC ACIDS RESEARCH
- AraNet v2: an improved database of co-functional gene networks for the study of Arabidopsis thaliana and 27 other nonmodel plant species
- (2014) Tak Lee et al. NUCLEIC ACIDS RESEARCH
- Cell Wall-Related Proteins of Unknown Function: Missing Links in Plant Cell Wall Development
- (2014) Ritesh Mewalal et al. PLANT AND CELL PHYSIOLOGY
- Plant Omics Data Center: An Integrated Web Repository for Interspecies Gene Expression Networks with NLP-Based Curation
- (2014) Hajime Ohyanagi et al. PLANT AND CELL PHYSIOLOGY
- Insights into Conifer Giga-Genomes
- (2014) A. R. De La Torre et al. PLANT PHYSIOLOGY
- The coffee genome provides insight into the convergent evolution of caffeine biosynthesis
- (2014) F. Denoeud et al. SCIENCE
- The complex jujube genome provides insights into fruit tree biology
- (2014) Meng-Jun Liu et al. Nature Communications
- Decoding the massive genome of loblolly pine using haploid DNA and novel assembly strategies
- (2014) David B Neale et al. GENOME BIOLOGY
- Assembling the 20 Gb white spruce (Picea glauca) genome from whole-genome shotgun sequencing data
- (2013) Inanc Birol et al. BIOINFORMATICS
- Draft genome sequence of the rubber tree Hevea brasiliensis
- (2013) Ahmad Yamin Abdul Rahman et al. BMC GENOMICS
- PLANEX: the plant co-expression database
- (2013) Won Yim et al. BMC PLANT BIOLOGY
- The origin, evolution, and functional impact of short insertion-deletion variants identified in 179 human genomes
- (2013) S. B. Montgomery et al. GENOME RESEARCH
- The Norway spruce genome sequence and conifer genome evolution
- (2013) Björn Nystedt et al. NATURE
- The high-quality draft genome of peach (Prunus persica) identifies unique patterns of genetic diversity, domestication and genome evolution
- (2013) Ignazio Verde et al. NATURE GENETICS
- Genomic signatures of selection at linked sites: unifying the disparity among species
- (2013) Asher D. Cutter et al. NATURE REVIEWS GENETICS
- Systems genetics approaches to understand complex traits
- (2013) Mete Civelek et al. NATURE REVIEWS GENETICS
- Geographical and environmental gradients shape phenotypic trait variation and genetic structure inPopulus trichocarpa
- (2013) Athena D. McKown et al. NEW PHYTOLOGIST
- Genomic insights into salt adaptation in a desert poplar
- (2013) Tao Ma et al. Nature Communications
- A High-Density Gene Map of Loblolly Pine ( Pinus taeda L.) Based on Exome Sequence Capture Genotyping
- (2013) Leandro Gomide Neves et al. G3-Genes Genomes Genetics
- Genome sequence of dwarf birch (Betula nana) and cross-species RAD markers
- (2012) Nian Wang et al. MOLECULAR ECOLOGY
- The draft genome of sweet orange (Citrus sinensis)
- (2012) Qiang Xu et al. NATURE GENETICS
- Comparative studies of gene expression and the evolution of gene regulation
- (2012) Irene Gallego Romero et al. NATURE REVIEWS GENETICS
- Genome resequencing reveals multiscale geographic structure and extensive linkage disequilibrium in the forest treePopulus trichocarpa
- (2012) Gancho T. Slavov et al. NEW PHYTOLOGIST
- Methylome of DNase I sensitive chromatin inPopulus trichocarpashoot apical meristematic cells: a simplified approach revealing characteristics of gene-body DNA methylation in open chromatin state
- (2012) Clément Lafon-Placette et al. NEW PHYTOLOGIST
- BAR expressolog identification: expression profile similarity ranking of homologous genes in plant species
- (2012) Rohan V. Patel et al. PLANT JOURNAL
- Feature-by-Feature – Evaluating De Novo Sequence Assembly
- (2012) Francesco Vezzi et al. PLoS One
- Revisiting the sequencing of the first tree genome: Populus trichocarpa
- (2012) S. D. Wullschleger et al. TREE PHYSIOLOGY
- Current challenges in de novo plant genome sequencing and assembly
- (2012) Michael C Schatz et al. GENOME BIOLOGY
- Phytozome: a comparative platform for green plant genomics
- (2011) David M. Goodstein et al. NUCLEIC ACIDS RESEARCH
- PlaNet: Combined Sequence and Expression Comparisons across Plant Networks Derived from Seven Species
- (2011) M. Mutwil et al. PLANT CELL
- Comparative Network Analysis Reveals That Tissue Specificity and Gene Function Are Important Factors Influencing the Mode of Expression Evolution in Arabidopsis and Rice
- (2011) S. Movahedi et al. PLANT PHYSIOLOGY
- The genome of the domesticated apple (Malus × domestica Borkh.)
- (2010) Riccardo Velasco et al. NATURE GENETICS
- Association genetics of complex traits in plants
- (2010) Pär K. Ingvarsson et al. NEW PHYTOLOGIST
- CORNET: A User-Friendly Tool for Data Mining and Integration
- (2010) S. De Bodt et al. PLANT PHYSIOLOGY
- The draft genome of the transgenic tropical fruit tree papaya (Carica papaya Linnaeus)
- (2008) Ray Ming et al. NATURE
Become a Peeref-certified reviewer
The Peeref Institute provides free reviewer training that teaches the core competencies of the academic peer review process.
Get StartedAsk a Question. Answer a Question.
Quickly pose questions to the entire community. Debate answers and get clarity on the most important issues facing researchers.
Get Started