Genome sequence and genetic diversity of European ash trees. (Q39064071)

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3 April 2020

title

Genome sequence and genetic diversity of European ash trees (English)

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10

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Gemy Kaithakottil

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Andrea L. Harper

2

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Bernardo J. Clavijo

15

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Christine M. Sambles

4

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Laura J. Kelly

3

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Lene Rostgaard Nielsen

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Richard Buggs

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22

Erik Dahl Kjær

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Endymion Dante Cooper

8

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Endymion D Cooper

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author name string

Elizabeth S A Sollars

1

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Ricardo H Ramirez-Gonzalez

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David Swarbreck

6

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Cristobal Uauy

9

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Gemma Worswick

11

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David J Studholme

12

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Jasmin Zohren

13

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Deborah L Salmon

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Yi Li

16

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Zhesi He

17

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Alison Fellgett

18

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Lea Vig McKinney

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Gerry C Douglas

21

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J Allan Downie

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David Boshier

24

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Steve Lee

25

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Jo Clark

26

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Murray Grant

27

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Ian Bancroft

28

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Mario Caccamo

29

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language of work or name

English

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publication date

26 December 2016

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3 April 2020

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3 April 2020

volume

541

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3 April 2020

page(s)

212-216

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3 April 2020

issue

7636

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Creative Commons Attribution 4.0 International

3 April 2020

copyright license

start time

26 December 2016

1 reference

April 2022 Public Data File from Crossref

copyright status

copyrighted

0 references

exact match

https://scigraph.springernature.com/pub.10.1038/nature20786

0 references

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Genome sequence of the hot pepper provides insights into the evolution of pungency in Capsicum species

21 January 2018

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Fine-scale variation in meiotic recombination in Mimulus inferred from population shotgun sequencing

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Widespread paleopolyploidy in model plant species inferred from age distributions of duplicate genes

21 January 2018

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Chloroplast DNA phylogeography of European ashes, Fraxinus sp. (Oleaceae): roles of hybridization and life history traits

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Natural Selection and Recombination Rate Variation Shape Nucleotide Polymorphism Across the Genomes of Three Related Populus Species.

21 January 2018

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Developmental and evolutionary diversity of plant MADS-domain factors: insights from recent studies

21 January 2018

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A genome-wide analysis of MADS-box genes in peach [Prunus persica (L.) Batsch]

21 January 2018

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Direct interaction of AGL24 and SOC1 integrates flowering signals in Arabidopsis

21 January 2018

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A repressor complex governs the integration of flowering signals in Arabidopsis.

21 January 2018

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The Arabidopsis SOC1-like genes AGL42, AGL71 and AGL72 promote flowering in the shoot apical and axillary meristems.

21 January 2018

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AGAMOUS-LIKE24 and SHORT VEGETATIVE PHASE determine floral meristem identity in Arabidopsis

21 January 2018

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Genome-wide identification and characterization of MADS-box family genes related to organ development and stress resistance in Brassica rapa

21 January 2018

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Molecular regulation of phenology in trees-because the seasons they are a-changin'.

21 January 2018

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The floral transition is not the developmental switch that confers competence for the Arabidopsis age-related resistance response to Pseudomonas syringae pv. tomato.

21 January 2018

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Chemotaxonomy of the Oleaceae: iridoids as taxonomic markers.

21 January 2018

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A multichemical defense mechanism of bitter oliveOlea europaea (oleaceae) : Is oleuropein a phytoalexin precursor?

21 January 2018

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Comparative phloem chemistry of Manchurian (Fraxinus mandshurica) and two North American ash species (Fraxinus americana and Fraxinus pennsylvanica).

21 January 2018

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Systemic, genotype-specific induction of two herbivore-deterrent iridoid glycosides in Plantago lanceolata L. in response to fungal infection by Diaporthe adunca (Rob.) Niessel

21 January 2018

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Plant chemical defense against herbivores and pathogens: generalized defense or trade-offs?

21 January 2018

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Nuclear DNA C-values in 30 species double the familial representation in pteridophytes

21 January 2018

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Estimation of nuclear DNA content in plants using flow cytometry

21 January 2018

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FLASH: fast length adjustment of short reads to improve genome assemblies

21 January 2018

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https://api.crossref.org/works/10.1038%2FNATURE20786

NextClip: an analysis and read preparation tool for Nextera Long Mate Pair libraries.

21 January 2018

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Scaffolding pre-assembled contigs using SSPACE

21 January 2018

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Mind the gap: upgrading genomes with Pacific Biosciences RS long-read sequencing technology

21 January 2018

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A fast, lock-free approach for efficient parallel counting of occurrences of k-mers

21 January 2018

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Systematic artifacts in metagenomes from complex microbial communities.

21 January 2018

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RepeatExplorer: a Galaxy-based web server for genome-wide characterization of eukaryotic repetitive elements from next-generation sequence reads.

21 January 2018

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https://api.crossref.org/works/10.1038%2FNATURE20786

Basic local alignment search tool

21 January 2018

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Tandem repeats finder: a program to analyze DNA sequences

21 January 2018

1 reference

https://api.crossref.org/works/10.1038%2FNATURE20786

BLAST+: architecture and applications

21 January 2018

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The Arabidopsis Information Resource (TAIR): improved gene annotation and new tools

21 January 2018

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Automated generation of heuristics for biological sequence comparison

21 January 2018

1 reference

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GMAP: a genomic mapping and alignment program for mRNA and EST sequences

21 January 2018

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SortMeRNA: fast and accurate filtering of ribosomal RNAs in metatranscriptomic data.

21 January 2018

1 reference

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TopHat: discovering splice junctions with RNA-Seq

21 January 2018

1 reference

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Transcript assembly and quantification by RNA-Seq reveals unannotated transcripts and isoform switching during cell differentiation

21 January 2018

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StringTie enables improved reconstruction of a transcriptome from RNA-seq reads

21 January 2018

1 reference

https://api.crossref.org/works/10.1038%2FNATURE20786

De novo transcript sequence reconstruction from RNA-seq using the Trinity platform for reference generation and analysis

21 January 2018

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AUGUSTUS: a web server for gene finding in eukaryotes

21 January 2018

1 reference

https://api.crossref.org/works/10.1038%2FNATURE20786

Automated eukaryotic gene structure annotation using EVidenceModeler and the Program to Assemble Spliced Alignments

21 January 2018

1 reference

https://api.crossref.org/works/10.1038%2FNATURE20786

Improving the Arabidopsis genome annotation using maximal transcript alignment assemblies

21 January 2018

1 reference

https://api.crossref.org/works/10.1038%2FNATURE20786

tRNAscan-SE: a program for improved detection of transfer RNA genes in genomic sequence

21 January 2018

1 reference

https://api.crossref.org/works/10.1038%2FNATURE20786

RNAmmer: consistent and rapid annotation of ribosomal RNA genes

21 January 2018

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https://api.crossref.org/works/10.1038%2FNATURE20786

miRBase: annotating high confidence microRNAs using deep sequencing data

21 January 2018

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https://api.crossref.org/works/10.1038%2FNATURE20786

The UEA sRNA workbench: a suite of tools for analysing and visualizing next generation sequencing microRNA and small RNA datasets

21 January 2018

1 reference

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21 January 2018

ViennaRNA Package 2.0

1 reference

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PatMaN: rapid alignment of short sequences to large databases

21 January 2018

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https://api.crossref.org/works/10.1038%2FNATURE20786

De novo assembly and functional annotation of the olive (Olea europaea) transcriptome

21 January 2018

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Architecture and evolution of a minute plant genome.

21 January 2018

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https://api.crossref.org/works/10.1038%2FNATURE20786

The coffee genome provides insight into the convergent evolution of caffeine biosynthesis.

21 January 2018

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https://api.crossref.org/works/10.1038%2FNATURE20786

The grapevine genome sequence suggests ancestral hexaploidization in major angiosperm phyla

21 January 2018

1 reference

https://api.crossref.org/works/10.1038%2FNATURE20786

MUSCLE: multiple sequence alignment with high accuracy and high throughput

21 January 2018

1 reference

https://api.crossref.org/works/10.1038%2FNATURE20786

PAML 4: phylogenetic analysis by maximum likelihood

21 January 2018

1 reference

https://api.crossref.org/works/10.1038%2FNATURE20786

Modeling gene and genome duplications in eukaryotes

21 January 2018

1 reference

https://api.crossref.org/works/10.1038%2FNATURE20786

Adaptive seeds tame genomic sequence comparison

21 January 2018

1 reference

https://api.crossref.org/works/10.1038%2FNATURE20786

DAGchainer: a tool for mining segmental genome duplications and synteny.

21 January 2018

1 reference

https://api.crossref.org/works/10.1038%2FNATURE20786

OrthoMCL: Identification of Ortholog Groups for Eukaryotic Genomes

21 January 2018

1 reference

https://api.crossref.org/works/10.1038%2FNATURE20786

The Amborella Genome and the Evolution of Flowering Plants

21 January 2018

1 reference

https://api.crossref.org/works/10.1038%2FNATURE20786

Analysis of the genome sequence of the flowering plant Arabidopsis thaliana

21 January 2018

1 reference

https://api.crossref.org/works/10.1038%2FNATURE20786

Sequencing and assembly of the 22-gb loblolly pine genome

21 January 2018

1 reference

https://api.crossref.org/works/10.1038%2FNATURE20786

The Genome of Black Cottonwood, Populus trichocarpa (Torr. & Gray)

21 January 2018

1 reference

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An efficient algorithm for large-scale detection of protein families

21 January 2018

1 reference

https://api.crossref.org/works/10.1038%2FNATURE20786

InteractiVenn: a web-based tool for the analysis of sets through Venn diagrams.

21 January 2018

1 reference

https://api.crossref.org/works/10.1038%2FNATURE20786

Fast gapped-read alignment with Bowtie 2

21 January 2018

1 reference

https://api.crossref.org/works/10.1038%2FNATURE20786

The Sequence Alignment/Map format and SAMtools

21 January 2018

1 reference

https://api.crossref.org/works/10.1038%2FNATURE20786

bio-samtools 2: a package for analysis and visualization of sequence and alignment data with SAMtools in Ruby.

21 January 2018

1 reference

https://api.crossref.org/works/10.1038%2FNATURE20786

A program for annotating and predicting the effects of single nucleotide polymorphisms, SnpEff: SNPs in the genome of Drosophila melanogaster strain w1118; iso-2; iso-3

21 January 2018

1 reference

https://api.crossref.org/works/10.1038%2FNATURE20786

PolyMarker: A fast polyploid primer design pipeline.

21 January 2018

1 reference

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The variant call format and VCFtools

21 January 2018

1 reference

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A high-performance computing toolset for relatedness and principal component analysis of SNP data

21 January 2018

1 reference

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Inferring weak population structure with the assistance of sample group information

21 January 2018

1 reference

https://api.crossref.org/works/10.1038%2FNATURE20786

CLUMPP: a cluster matching and permutation program for dealing with label switching and multimodality in analysis of population structure

21 January 2018

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Slow but not low: genomic comparisons reveal slower evolutionary rate and higher dN/dS in conifers compared to angiosperms

21 January 2018

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SNeP: a tool to estimate trends in recent effective population size trajectories using genome-wide SNP data

21 January 2018

1 reference

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QDD version 3.1: a user-friendly computer program for microsatellite selection and primer design revisited: experimental validation of variables determining genotyping success rate

21 January 2018

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Dissecting the genome of the polyploid crop oilseed rape by transcriptome sequencing.

21 January 2018

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A novel and fast approach for population structure inference using kernel-PCA and optimization

21 January 2018

1 reference

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Mixed linear model approach adapted for genome-wide association studies

21 January 2018

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GAPIT: genome association and prediction integrated tool

21 January 2018

1 reference

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Amplification efficiency: linking baseline and bias in the analysis of quantitative PCR data

21 January 2018

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T-Coffee: a web server for the multiple sequence alignment of protein and RNA sequences using structural information and homology extension

21 January 2018

1 reference

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TCS: a new multiple sequence alignment reliability measure to estimate alignment accuracy and improve phylogenetic tree reconstruction

21 January 2018

1 reference

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GARD: a genetic algorithm for recombination detection

21 January 2018

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Further analysts of the data by akaike' s information criterion and the finite corrections

21 January 2018

1 reference

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MrBayes 3.2: Efficient Bayesian Phylogenetic Inference and Model Choice Across a Large Model Space

21 January 2018

1 reference

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RAxML version 8: a tool for phylogenetic analysis and post-analysis of large phylogenies

21 January 2018

1 reference

https://api.crossref.org/works/10.1038%2FNATURE20786

Isolation and molecular characterization of a new vegetative MADS-box gene from Solanum tuberosum L.

21 January 2018

1 reference

https://api.crossref.org/works/10.1038%2FNATURE20786

XCMS: processing mass spectrometry data for metabolite profiling using nonlinear peak alignment, matching, and identification

21 January 2018

1 reference

https://api.crossref.org/works/10.1038%2FNATURE20786

Highly sensitive feature detection for high resolution LC/MS

21 January 2018

1 reference

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CAMERA: an integrated strategy for compound spectra extraction and annotation of liquid chromatography/mass spectrometry data sets

21 January 2018

1 reference

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Structural characterization of iridoid glucosides by ultra-performance liquid chromatography/electrospray ionization quadrupole time-of-flight tandem mass spectrometry

21 January 2018

1 reference

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The Medicago genome provides insight into the evolution of rhizobial symbioses

21 January 2018

1 reference

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7 January 2021

inferred from DOI database lookup

Mitochondrial DNAs provide insight into trypanosome phylogeny and molecular evolution

1 reference

https://api.crossref.org/works/10.1038%2FNATURE20786

7 January 2021

inferred from DOI database lookup

Inference of population structure using multilocus genotype data

1 reference

PubMed

https://pubmed.ncbi.nlm.nih.gov/28024298

12 December 2020

inferred from PubMed ID database lookup

Primer3 on the WWW for general users and for biologist programmers

1 reference

PubMed

https://pubmed.ncbi.nlm.nih.gov/28024298

12 December 2020

inferred from PubMed ID database lookup

Identifiers

DOI

10.1038/NATURE20786

1 reference

https://www.ebi.ac.uk/europepmc/webservices/rest/search?query=EXT_ID:28024298%20AND%20SRC:MED&resulttype=core&format=json

3 April 2020

1 reference