The Tarenaya hassleriana genome provides insight into reproductive trait and genome evolution of crucifers. (Q39360252)

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8 March 2020

title

The Tarenaya hassleriana genome provides insight into reproductive trait and genome evolution of crucifers (English)

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8 March 2020

1 reference

Tarenaya hassleriana

1 reference

17

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8 March 2020

Erik van den Bergh

2

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8 March 2020

Kerstin Kaufmann

14

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8 March 2020

Jocelyn C. Hall

15

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8 March 2020

Annette Becker

16

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8 March 2020

Andreas P.M. Weber

18

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8 March 2020

Eric Schranz

31

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8 March 2020

27

Julian M Hibberd

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8 March 2020

author name string

Shifeng Cheng

1

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8 March 2020

Peng Zeng

3

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8 March 2020

Xiao Zhong

4

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8 March 2020

Jiajia Xu

5

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8 March 2020

Xin Liu

6

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8 March 2020

Johannes Hofberger

7

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8 March 2020

Suzanne de Bruijn

8

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8 March 2020

Amey S Bhide

9

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8 March 2020

Canan Kuelahoglu

10

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8 March 2020

Chao Bian

11

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8 March 2020

Jing Chen

12

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8 March 2020

Guangyi Fan

13

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8 March 2020

Zhijun Zheng

20

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8 March 2020

Wujiao Li

21

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8 March 2020

Mingju Lv

22

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8 March 2020

Yimin Tao

23

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8 March 2020

Junyi Wang

24

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8 March 2020

Hongfeng Zou

25

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8 March 2020

Zhiwu Quan

26

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8 March 2020

Gengyun Zhang

28

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8 March 2020

Xin-Guang Zhu

29

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8 March 2020

Xun Xu

30

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8 March 2020

Chengcheng Shi

19

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8 March 2020

publication date

27 August 2013

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8 March 2020

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8 March 2020

volume

25

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8 March 2020

issue

8

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8 March 2020

page(s)

2813-2830

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Creative Commons Attribution 4.0 International

8 March 2020

copyright license

start time

20 January 2021

1 reference

April 2022 Public Data File from Crossref

copyright status

copyrighted

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cites work

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The Reference Genome of the Halophytic Plant Eutrema salsugineum

30 August 2018

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Decoding plant and animal genome plasticity from differential paleo-evolutionary patterns and processes

30 August 2018

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Gamma paleohexaploidy in the stem lineage of core eudicots: significance for MADS-box gene and species diversification

30 August 2018

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Insights into salt tolerance from the genome of Thellungiella salsuginea

30 August 2018

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The tomato genome sequence provides insights into fleshy fruit evolution

30 August 2018

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Ancient whole genome duplications, novelty and diversification: the WGD Radiation Lag-Time Model

30 August 2018

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Parallel evolution of TCP and B-class genes in Commelinaceae flower bilateral symmetry

30 August 2018

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Differential gene and transcript expression analysis of RNA-seq experiments with TopHat and Cufflinks

30 August 2018

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

30 August 2018

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Characterization of MADS-domain transcription factor complexes in Arabidopsis flower development

30 August 2018

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Corolla monosymmetry: evolution of a morphological novelty in the Brassicaceae family

30 August 2018

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The Pfam protein families database

30 August 2018

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i-ADHoRe 3.0--fast and sensitive detection of genomic homology in extremely large data sets

30 August 2018

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Rapid copy number expansion and recent recruitment of domains in S-receptor kinase-like genes contribute to the origin of self-incompatibility

30 August 2018

1 reference

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The genome of the mesopolyploid crop species Brassica rapa

30 August 2018

1 reference

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The genome of the extremophile crucifer Thellungiella parvula

30 August 2018

1 reference

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Evolution of the S-locus region in Arabidopsis relatives

30 August 2018

1 reference

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Phylogeny of Capparaceae and Brassicaceae based on chloroplast sequence data

30 August 2018

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Screening synteny blocks in pairwise genome comparisons through integer programming

30 August 2018

1 reference

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The Arabidopsis lyrata genome sequence and the basis of rapid genome size change

30 August 2018

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Ancestral polyploidy in seed plants and angiosperms

30 August 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3784582

Sequence-based physical mapping of complex genomes by whole genome profiling

30 August 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3784582

Cabbage family affairs: the evolutionary history of Brassicaceae

30 August 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3784582

Aligning short sequencing reads with Bowtie

30 August 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3784582

Dated molecular phylogenies indicate a Miocene origin for Arabidopsis thaliana

30 August 2018

1 reference

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Transcriptional regulation of the CRK/DUF26 group of receptor-like protein kinases by ozone and plant hormones in Arabidopsis

30 August 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3784582

Evidence for the involvement of Globosa-like gene duplications and expression divergence in the evolution of floral morphology in the Zingiberales.

30 August 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3784582

The development of Arabidopsis as a model plant

30 August 2018

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https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3784582

Paleopolyploidy in the Brassicales: analyses of the Cleome transcriptome elucidate the history of genome duplications in Arabidopsis and other Brassicales

30 August 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3784582

De novo assembly of human genomes with massively parallel short read sequencing

30 August 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3784582

The ABC model and the diversification of floral organ identity

30 August 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3784582

A new role for the SHATTERPROOF genes during Arabidopsis gynoecium development.

30 August 2018

1 reference

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Flower symmetry evolution: towards understanding the abominable mystery of angiosperm radiation

30 August 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3784582

Gene and genome duplications: the impact of dosage-sensitivity on the fate of nuclear genes

30 August 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3784582

Molecular phylogenetics, temporal diversification, and principles of evolution in the mustard family (Brassicaceae).

30 August 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3784582

Pistillata--duplications as a mode for floral diversification in (Basal) asterids

30 August 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3784582

The evolutionary significance of ancient genome duplications

30 August 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3784582

Gene duplication and evolutionary novelty in plants

30 August 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3784582

Old dogs, new tricks: regulatory evolution in conserved genetic modules leads to novel morphologies in plants

30 August 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3784582

Infernal 1.0: inference of RNA alignments

30 August 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3784582

TopHat: discovering splice junctions with RNA-Seq

30 August 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3784582

Evolution of floral symmetry: a state of the art.

30 August 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3784582

The MIQE guidelines: minimum information for publication of quantitative real-time PCR experiments

30 August 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3784582

Why are orchid flowers so diverse? Reduction of evolutionary constraints by paralogues of class B floral homeotic genes.

30 August 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3784582

Assessing the gene space in draft genomes

30 August 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3784582

InterPro: the integrative protein signature database

30 August 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3784582

Automatically extracting functionally equivalent proteins from SwissProt

30 August 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3784582

Analyzing real-time PCR data by the comparative C(T) method

30 August 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3784582

The draft genome of the transgenic tropical fruit tree papaya (Carica papaya Linnaeus).

30 August 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3784582

Interactions of B-class complex proteins involved in tepal development in Phalaenopsis orchid

30 August 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3784582

B-class MADS-box genes in trioecious papaya: two paleoAP3 paralogs, CpTM6-1 and CpTM6-2, and a PI ortholog CpPI.

30 August 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3784582

Control of corolla monosymmetry in the Brassicaceae Iberis amara

30 August 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3784582

The grapevine genome sequence suggests ancestral hexaploidization in major angiosperm phyla

30 August 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3784582

The 2R hypothesis: an update

30 August 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3784582

Cleome, a genus closely related to Arabidopsis, contains species spanning a developmental progression from C(3) to C(4) photosynthesis.

30 August 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3784582

Sea Anemone Genome Reveals Ancestral Eumetazoan Gene Repertoire and Genomic Organization

30 August 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3784582

LTR_FINDER: an efficient tool for the prediction of full-length LTR retrotransposons

30 August 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3784582

Elaboration of B gene function to include the identity of novel floral organs in the lower eudicot Aquilegia

30 August 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3784582

The ABC's of comparative genomics in the Brassicaceae: building blocks of crucifer genomes.

30 August 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3784582

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

30 August 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3784582

Following tetraploidy in an Arabidopsis ancestor, genes were removed preferentially from one homeolog leaving clusters enriched in dose-sensitive genes

30 August 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3784582

Independent ancient polyploidy events in the sister families Brassicaceae and Cleomaceae.

30 August 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3784582

AUGUSTUS: a web server for gene prediction in eukaryotes that allows user-defined constraints

30 August 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3784582

PILER: identification and classification of genomic repeats

30 August 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3784582

The future of C4 research--maize, Flaveria or Cleome?

30 August 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3784582

A gene expression map of Arabidopsis thaliana development

30 August 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3784582

Activation of hypersensitive cell death by pathogen-induced receptor-like protein kinases from Arabidopsis

30 August 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3784582

Natural variation in expression of self-incompatibility in Arabidopsis thaliana: implications for the evolution of selfing

30 August 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3784582

Four DEF-like MADS box genes displayed distinct floral morphogenetic roles in Phalaenopsis orchid

30 August 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3784582

TigrScan and GlimmerHMM: two open source ab initio eukaryotic gene-finders.

30 August 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3784582

The genetic, developmental, and molecular bases of fruit size and shape variation in tomato

30 August 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3784582

30 August 2018

GeneWise and Genomewise

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3784582

PerlPrimer: cross-platform, graphical primer design for standard, bisulphite and real-time PCR.

30 August 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3784582

OrthoMCL: Identification of Ortholog Groups for Eukaryotic Genomes

30 August 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3784582

Locating sequence on FPC maps and selecting a minimal tiling path

30 August 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3784582

Unravelling angiosperm genome evolution by phylogenetic analysis of chromosomal duplication events

30 August 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3784582

Comparisons with Caenorhabditis (approximately 100 Mb) and Drosophila (approximately 175 Mb) using flow cytometry show genome size in Arabidopsis to be approximately 157 Mb and thus approximately 25% larger than the Arabidopsis genome initiative est

30 August 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3784582

A recent polyploidy superimposed on older large-scale duplications in the Arabidopsis genome

30 August 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3784582

The SWISS-PROT protein knowledgebase and its supplement TrEMBL in 2003

30 August 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3784582

MAFFT: a novel method for rapid multiple sequence alignment based on fast Fourier transform

30 August 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3784582

Comparison of the expression patterns of two small gene families of S gene family receptor kinase genes during the defence response in Brassica oleracea and Arabidopsis thaliana

30 August 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3784582

InterProScan--an integration platform for the signature-recognition methods in InterPro

30 August 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3784582

Development of floral organ identity: stories from the MADS house

30 August 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3784582

Analysis of the genome sequence of the flowering plant Arabidopsis thaliana

30 August 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3784582

Gene ontology: tool for the unification of biology

30 August 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3784582

KEGG: kyoto encyclopedia of genes and genomes

30 August 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3784582

Symmetry in Flowers: Diversity and Evolution

30 August 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3784582

FPC: a system for building contigs from restriction fingerprinted clones

30 August 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3784582

Gapped BLAST and PSI-BLAST: a new generation of protein database search programs

30 August 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3784582

The self-incompatibility (S) haplotypes of Brassica contain highly divergent and rearranged sequences of ancient origin

30 August 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3784582

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

30 August 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3784582

A superfamily of S locus-related sequences in Arabidopsis: diverse structures and expression patterns

30 August 2018

1 reference

PubMed

https://pubmed.ncbi.nlm.nih.gov/23983221

inferred from PubMed ID database lookup

12 December 2020

based on heuristic

Using RepeatMasker to identify repetitive elements in genomic sequences

1 reference

PubMed

https://pubmed.ncbi.nlm.nih.gov/23983221