Extraordinary transgressive phenotypes of hybrid tomato are influenced by epigenetics and small silencing RNAs. (Q35681648)

https://www.ebi.ac.uk/europepmc/webservices/rest/search?query=EXT_ID:22179699%20AND%20SRC:MED&resulttype=core&format=json

18 January 2020

title

Extraordinary transgressive phenotypes of hybrid tomato are influenced by epigenetics and small silencing RNAs (English)

1 reference

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18 January 2020

1 reference

5

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18 January 2020

Bruno Santos

3

1 reference

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18 January 2020

Andrew R Bassett

4

1 reference

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18 January 2020

author name string

Padubidri V Shivaprasad

1

1 reference

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18 January 2020

Ruth M Dunn

2

1 reference

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18 January 2020

language of work or name

English

0 references

publication date

16 December 2011

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18 January 2020

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18 January 2020

volume

31

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18 January 2020

page(s)

257-266

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18 January 2020

issue

2

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Salt and drought stresses induce the aberrant expression of microRNA genes in tobacco

18 January 2020

cites work

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3261569

Changes in 24-nt siRNA levels in Arabidopsis hybrids suggest an epigenetic contribution to hybrid vigor

12 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3261569

Differential expression analysis for sequence count data

12 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3261569

baySeq: empirical Bayesian methods for identifying differential expression in sequence count data

12 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3261569

Repeat elements and the Arabidopsis DNA methylation landscape

12 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3261569

Salt tolerance in Solanum pennellii: antioxidant response and related QTL

12 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3261569

Establishing, maintaining and modifying DNA methylation patterns in plants and animals

12 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3261569

Accurate sodium bisulfite sequencing in plants

12 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3261569

Molecular mechanisms of polyploidy and hybrid vigor

12 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3261569

BLAST+: architecture and applications

12 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3261569

Small RNAs serve as a genetic buffer against genomic shock in Arabidopsis interspecific hybrids and allopolyploids

12 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3261569

Differential and dynamic regulation of miR398 in response to ABA and salt stress in Populus tremula and Arabidopsis thaliana.

12 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3261569

RNA-mediated chromatin-based silencing in plants

12 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3261569

Noncoding transcription by RNA polymerase Pol IVb/Pol V mediates transcriptional silencing of overlapping and adjacent genes

12 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3261569

Differential expression of miRNAs in response to salt stress in maize roots

12 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3261569

Tomato phenylalanine ammonia-lyase gene family, highly redundant but strongly underutilized

12 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3261569

Kismeth: analyzer of plant methylation states through bisulfite sequencing

12 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3261569

The Tomato Sequencing Project, the first cornerstone of the International Solanaceae Project (SOL).

12 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3261569

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

12 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3261569

Epigenetic, transposon and small RNA determinants of hybrid dysfunctions

12 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3261569

Sorting of small RNAs into Arabidopsis argonaute complexes is directed by the 5' terminal nucleotide

12 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3261569

A genomic view of introgression and hybrid speciation

12 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3261569

An integrated view of quantitative trait variation using tomato interspecific introgression lines

12 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3261569

Hybrid necrosis: autoimmunity as a potential gene-flow barrier in plant species

12 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3261569

Bioinformatic prediction and experimental validation of a microRNA-directed tandem trans-acting siRNA cascade in Arabidopsis

12 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3261569

The role of microRNAs in sensing nutrient stress

12 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3261569

Heterosis: revisiting the magic

12 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3261569

Overdominant quantitative trait loci for yield and fitness in tomato

12 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3261569

Methods and concepts in quantifying resistance to drought, salt and freezing, abiotic stresses that affect plant water status

12 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3261569

Extensive chromosomal repatterning and the evolution of sterility barriers in hybrid sunflower species

12 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3261569

FRIGIDA-independent variation in flowering time of natural Arabidopsis thaliana accessions

12 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3261569

microRNA-directed phasing during trans-acting siRNA biogenesis in plants

12 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3261569

RNAi-mediated pathways in the nucleus

12 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3261569

Epistatic interaction between Arabidopsis FRI and FLC flowering time genes generates a latitudinal cline in a life history trait.

12 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3261569

Endogenous trans-acting siRNAs regulate the accumulation of Arabidopsis mRNAs

12 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3261569

SGS3 and SGS2/SDE1/RDR6 are required for juvenile development and the production of trans-acting siRNAs in Arabidopsis

12 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3261569

Bioconductor: open software development for computational biology and bioinformatics

12 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3261569

12 July 2018

RNA silencing in plants

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3261569

Computational identification of plant microRNAs and their targets, including a stress-induced miRNA

12 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3261569

Genetic and functional diversification of small RNA pathways in plants

12 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3261569

Quantitative trait locus analysis of leaf dissection in tomato using Lycopersicon pennellii segmental introgression lines

12 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3261569

Genetic engineering of the glyoxalase pathway in tobacco leads to enhanced salinity tolerance

12 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3261569

The genetic architecture necessary for transgressive segregation is common in both natural and domesticated populations

12 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3261569

Two classes of short interfering RNA in RNA silencing

12 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3261569

Regulation of heterochromatic silencing and histone H3 lysine-9 methylation by RNAi

12 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3261569

Sequence elimination and cytosine methylation are rapid and reproducible responses of the genome to wide hybridization and allopolyploidy in wheat

12 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3261569

Transgressive segregation, adaptation and speciation.

12 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3261569

Seed banks and molecular maps: unlocking genetic potential from the wild

12 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3261569

Role of Gene Interactions in Hybrid Speciation: Evidence from Ancient and Experimental Hybrids

12 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3261569

QTL analysis of transgressive segregation in an interspecific tomato cross

12 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3261569

12 July 2018

1 reference

https://api.crossref.org/works/10.1038%2FEMBOJ.2011.458

RNA silencing genes control de novo DNA methylation

21 January 2018

1 reference

https://api.crossref.org/works/10.1038%2FEMBOJ.2011.458

CyMATE: a new tool for methylation analysis of plant genomic DNA after bisulphite sequencing.

21 January 2018

1 reference

https://api.crossref.org/works/10.1038%2FEMBOJ.2011.458

Sulphur starvation induces the expression of microRNA-395 and one of its target genes but in different cell types

21 January 2018

1 reference

https://api.crossref.org/works/10.1038%2FEMBOJ.2011.458

A toolkit for analysing large-scale plant small RNA datasets.

21 January 2018

1 reference

https://api.crossref.org/works/10.1038%2FEMBOJ.2011.458

PatMaN: rapid alignment of short sequences to large databases

21 January 2018

1 reference

https://api.crossref.org/works/10.1038%2FEMBOJ.2011.458

Molecular phenotyping of the pal1 and pal2 mutants of Arabidopsis thaliana reveals far-reaching consequences on phenylpropanoid, amino acid, and carbohydrate metabolism

21 January 2018

1 reference

https://api.crossref.org/works/10.1038%2FEMBOJ.2011.458

Biochemical networks and epistasis shape the Arabidopsis thaliana metabolome

21 January 2018

1 reference

https://api.crossref.org/works/10.1038%2FEMBOJ.2011.458

Genetic and epigenetic consequences of recent hybridization and polyploidy in Spartina (Poaceae).

21 January 2018

1 reference

https://api.crossref.org/works/10.1038%2FEMBOJ.2011.458

Comprehensive metabolic profiling and phenotyping of interspecific introgression lines for tomato improvement.

21 January 2018

1 reference

https://api.crossref.org/works/10.1038%2FEMBOJ.2011.458

A role for RNAi in the selective correction of DNA methylation defects.

21 January 2018

1 reference

https://api.crossref.org/works/10.1038%2FEMBOJ.2011.458

An introgression line population of Lycopersicon pennellii in the cultivated tomato enables the identification and fine mapping of yield-associated QTL.

21 January 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3261569

Differential expression analysis for sequence count data

25 September 2018

1 reference

https://api.crossref.org/works/10.1038%2FEMBOJ.2011.458

A Snapshot of the Emerging Tomato Genome Sequence

21 January 2018

1 reference

https://api.crossref.org/works/10.1038%2FEMBOJ.2011.458

Meiotic silencing by unpaired DNA

21 January 2018

1 reference

PubMed

https://pubmed.ncbi.nlm.nih.gov/22179699

inferred from PubMed ID database lookup

12 December 2020

based on heuristic

Extraction of DNA from milligram amounts of fresh, herbarium and mummified plant tissues

1 reference

PubMed

https://pubmed.ncbi.nlm.nih.gov/22179699

inferred from PubMed ID database lookup

12 December 2020

based on heuristic

Retrotransposon activation followed by rapid repression in introgressed rice plants

1 reference

PubMed

https://pubmed.ncbi.nlm.nih.gov/22179699

inferred from PubMed ID database lookup

12 December 2020

based on heuristic

Identifiers

DOI

10.1038/EMBOJ.2011.458

1 reference

https://www.ebi.ac.uk/europepmc/webservices/rest/search?query=EXT_ID:22179699%20AND%20SRC:MED&resulttype=core&format=json

18 January 2020

1 reference

https://www.ebi.ac.uk/europepmc/webservices/rest/search?query=EXT_ID:22179699%20AND%20SRC:MED&resulttype=core&format=json

18 January 2020

1 reference