Comparative analyses of two Geraniaceae transcriptomes using next-generation sequencing (Q35076798)

6 August 2017

title

Comparative analyses of two Geraniaceae transcriptomes using next-generation sequencing (English)

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6 August 2017

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Geraniaceae

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4

Robert K Jansen

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6 August 2017

Jin Zhang

1

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6 August 2017

Tracey A Ruhlman

series ordinal

2

1 reference

6 August 2017

Jeffrey P Mower

series ordinal

3

1 reference

6 August 2017

publication date

29 December 2013

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6 August 2017

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6 August 2017

volume

13

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6 August 2017

page(s)

228

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describes a project that uses

6 August 2017

MIRA

object named as

MIRA

1 reference

CZ Software Mentions: A large dataset of software mentions in the biomedical literature

massive parallel sequencing

1 reference

based on heuristic

inferred from title

cites work

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8 July 2018

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8 July 2018

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8 July 2018

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8 July 2018

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8 July 2018

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8 July 2018

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8 July 2018

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8 July 2018

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8 July 2018

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8 July 2018

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8 July 2018

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8 July 2018

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8 July 2018

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8 July 2018

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AtECB2, a pentatricopeptide repeat protein, is required for chloroplast transcript accD RNA editing and early chloroplast biogenesis in Arabidopsis thaliana.

8 July 2018

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8 July 2018

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A comparative genomics approach identifies a PPR-DYW protein that is essential for C-to-U editing of the Arabidopsis chloroplast accD transcript

8 July 2018

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Evaluation of next generation sequencing platforms for population targeted sequencing studies

8 July 2018

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Genome-wide analyses of Geraniaceae plastid DNA reveal unprecedented patterns of increased nucleotide substitutions

8 July 2018

1 reference

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Pentatricopeptide repeat proteins: a socket set for organelle gene expression.

8 July 2018

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8 July 2018

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8 July 2018

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High-throughput gene and SNP discovery in Eucalyptus grandis, an uncharacterized genome

8 July 2018

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8 July 2018

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8 July 2018

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8 July 2018

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8 July 2018

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Extensive variation in synonymous substitution rates in mitochondrial genes of seed plants.

8 July 2018

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Conserved domain structure of pentatricopeptide repeat proteins involved in chloroplast RNA editing

8 July 2018

1 reference

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Plant sigma factors and their role in plastid transcription.

8 July 2018

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The Complete Chloroplast Genome Sequence of Pelargonium x hortorum: Organization and Evolution of the Largest and Most Highly Rearranged Chloroplast Genome of Land Plants

8 July 2018

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Cd-hit: a fast program for clustering and comparing large sets of protein or nucleotide sequences

8 July 2018

1 reference

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Unusual structure of geranium chloroplast DNA: A triple-sized inverted repeat, extensive gene duplications, multiple inversions, and two repeat families

8 July 2018

1 reference

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Mutation pressure and the evolution of organelle genomic architecture

8 July 2018

1 reference

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Multiple major increases and decreases in mitochondrial substitution rates in the plant family Geraniaceae

8 July 2018

1 reference

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Blast2GO: a universal tool for annotation, visualization and analysis in functional genomics research

8 July 2018

1 reference

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Genome sequencing in microfabricated high-density picolitre reactors

8 July 2018

1 reference

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A pentatricopeptide repeat protein is essential for RNA editing in chloroplasts

8 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3880972

Mitochondrial substitution rates are extraordinarily elevated and variable in a genus of flowering plants

8 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3880972

Genome-wide analysis of Arabidopsis pentatricopeptide repeat proteins reveals their essential role in organelle biogenesis

8 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3880972

Using the miraEST assembler for reliable and automated mRNA transcript assembly and SNP detection in sequenced ESTs

8 July 2018

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MUSCLE: multiple sequence alignment with high accuracy and high throughput

8 July 2018

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Complete chloroplast DNA sequence of the moss Physcomitrella patens: evidence for the loss and relocation of rpoA from the chloroplast to the nucleus

8 July 2018

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

8 July 2018

1 reference

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Punctuated evolution of mitochondrial gene content: high and variable rates of mitochondrial gene loss and transfer to the nucleus during angiosperm evolution

8 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3880972

Predicting subcellular localization of proteins based on their N-terminal amino acid sequence

8 July 2018

1 reference

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The PPR motif - a TPR-related motif prevalent in plant organellar proteins

8 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3880972

Profile hidden Markov models

8 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3880972

Leaf-specifically expressed genes for polypeptides destined for chloroplasts with domains of sigma70 factors of bacterial RNA polymerases in Arabidopsis thaliana

8 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3880972

Identification of prokaryotic and eukaryotic signal peptides and prediction of their cleavage sites

8 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3880972

Structure and function of bacterial sigma factors

8 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3880972

Transcriptomes of the parasitic plant family Orobanchaceae reveal surprising conservation of chlorophyll synthesis

8 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3880972

De novo transcriptome sequencing in Salvia miltiorrhiza to identify genes involved in the biosynthesis of active ingredients

27 September 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3880972

Recent loss of plastid-encoded ndh genes within Erodium (Geraniaceae).

27 September 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3880972

Editing of accD and ndhF chloroplast transcripts is partially affected in the Arabidopsis vanilla cream1 mutant

27 September 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3880972

A study of new Arabidopsis chloroplast RNA editing mutants reveals general features of editing factors and their target sites.

27 September 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3880972

LPA66 is required for editing psbF chloroplast transcripts in Arabidopsis.

27 September 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3880972

The Arabidopsis gene YS1 encoding a DYW protein is required for editing of rpoB transcripts and the rapid development of chloroplasts during early growth.

27 September 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3880972

CLB19, a pentatricopeptide repeat protein required for editing of rpoA and clpP chloroplast transcripts.

27 September 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3880972

Sampling the Arabidopsis transcriptome with massively parallel pyrosequencing

27 September 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3880972

Structure and evolution of the largest chloroplast gene (ORF2280): internal plasticity and multiple gene loss during angiosperm evolution

27 September 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3880972

Evolutionary conservation of C-terminal domains of primary sigma(70)-type transcription factors between plants and bacteria

27 September 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3880972

Pentatricopeptide repeat proteins with the DYW motif have distinct molecular functions in RNA editing and RNA cleavage in Arabidopsis chloroplasts

27 September 2018

1 reference

Crossref

https://api.crossref.org/works/10.1186%2F1471-2229-13-228

Evolutionary rate variation at multiple levels of biological organization in plant mitochondrial DNA

21 January 2018

1 reference

PubMed

https://pubmed.ncbi.nlm.nih.gov/24373163

inferred from PubMed ID database lookup

12 December 2020

based on heuristic

Identifiers

DOI

10.1186/1471-2229-13-228

1 reference

Dimensions Publication ID

6 August 2017

0 references

1 reference

6 August 2017

1 reference