(Q34484807)

English

The Highly Reduced Plastome of Mycoheterotrophic Sciaphila (Triuridaceae) Is Colinear with Its Green Relatives and Is under Strong Purifying Selection.

scientific article

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scholarly article

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Europe PubMed Central

https://www.ebi.ac.uk/europepmc/webservices/rest/search?query=EXT_ID:26170229%20AND%20SRC:MED&resulttype=core&format=json

19 February 2020

The Highly Reduced Plastome of Mycoheterotrophic Sciaphila (Triuridaceae) Is Colinear with Its Green Relatives and Is under Strong Purifying Selection (English)

1 reference

Europe PubMed Central

https://www.ebi.ac.uk/europepmc/webservices/rest/search?query=EXT_ID:26170229%20AND%20SRC:MED&resulttype=core&format=json

19 February 2020

Myco-heterotrophy

1 reference

based on heuristic

inferred from title

object named as

Triuridaceae

1 reference

based on heuristic

inferred from title

1 reference

based on heuristic

inferred from title

3

1 reference

Europe PubMed Central

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19 February 2020

author name string

Vivienne K Y Lam

1

1 reference

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19 February 2020

Marybel Soto Gomez

2

1 reference

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19 February 2020

publication date

13 July 2015

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19 February 2020

Genome Biology and Evolution

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19 February 2020

7

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19 February 2020

8

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19 February 2020

2220-2236

1 reference

Europe PubMed Central

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19 February 2020

Factors mediating plastid dependency and the origins of parasitism in apicomplexans and their close relatives

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4558852

6 July 2018

Exploring the limits for reduction of plastid genomes: a case study of the mycoheterotrophic orchids Epipogium aphyllum and Epipogium roseum.

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4558852

6 July 2018

Investigating the path of plastid genome degradation in an early-transitional clade of heterotrophic orchids, and implications for heterotrophic angiosperms

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4558852

6 July 2018

A plastid without a genome: evidence from the nonphotosynthetic green algal genus Polytomella.

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4558852

6 July 2018

Possible loss of the chloroplast genome in the parasitic flowering plant Rafflesia lagascae (Rafflesiaceae)

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4558852

6 July 2018

The plastid genome of mycoheterotrophic monocot Petrosavia stellaris exhibits both gene losses and multiple rearrangements

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4558852

6 July 2018

Superiority of a mechanistic codon substitution model even for protein sequences in phylogenetic analysis

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4558852

6 July 2018

Mechanisms of functional and physical genome reduction in photosynthetic and nonphotosynthetic parasitic plants of the broomrape family

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4558852

6 July 2018

New insights in the long-debated evolutionary history of Triuridaceae (Pandanales).

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4558852

6 July 2018

OrganellarGenomeDRAW--a suite of tools for generating physical maps of plastid and mitochondrial genomes and visualizing expression data sets

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4558852

6 July 2018

Complete chloroplast genome sequence of holoparasite Cistanche deserticola (Orobanchaceae) reveals gene loss and horizontal gene transfer from its host Haloxylon ammodendron (Chenopodiaceae).

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4558852

6 July 2018

The plastid genome of the mycoheterotrophic Corallorhiza striata (Orchidaceae) is in the relatively early stages of degradation

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4558852

6 July 2018

jModelTest 2: more models, new heuristics and parallel computing

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4558852

6 July 2018

Evolutionary constraints on the plastid tRNA set decoding methionine and isoleucine.

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4558852

6 July 2018

Molecular phylogenetics: principles and practice

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4558852

6 July 2018

PartitionFinder: Combined Selection of Partitioning Schemes and Substitution Models for Phylogenetic Analyses

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4558852

6 July 2018

The primary transcriptome of barley chloroplasts: numerous noncoding RNAs and the dominating role of the plastid-encoded RNA polymerase

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4558852

6 July 2018

Sequencing and analysis of plastid genome in mycoheterotrophic orchid Neottia nidus-avis.

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4558852

6 July 2018

Phylogeny and evolution of Burmanniaceae (Dioscoreales) based on nuclear and mitochondrial data

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4558852

6 July 2018

Building a model: developing genomic resources for common milkweed (Asclepias syriaca) with low coverage genome sequencing.

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4558852

6 July 2018

The evolution of the plastid chromosome in land plants: gene content, gene order, gene function

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4558852

6 July 2018

Resolving difficult phylogenetic questions: why more sequences are not enough

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4558852

6 July 2018

Rampant gene loss in the underground orchid Rhizanthella gardneri highlights evolutionary constraints on plastid genomes

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4558852

6 July 2018

Localized hypermutation and associated gene losses in legume chloroplast genomes

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4558852

6 July 2018

Plastid ndh genes in plant evolution

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4558852

6 July 2018

Recombination and the maintenance of plant organelle genome stability.

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4558852

6 July 2018

An organellar maturase associates with multiple group II introns

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4558852

6 July 2018

Parallel loss of plastid introns and their maturase in the genus Cuscuta

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4558852

6 July 2018

Multiplex sequencing of plant chloroplast genomes using Solexa sequencing-by-synthesis technology

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4558852

6 July 2018

From chloroplasts to "cryptic" plastids: evolution of plastid genomes in parasitic plants.

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4558852

6 July 2018

How well do we understand the overall backbone of cycad phylogeny? New insights from a large, multigene plastid data set.

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4558852

6 July 2018

Functional Gene Losses Occur with Minimal Size Reduction in the Plastid Genome of the Parasitic Liverwort Aneura mirabilis

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4558852

6 July 2018

Analysis of 81 genes from 64 plastid genomes resolves relationships in angiosperms and identifies genome-scale evolutionary patterns

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4558852

6 July 2018

Phylogenetic and evolutionary implications of complete chloroplast genome sequences of four early-diverging angiosperms: Buxus (Buxaceae), Chloranthus (Chloranthaceae), Dioscorea (Dioscoreaceae), and Illicium (Schisandraceae)

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4558852

6 July 2018

Primer3Plus, an enhanced web interface to Primer3

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4558852

6 July 2018

PAML 4: phylogenetic analysis by maximum likelihood

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4558852

6 July 2018

Enhancements and modifications of primer design program Primer3.

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4558852

6 July 2018

RAxML-VI-HPC: maximum likelihood-based phylogenetic analyses with thousands of taxa and mixed models

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4558852

6 July 2018

The complete plastid genome sequence of the parasitic green alga Helicosporidium sp. is highly reduced and structured

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4558852

6 July 2018

Why are plastid genomes retained in non-photosynthetic organisms?

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4558852

6 July 2018

Evaluation of an improved branch-site likelihood method for detecting positive selection at the molecular level

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4558852

6 July 2018

Rate variation in parasitic plants: correlated and uncorrelated patterns among plastid genes of different function

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4558852

6 July 2018

Automatic annotation of organellar genomes with DOGMA

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4558852

6 July 2018

Complete Genome Sequence of the Apicomplexan, Cryptosporidium parvum

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4558852

6 July 2018

Photosynthetic evolution in parasitic plants: insight from the chloroplast genome

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4558852

6 July 2018

A Simple, Fast, and Accurate Algorithm to Estimate Large Phylogenies by Maximum Likelihood

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4558852

6 July 2018

Inference of higher-order relationships in the cycads from a large chloroplast data set.

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4558852

6 July 2018

Bias in phylogenetic estimation and its relevance to the choice between parsimony and likelihood methods

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4558852

6 July 2018

Systematic bias in phylogenetic analysis: is the Strepsiptera problem solved?

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4558852

6 July 2018

Models of molecular evolution and phylogeny

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4558852

6 July 2018

Phylogenetic analysis using parsimony and likelihood methods

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4558852

6 July 2018

Complete gene map of the plastid-like DNA of the malaria parasite Plasmodium falciparum

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4558852

6 July 2018

A codon-based model of nucleotide substitution for protein-coding DNA sequences

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4558852

6 July 2018

Phylogenies from molecular sequences: inference and reliability

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4558852

6 July 2018

Basic local alignment search tool

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4558852

6 July 2018

Function and evolution of a minimal plastid genome from a nonphotosynthetic parasitic plant

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4558852

6 July 2018

An update of the Angiosperm Phylogeny Group classification for the orders and families of flowering plants: APG III

1 reference

https://api.crossref.org/works/10.1093%2FGBE%2FEVV134

21 January 2018

Phylogenetics of Dioscoreales based on combined analyses of morphological and molecular data

1 reference

https://api.crossref.org/works/10.1093%2FGBE%2FEVV134

21 January 2018

Monocotyledon Evolution

1 reference

https://api.crossref.org/works/10.1093%2FGBE%2FEVV134

21 January 2018

A Phylogeny of the Monocots, as Inferred from rbcL and atpA Sequence Variation, and a Comparison of Methods for Calculating Jackknife and Bootstrap Values

1 reference

https://api.crossref.org/works/10.1093%2FGBE%2FEVV134

21 January 2018

Cases in which Parsimony or Compatibility Methods will be Positively Misleading

1 reference

https://api.crossref.org/works/10.1093%2FGBE%2FEVV134

21 January 2018

Phylogenies and the Comparative Method

1 reference

https://api.crossref.org/works/10.1093%2FGBE%2FEVV134

21 January 2018

Assembling the Tree of the Monocotyledons: Plastome Sequence Phylogeny and Evolution of Poales1

1 reference

https://api.crossref.org/works/10.1093%2FGBE%2FEVV134

21 January 2018

Is the Felsenstein zone a fly trap?

1 reference

https://api.crossref.org/works/10.1093%2FGBE%2FEVV134

21 January 2018

Power analysis of tests for loss of selective constraint in cave crayfish and nonphotosynthetic plant lineages

1 reference

https://api.crossref.org/works/10.1093%2FGBE%2FEVV134

21 January 2018

Bias and conflict in phylogenetic inference of myco-heterotrophic plants: a case study in Thismiaceae

1 reference

https://api.crossref.org/works/10.1093%2FGBE%2FEVV134

21 January 2018

X. Description of a new Genus of Plants from Brazil.

1 reference

https://api.crossref.org/works/10.1093%2FGBE%2FEVV134

21 January 2018

A phylogenetic analysis of large‐subunit (26S) ribosome DNA sequences suggests that the Corsiaceae are polyphyletic

1 reference

https://api.crossref.org/works/10.1093%2FGBE%2FEVV134

21 January 2018

Mosaic origin of the heme biosynthesis pathway in photosynthetic eukaryotes

1 reference

https://api.crossref.org/works/10.1093%2FGBE%2FEVV134

21 January 2018

Superwobbling facilitates translation with reduced tRNA sets

1 reference

https://api.crossref.org/works/10.1093%2FGBE%2FEVV134

21 January 2018

Potential functional replacement of the plastidic acetyl-CoA carboxylase subunit (accD) gene by recent transfers to the nucleus in some angiosperm lineages.

1 reference

https://api.crossref.org/works/10.1093%2FGBE%2FEVV134

21 January 2018

Morphological Phylogenetic Analysis of Pandanales: Testing Contrasting Hypotheses of Floral Evolution

1 reference

https://api.crossref.org/works/10.1093%2FGBE%2FEVV134

21 January 2018

Evolutionary and biotechnology implications of plastid genome variation in the inverted-repeat-lacking clade of legumes

1 reference

https://api.crossref.org/works/10.1093%2FGBE%2FEVV134

21 January 2018

Estimating the Dimension of a Model

1 reference

https://api.crossref.org/works/10.1093%2FGBE%2FEVV134

21 January 2018

Disproportional plastome-wide increase of substitution rates and relaxed purifying selection in genes of carnivorous Lentibulariaceae

1 reference

https://api.crossref.org/works/10.1093%2FGBE%2FEVV134

21 January 2018

Multiple hypothesis testing to detect lineages under positive selection that affects only a few sites

1 reference

https://pubmed.ncbi.nlm.nih.gov/26170229

12 December 2020

based on heuristic

inferred from PubMed ID database lookup

Evolution of mycoheterotrophy in plants: a phylogenetic perspective

1 reference

https://pubmed.ncbi.nlm.nih.gov/26170229

12 December 2020

based on heuristic

inferred from PubMed ID database lookup

Identifiers

10.1093/GBE/EVV134

1 reference

Europe PubMed Central

https://www.ebi.ac.uk/europepmc/webservices/rest/search?query=EXT_ID:26170229%20AND%20SRC:MED&resulttype=core&format=json

19 February 2020

1 reference

Europe PubMed Central

https://www.ebi.ac.uk/europepmc/webservices/rest/search?query=EXT_ID:26170229%20AND%20SRC:MED&resulttype=core&format=json

19 February 2020

1 reference

Europe PubMed Central

https://www.ebi.ac.uk/europepmc/webservices/rest/search?query=EXT_ID:26170229%20AND%20SRC:MED&resulttype=core&format=json

19 February 2020

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