(Q34397362)

1 August 2017

title

Single nucleus genome sequencing reveals high similarity among nuclei of an endomycorrhizal fungus (English)

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1 August 2017

main subject

whole genome sequencing

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19

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1 August 2017

Robin van Velzen

15

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Norbert de Ruijter

Norbert de Ruijter

16

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Sanwen Huang

Sanwen Huang

22

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Joe Win

Joe Win

18

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author name string

Kui Lin

1

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1 August 2017

Erik Limpens

2

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1 August 2017

Zhonghua Zhang

3

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1 August 2017

Sergey Ivanov

4

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1 August 2017

Diane G O Saunders

5

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1 August 2017

Desheng Mu

6

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1 August 2017

Erli Pang

7

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1 August 2017

Huifen Cao

8

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1 August 2017

Hwangho Cha

9

1 reference

1 August 2017

Tao Lin

10

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1 August 2017

Qian Zhou

11

1 reference

1 August 2017

Yi Shang

12

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1 August 2017

Ying Li

13

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1 August 2017

Trupti Sharma

14

1 reference

1 August 2017

Duur K Aanen

17

1 reference

1 August 2017

Ton Bisseling

20

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1 August 2017

René Geurts

21

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1 August 2017

publication date

9 January 2014

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1 August 2017

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1 August 2017

volume

10

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1 August 2017

issue

1

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1 August 2017

page(s)

e1004078

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Creative Commons Attribution 4.0 International

1 August 2017

copyright license

start time

9 January 2014

1 reference

April 2022 Public Data File from Crossref

copyright status

copyrighted

0 references

describes a project that uses

MUMmer

MUMmer

1 reference

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

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6 July 2018

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6 July 2018

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6 July 2018

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Spore development and nuclear inheritance in arbuscular mycorrhizal fungi

6 July 2018

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6 July 2018

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Clonality and recombination in the life history of an asexual arbuscular mycorrhizal fungus

6 July 2018

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Périgord black truffle genome uncovers evolutionary origins and mechanisms of symbiosis

6 July 2018

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Genome sequence and analysis of the Irish potato famine pathogen Phytophthora infestans

6 July 2018

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T-REKS: identification of Tandem REpeats in sequences with a K-meanS based algorithm

6 July 2018

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Genomic analysis of the basal lineage fungus Rhizopus oryzae reveals a whole-genome duplication

6 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3886924

'Glomus intraradices DAOM197198', a model fungus in arbuscular mycorrhiza research, is not Glomus intraradices.

6 July 2018

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6 July 2018

Fungal effector proteins

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Recombination in Glomus intraradices, a supposed ancient asexual arbuscular mycorrhizal fungus

6 July 2018

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A rapid bootstrap algorithm for the RAxML Web servers

6 July 2018

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Arbuscular mycorrhiza: the mother of plant root endosymbioses

6 July 2018

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https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3886924

Gene prediction in novel fungal genomes using an ab initio algorithm with unsupervised training

6 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3886924

Recent developments in the MAFFT multiple sequence alignment program

6 July 2018

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https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3886924

A space-efficient and accurate method for mapping and aligning cDNA sequences onto genomic sequence

6 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3886924

The genome of Laccaria bicolor provides insights into mycorrhizal symbiosis

6 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3886924

The genome of the choanoflagellate Monosiga brevicollis and the origin of metazoans

6 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3886924

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

6 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3886924

WoLF PSORT: protein localization predictor

6 July 2018

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https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3886924

Phylogeny of the Glomeromycota (arbuscular mycorrhizal fungi): recent developments and new gene markers

6 July 2018

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

6 July 2018

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6 July 2018

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6 July 2018

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Insights from the genome of the biotrophic fungal plant pathogen Ustilago maydis

6 July 2018

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Reconstructing the early evolution of Fungi using a six-gene phylogeny

6 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3886924

Repetitive DNA sequences include retrotransposons in genomes of the Glomeromycota.

6 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3886924

Loss of the flagellum happened only once in the fungal lineage: phylogenetic structure of kingdom Fungi inferred from RNA polymerase II subunit genes

6 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3886924

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

6 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3886924

The fate of transposable elements in asexual populations

6 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3886924

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

6 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3886924

Evolution of the P-type II ATPase gene family in the fungi and presence of structural genomic changes among isolates of Glomus intraradices

6 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3886924

Computational and comparative analyses of 150 full-length cDNA sequences from the oomycete plant pathogen Phytophthora infestans

6 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3886924

Repbase Update, a database of eukaryotic repetitive elements

6 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3886924

Mobile genetic elements and sexual reproduction

6 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3886924

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

6 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3886924

InterProScan: protein domains identifier

6 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3886924

De novo identification of repeat families in large genomes

6 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3886924

PILER: identification and classification of genomic repeats

6 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3886924

The genome sequence of the rice blast fungus Magnaporthe grisea

6 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3886924

Low gene copy number shows that arbuscular mycorrhizal fungi inherit genetically different nuclei

6 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3886924

The Universal Protein Resource (UniProt)

6 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3886924

Gene finding in novel genomes

6 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3886924

Improving the Arabidopsis genome annotation using maximal transcript alignment assemblies

6 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3886924

OrthoMCL: Identification of Ortholog Groups for Eukaryotic Genomes

6 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3886924

EST mining and functional expression assays identify extracellular effector proteins from the plant pathogen Phytophthora

6 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3886924

The genome sequence of the filamentous fungus Neurospora crassa

6 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3886924

PROSITE: a documented database using patterns and profiles as motif descriptors

6 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3886924

An efficient algorithm for large-scale detection of protein families

6 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3886924

CONSEL: for assessing the confidence of phylogenetic tree selection

6 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3886924

Intraindividual and intraspecies variability of ITS1 sequences in the ancient asexual Darwinula stevensoni (Crustacea: Ostracoda).

6 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3886924

Finding nuclear localization signals

6 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3886924

The InterPro database, an integrated documentation resource for protein families, domains and functional sites

6 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3886924

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

6 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3886924

6 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3886924

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

6 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3886924

Persistent nuclear ribosomal DNA sequence polymorphism in the Amelanchier agamic complex (Rosaceae).

6 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3886924

Basic local alignment search tool

6 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3886924

Nonself vegetative fusion and genetic exchange in the arbuscular mycorrhizal fungus Glomus intraradices.

6 July 2018

1 reference

https://api.crossref.org/works/10.1371%2FJOURNAL.PGEN.1004078

Evidence for the evolution of multiple genomes in arbuscular mycorrhizal fungi

21 January 2018

1 reference

https://api.crossref.org/works/10.1371%2FJOURNAL.PGEN.1004078

Organization of genetic variation in individuals of arbuscular mycorrhizal fungi

21 January 2018

1 reference

https://api.crossref.org/works/10.1371%2FJOURNAL.PGEN.1004078

The long hard road to a completedGlomus intraradicesgenome

21 January 2018

1 reference

https://api.crossref.org/works/10.1371%2FJOURNAL.PGEN.1004078

Segregation in a mycorrhizal fungus alters rice growth and symbiosis-specific gene transcription.

21 January 2018

1 reference

https://api.crossref.org/works/10.1371%2FJOURNAL.PGEN.1004078

Intra-isolate genome variation in arbuscular mycorrhizal fungi persists in the transcriptome

21 January 2018

1 reference

https://api.crossref.org/works/10.1371%2FJOURNAL.PGEN.1004078

The mitochondrial genome sequence of the arbuscular mycorrhizal fungus Glomus intraradices isolate 494 and implications for the phylogenetic placement of Glomus

21 January 2018

1 reference

https://api.crossref.org/works/10.1371%2FJOURNAL.PGEN.1004078

High-throughput microbial population genomics using the Cortex variation assembler

21 January 2018

1 reference

https://api.crossref.org/works/10.1371%2FJOURNAL.PGEN.1004078

Direct mapping and alignment of protein sequences onto genomic sequence.

21 January 2018

1 reference

https://api.crossref.org/works/10.1371%2FJOURNAL.PGEN.1004078

Using native and syntenically mapped cDNA alignments to improve de novo gene finding.

21 January 2018

1 reference

https://api.crossref.org/works/10.1371%2FJOURNAL.PGEN.1004078

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

21 January 2018

1 reference

https://api.crossref.org/works/10.1371%2FJOURNAL.PGEN.1004078

Overview of the yeast genome.

21 January 2018

1 reference

https://api.crossref.org/works/10.1371%2FJOURNAL.PGEN.1004078

A gene for carotene cleavage required for pheromone biosynthesis and carotene regulation in the fungus Phycomyces blakesleeanus

21 January 2018

1 reference

https://api.crossref.org/works/10.1371%2FJOURNAL.PGEN.1004078

Shared signatures of parasitism and phylogenomics unite Cryptomycota and microsporidia

21 January 2018

1 reference

https://api.crossref.org/works/10.1371%2FJOURNAL.PGEN.1004078

Annotating proteins from endoplasmic reticulum and Golgi apparatus in eukaryotic proteomes

21 January 2018

1 reference

https://api.crossref.org/works/10.1371%2FJOURNAL.PGEN.1004078

Intraspecific ITS variability in the kingdom fungi as expressed in the international sequence databases and its implications for molecular species identification.

21 January 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3886924

rtREV: an amino acid substitution matrix for inference of retrovirus and reverse transcriptase phylogeny

27 October 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3886924

Estimation of the Glomus intraradices nuclear DNA content

27 October 2018

1 reference

12 December 2020

High genetic diversity in arbuscular mycorrhizal fungi: evidence for recombination events

1 reference

12 December 2020

A Secreted Fungal Effector of Glomus intraradices Promotes Symbiotic Biotrophy

1 reference

12 December 2020

Plugging into the network: belowground connections between germlings and extraradical mycelium of arbuscular mycorrhizal fungi

1 reference

12 December 2020

10.1371/JOURNAL.PGEN.1004078

Identifiers

DOI

1 reference

1 August 2017

1 reference

1 August 2017

1 reference