The rise and fall of the Phytophthora infestans lineage that triggered the Irish potato famine (Q21128789)

16 August 2022

9

Sophien Kamoun

Sophien

Kamoun

1 reference

16 August 2022

12

Detlef Weigel

Detlef

Weigel

1 reference

16 August 2022

11

Marco Thines

Marco

Thines

1 reference

16 August 2022

Kentaro Yoshida

1

Kentaro

Yoshida

1 reference

16 August 2022

13

Hernán A Burbano

Hernán A

Burbano

1 reference

16 August 2022

2

Verena J Schuenemann

Verena J

Schuenemann

1 reference

16 August 2022

Liliana M Cano

3

Liliana M

Cano

1 reference

16 August 2022

Marina Pais

4

Marina

Pais

1 reference

16 August 2022

Bagdevi Mishra

5

Bagdevi

Mishra

1 reference

16 August 2022

Rahul Sharma

6

Rahul

Sharma

1 reference

16 August 2022

Chirsta Lanz

7

Chirsta

Lanz

1 reference

16 August 2022

Frank N Martin

8

Frank N

Martin

1 reference

Yersinia pestis: new evidence for an old infection

16 August 2022

language of work or name

English

0 references

publication date

2013

0 references

published in

eLife

0 references

volume

2

0 references

page(s)

e00731

0 references

cites work

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3667578

A high-coverage genome sequence from an archaic Denisovan individual

19 March 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3667578

The tomato genome sequence provides insights into fleshy fruit evolution

19 March 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3667578

Bayesian phylogenetics with BEAUti and the BEAST 1.7

19 March 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3667578

A draft genome of Yersinia pestis from victims of the Black Death

19 March 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3667578

Ancient human genome sequence of an extinct Palaeo-Eskimo

19 March 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3667578

Fast and accurate short read alignment with Burrows-Wheeler transform

19 March 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3667578

A complete Neandertal mitochondrial genome sequence determined by high-throughput sequencing

19 March 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3667578

Novel high-resolution characterization of ancient DNA reveals C > U-type base modification events as the sole cause of post mortem miscoding lesions

19 March 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3667578

Patterns of damage in genomic DNA sequences from a Neandertal

19 March 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3667578

Kalign--an accurate and fast multiple sequence alignment algorithm

19 March 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3667578

The evolutionary advantage of recombination

19 March 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3667578

Genome sequence and analysis of the tuber crop potato

19 March 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3667578

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

19 March 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3667578

Basic local alignment search tool

19 March 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3667578

MEGA5: Molecular Evolutionary Genetics Analysis Using Maximum Likelihood, Evolutionary Distance, and Maximum Parsimony Methods

19 March 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3667578

The Sequence Alignment/Map format and SAMtools

19 March 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3667578

PAML 4: phylogenetic analysis by maximum likelihood

19 March 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3667578

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

19 March 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3667578

EMBOSS: the European Molecular Biology Open Software Suite

19 March 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3667578

Sequencing the nuclear genome of the extinct woolly mammoth

19 March 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3667578

The biology of Phytophthora infestans at its center of origin

19 March 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3667578

Genetic analyses from ancient DNA

19 March 2017

2 references

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3667578

19 March 2017

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3667578

Targeted investigation of the Neandertal genome by array-based sequence capture

7 April 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3667578

Ancient DNA: extraction, characterization, molecular cloning, and enzymatic amplification

19 March 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3667578

Integrative genomics viewer

19 March 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3667578

SOAPdenovo2: an empirically improved memory-efficient short-read de novo assembler

7 April 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3667578

A program for annotating and predicting the effects of single nucleotide polymorphisms, SnpEff: SNPs in the genome of Drosophila melanogaster strain w1118; iso-2; iso-3

7 April 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3667578

Emerging fungal threats to animal, plant and ecosystem health

7 April 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3667578

Illumina sequencing library preparation for highly multiplexed target capture and sequencing

7 April 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3667578

PAL2NAL: robust conversion of protein sequence alignments into the corresponding codon alignments

7 April 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3667578

DNA sequences from multiple amplifications reveal artifacts induced by cytosine deamination in ancient DNA

7 April 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3667578

Genome analyses of an aggressive and invasive lineage of the Irish potato famine pathogen

7 April 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3667578

Analysis of high-throughput ancient DNA sequencing data

12 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3667578

Understanding and exploiting late blight resistance in the age of effectors.

12 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3667578

Analyses of genome architecture and gene expression reveal novel candidate virulence factors in the secretome of Phytophthora infestans

12 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3667578

Sampling-through-time in birth-death trees

12 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3667578

Heterokaryotic nuclear conditions and a heterogeneous nuclear population are observed by flow cytometry in Phytophthora infestans

12 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3667578

The Population Structure of Phytophthora infestans from the Toluca Valley of Central Mexico Suggests Genetic Differentiation Between Populations from Cultivated Potato and Wild Solanum spp.

12 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3667578

Phytophthora infestans: the plant (and R gene) destroyer.

12 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3667578

An ancestral oomycete locus contains late blight avirulence gene Avr3a, encoding a protein that is recognized in the host cytoplasm

12 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3667578

Organization of genes controlling disease resistance in the potato genome

12 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3667578

PCR amplification of the Irish potato famine pathogen from historic specimens.

12 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3667578

Initial assessment of gene diversity for the oomycete pathogen Phytophthora infestans based on expressed sequences

12 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3667578

Panglobal distribution of a single clonal lineage of the Irish potato famine fungus

12 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3667578

Removal of deaminated cytosines and detection of in vivo methylation in ancient DNA.

12 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3667578

Phylogenetic analysis of Phytophthora species based on mitochondrial and nuclear DNA sequences

27 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3667578

pIRS: Profile-based Illumina pair-end reads simulator

30 May 2018

1 reference

https://api.crossref.org/works/10.7554%2FELIFE.00731

Comparative genomics enabled the isolation of the R3a late blight resistance gene in potato.

21 January 2018

1 reference

https://api.crossref.org/works/10.7554%2FELIFE.00731

Ancient DNA extraction from plants.

21 January 2018

1 reference

https://api.crossref.org/works/10.7554%2FELIFE.00731

Genetic Structure of Peruvian Populations of Phytophthora infestans

21 January 2018

1 reference

https://api.crossref.org/works/10.7554%2FELIFE.00731

Genome evolution following host jumps in the Irish potato famine pathogen lineage

21 January 2018

1 reference

https://api.crossref.org/works/10.7554%2FELIFE.00731

Building phylogenetic trees from molecular data with MEGA.

21 January 2018

1 reference

https://api.crossref.org/works/10.7554%2FELIFE.00731

The Phytophthora infestans avirulence gene Avr4 encodes an RXLR-dEER effector.

21 January 2018

1 reference

https://api.crossref.org/works/10.7554%2FELIFE.00731

Resequencing 50 accessions of cultivated and wild rice yields markers for identifying agronomically important genes

21 January 2018

1 reference

https://api.crossref.org/works/10.7554%2FELIFE.00731

Presence/absence, differential expression and sequence polymorphisms between PiAVR2 and PiAVR2-like in Phytophthora infestans determine virulence on R2 plants

21 January 2018

1 reference

https://api.crossref.org/works/10.7554%2FELIFE.00731

Identity of the mtDNA haplotype(s) of Phytophthora infestans in historical specimens from the Irish potato famine

21 January 2018

2 references

https://api.crossref.org/works/10.7554%2FELIFE.00731

21 January 2018

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3667578

Restriction fragment length polymorphisms of mitochondrial DNA of Phytophthora infestans

29 November 2018

1 reference

https://api.crossref.org/works/10.7554%2FELIFE.00731

Diversity in and evidence for selection on the mitochondrial genome of Phytophthora infestans.

21 January 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3667578

Emergence of Potato Blight, 1843–46

29 November 2018

1 reference

https://api.crossref.org/works/10.7554%2FELIFE.00731

Cloning and characterization of r3b; members of the r3 superfamily of late blight resistance genes show sequence and functional divergence

21 January 2018

1 reference

https://pubmed.ncbi.nlm.nih.gov/23741619

inferred from PubMed ID database lookup

12 December 2020

based on heuristic

Population Genetics and Intercontinental Migrations of Phytophthora Infestans

1 reference

https://api.crossref.org/works/10.7554%2FELIFE.00731

inferred from DOI database lookup

7 January 2021

based on heuristic

Identifiers

DOI

10.7554/ELIFE.00731

1 reference

1 reference

200266

1 reference

1 reference

200266

1 reference