Reconstructing genome evolution in historic samples of the Irish potato famine pathogen

Michael David Martin; Enrico Cappellini; Jose Alfredo Samaniego Castruita; Marie Lisandra Zepeda Mendoza; Paula Campos; Andaine Seguin-Orlando; Nathan Wales; Ludovic Antoine Alexandre Orlando; Simon Y. W. Ho; Fred S. Dietrich; Piotr A. Mieczkowski; Joseph Heitman; Eske Willerslev; Anders Krogh; Jean B. Ristaino; Tom Gilbert

doi:10.1038/ncomms3172

Reconstructing genome evolution in historic samples of the Irish potato famine pathogen

Michael David Martin, Enrico Cappellini, Jose Alfredo Samaniego Castruita, Marie Lisandra Zepeda Mendoza, Paula Campos, Andaine Seguin-Orlando, Nathan Wales, Ludovic Antoine Alexandre Orlando, Simon Y. W. Ho, Fred S. Dietrich, Piotr A. Mieczkowski, Joseph Heitman, Eske Willerslev, Anders Krogh, Jean B. Ristaino, Tom Gilbert

Bioinformatik og RNA Biologi

79 Citationer (Scopus)

5843 Downloads (Pure)

Abstract

Responsible for the Irish potato famine of 1845-49, the oomycete pathogen Phytophthora infestans caused persistent, devastating outbreaks of potato late blight across Europe in the 19th century. Despite continued interest in the history and spread of the pathogen, the genome of the famine-era strain remains entirely unknown. Here we characterize temporal genomic changes in introduced P. infestans. We shotgun sequence five 19th-century European strains from archival herbarium samples-including the oldest known European specimen, collected in 1845 from the first reported source of introduction. We then compare their genomes to those of extant isolates. We report multiple distinct genotypes in historical Europe and a suite of infection-related genes different from modern strains. At virulence-related loci, several now-ubiquitous genotypes were absent from the historical gene pool. At least one of these genotypes encodes a virulent phenotype in modern strains, which helps explain the 20th century's episodic replacements of European P. infestans lineages.

Originalsprog	Engelsk
Artikelnummer	2172
Tidsskrift	Nature Communications
Vol/bind	4
Antal sider	7
ISSN	2041-1723
DOI	https://doi.org/10.1038/ncomms3172
Status	Udgivet - 18 jul. 2013

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10.1038/ncomms3172Licens: CC BY-NC-ND

Reconstructing genome evolution in historic samples of the Irish potato famine pathogenForlagets udgivne version, 1,03 MBLicens: CC BY-NC-ND

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Martin, M. D., Cappellini, E., Samaniego Castruita, J. A., Zepeda Mendoza, M. L., Campos, P., Seguin-Orlando, A., Wales, N., Orlando, L. A. A., Ho, S. Y. W., Dietrich, F. S., Mieczkowski, P. A., Heitman, J., Willerslev, E., Krogh, A., Ristaino, J. B., & Gilbert, T. (2013). Reconstructing genome evolution in historic samples of the Irish potato famine pathogen. Nature Communications, 4, Artikel 2172. https://doi.org/10.1038/ncomms3172

Martin, MD, Cappellini, E, Samaniego Castruita, JA, Zepeda Mendoza, ML, Campos, P, Seguin-Orlando, A, Wales, N, Orlando, LAA, Ho, SYW, Dietrich, FS, Mieczkowski, PA, Heitman, J, Willerslev, E , Krogh, A, Ristaino, JB & Gilbert, T 2013, 'Reconstructing genome evolution in historic samples of the Irish potato famine pathogen', Nature Communications, bind 4, 2172. https://doi.org/10.1038/ncomms3172

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title = "Reconstructing genome evolution in historic samples of the Irish potato famine pathogen",

abstract = "Responsible for the Irish potato famine of 1845-49, the oomycete pathogen Phytophthora infestans caused persistent, devastating outbreaks of potato late blight across Europe in the 19th century. Despite continued interest in the history and spread of the pathogen, the genome of the famine-era strain remains entirely unknown. Here we characterize temporal genomic changes in introduced P. infestans. We shotgun sequence five 19th-century European strains from archival herbarium samples-including the oldest known European specimen, collected in 1845 from the first reported source of introduction. We then compare their genomes to those of extant isolates. We report multiple distinct genotypes in historical Europe and a suite of infection-related genes different from modern strains. At virulence-related loci, several now-ubiquitous genotypes were absent from the historical gene pool. At least one of these genotypes encodes a virulent phenotype in modern strains, which helps explain the 20th century's episodic replacements of European P. infestans lineages.",

author = "Martin, {Michael David} and Enrico Cappellini and {Samaniego Castruita}, {Jose Alfredo} and {Zepeda Mendoza}, {Marie Lisandra} and Paula Campos and Andaine Seguin-Orlando and Nathan Wales and Orlando, {Ludovic Antoine Alexandre} and Ho, {Simon Y. W.} and Dietrich, {Fred S.} and Mieczkowski, {Piotr A.} and Joseph Heitman and Eske Willerslev and Anders Krogh and Ristaino, {Jean B.} and Tom Gilbert",

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doi = "10.1038/ncomms3172",

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T1 - Reconstructing genome evolution in historic samples of the Irish potato famine pathogen

AU - Martin, Michael David

AU - Cappellini, Enrico

AU - Samaniego Castruita, Jose Alfredo

AU - Zepeda Mendoza, Marie Lisandra

AU - Campos, Paula

AU - Seguin-Orlando, Andaine

AU - Wales, Nathan

AU - Orlando, Ludovic Antoine Alexandre

AU - Ho, Simon Y. W.

AU - Dietrich, Fred S.

AU - Mieczkowski, Piotr A.

AU - Heitman, Joseph

AU - Willerslev, Eske

AU - Krogh, Anders

AU - Ristaino, Jean B.

AU - Gilbert, Tom

PY - 2013/7/18

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N2 - Responsible for the Irish potato famine of 1845-49, the oomycete pathogen Phytophthora infestans caused persistent, devastating outbreaks of potato late blight across Europe in the 19th century. Despite continued interest in the history and spread of the pathogen, the genome of the famine-era strain remains entirely unknown. Here we characterize temporal genomic changes in introduced P. infestans. We shotgun sequence five 19th-century European strains from archival herbarium samples-including the oldest known European specimen, collected in 1845 from the first reported source of introduction. We then compare their genomes to those of extant isolates. We report multiple distinct genotypes in historical Europe and a suite of infection-related genes different from modern strains. At virulence-related loci, several now-ubiquitous genotypes were absent from the historical gene pool. At least one of these genotypes encodes a virulent phenotype in modern strains, which helps explain the 20th century's episodic replacements of European P. infestans lineages.

AB - Responsible for the Irish potato famine of 1845-49, the oomycete pathogen Phytophthora infestans caused persistent, devastating outbreaks of potato late blight across Europe in the 19th century. Despite continued interest in the history and spread of the pathogen, the genome of the famine-era strain remains entirely unknown. Here we characterize temporal genomic changes in introduced P. infestans. We shotgun sequence five 19th-century European strains from archival herbarium samples-including the oldest known European specimen, collected in 1845 from the first reported source of introduction. We then compare their genomes to those of extant isolates. We report multiple distinct genotypes in historical Europe and a suite of infection-related genes different from modern strains. At virulence-related loci, several now-ubiquitous genotypes were absent from the historical gene pool. At least one of these genotypes encodes a virulent phenotype in modern strains, which helps explain the 20th century's episodic replacements of European P. infestans lineages.

U2 - 10.1038/ncomms3172

DO - 10.1038/ncomms3172

M3 - Journal article

C2 - 23863894

SN - 2041-1723

VL - 4

JO - Nature Communications

JF - Nature Communications

M1 - 2172

ER -

Reconstructing genome evolution in historic samples of the Irish potato famine pathogen

Abstract

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