Genome sequence and genetic diversity of European ash trees

Elizabeth S A Sollars; Andrea L Harper; Laura J Kelly; Christine M Sambles; Ricardo H Ramirez-Gonzalez; David Swarbreck; Gemy Kaithakottil; Endymion D Cooper; Cristobal Uauy; Lenka Havlickova; Gemma Worswick; David J Studholme; Jasmin Zohren; Deborah L Salmon; Bernardo J Clavijo; Yi Li; Zhesi He; Alison Fellgett; Lea Vig McKinney; Lene Rostgaard Nielsen; Gerry C Douglas; Erik Dahl Kjær; J Allan Downie; David Boshier; Steve Lee; Jo Clark; Murray Grant; Ian Bancroft; Mario Caccamo; Richard J A Buggs

doi:10.1038/nature20786

Genome sequence and genetic diversity of European ash trees

Elizabeth S A Sollars, Andrea L Harper, Laura J Kelly, Christine M Sambles, Ricardo H Ramirez-Gonzalez, David Swarbreck, Gemy Kaithakottil, Endymion D Cooper, Cristobal Uauy, Lenka Havlickova, Gemma Worswick, David J Studholme, Jasmin Zohren, Deborah L Salmon, Bernardo J Clavijo, Yi Li, Zhesi He, Alison Fellgett, Lea Vig McKinney, Lene Rostgaard NielsenGerry C Douglas, Erik Dahl Kjær, J Allan Downie, David Boshier, Steve Lee, Jo Clark, Murray Grant, Ian Bancroft, Mario Caccamo, Richard J A Buggs

LUKKET: Skov, natur og biomasse

79 Citationer (Scopus)

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Abstract

Ash trees (genus Fraxinus, family Oleaceae) are widespread throughout the Northern Hemisphere, but are being devastated in Europe by the fungus Hymenoscyphus fraxineus, causing ash dieback, and in North America by the herbivorous beetle Agrilus planipennis. Here we sequence the genome of a low-heterozygosity Fraxinus excelsior tree from Gloucestershire, UK, annotating 38,852 protein-coding genes of which 25% appear ash specific when compared with the genomes of ten other plant species. Analyses of paralogous genes suggest a whole-genome duplication shared with olive (Olea europaea, Oleaceae). We also re-sequence 37 F. excelsior trees from Europe, finding evidence for apparent long-term decline in effective population size. Using our reference sequence, we re-analyse association transcriptomic data, yielding improved markers for reduced susceptibility to ash dieback. Surveys of these markers in British populations suggest that reduced susceptibility to ash dieback may be more widespread in Great Britain than in Denmark. We also present evidence that susceptibility of trees to H. fraxineus is associated with their iridoid glycoside levels. This rapid, integrated, multidisciplinary research response to an emerging health threat in a non-model organism opens the way for mitigation of the epidemic.

Originalsprog	Engelsk
Tidsskrift	Nature
Vol/bind	541
Udgave nummer	7636
Sider (fra-til)	212–216
Antal sider	5
ISSN	0028-0836
DOI	https://doi.org/10.1038/nature20786
Status	Udgivet - 12 jan. 2017

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10.1038/nature20786Licens: CC BY-NC-SA

Genome sequence and genetic diversity of EuropeanForlagets udgivne version, 6,68 MBLicens: CC BY-NC-SA

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Sollars, E. S. A., Harper, A. L., Kelly, L. J., Sambles, C. M., Ramirez-Gonzalez, R. H., Swarbreck, D., Kaithakottil, G., Cooper, E. D., Uauy, C., Havlickova, L., Worswick, G., Studholme, D. J., Zohren, J., Salmon, D. L., Clavijo, B. J., Li, Y., He, Z., Fellgett, A., McKinney, L. V., ... Buggs, R. J. A. (2017). Genome sequence and genetic diversity of European ash trees. Nature, 541(7636), 212–216. https://doi.org/10.1038/nature20786

Sollars, ESA, Harper, AL, Kelly, LJ, Sambles, CM, Ramirez-Gonzalez, RH, Swarbreck, D, Kaithakottil, G, Cooper, ED, Uauy, C, Havlickova, L, Worswick, G, Studholme, DJ, Zohren, J, Salmon, DL, Clavijo, BJ, Li, Y, He, Z, Fellgett, A, McKinney, LV, Nielsen, LR, Douglas, GC, Kjær, ED, Downie, JA, Boshier, D, Lee, S, Clark, J, Grant, M, Bancroft, I, Caccamo, M & Buggs, RJA 2017, 'Genome sequence and genetic diversity of European ash trees', Nature, bind 541, nr. 7636, s. 212–216. https://doi.org/10.1038/nature20786

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title = "Genome sequence and genetic diversity of European ash trees",

abstract = "Ash trees (genus Fraxinus, family Oleaceae) are widespread throughout the Northern Hemisphere, but are being devastated in Europe by the fungus Hymenoscyphus fraxineus, causing ash dieback, and in North America by the herbivorous beetle Agrilus planipennis. Here we sequence the genome of a low-heterozygosity Fraxinus excelsior tree from Gloucestershire, UK, annotating 38,852 protein-coding genes of which 25% appear ash specific when compared with the genomes of ten other plant species. Analyses of paralogous genes suggest a whole-genome duplication shared with olive (Olea europaea, Oleaceae). We also re-sequence 37 F. excelsior trees from Europe, finding evidence for apparent long-term decline in effective population size. Using our reference sequence, we re-analyse association transcriptomic data, yielding improved markers for reduced susceptibility to ash dieback. Surveys of these markers in British populations suggest that reduced susceptibility to ash dieback may be more widespread in Great Britain than in Denmark. We also present evidence that susceptibility of trees to H. fraxineus is associated with their iridoid glycoside levels. This rapid, integrated, multidisciplinary research response to an emerging health threat in a non-model organism opens the way for mitigation of the epidemic.",

author = "Sollars, {Elizabeth S A} and Harper, {Andrea L} and Kelly, {Laura J} and Sambles, {Christine M} and Ramirez-Gonzalez, {Ricardo H} and David Swarbreck and Gemy Kaithakottil and Cooper, {Endymion D} and Cristobal Uauy and Lenka Havlickova and Gemma Worswick and Studholme, {David J} and Jasmin Zohren and Salmon, {Deborah L} and Clavijo, {Bernardo J} and Yi Li and Zhesi He and Alison Fellgett and McKinney, {Lea Vig} and Nielsen, {Lene Rostgaard} and Douglas, {Gerry C} and Kj{\ae}r, {Erik Dahl} and Downie, {J Allan} and David Boshier and Steve Lee and Jo Clark and Murray Grant and Ian Bancroft and Mario Caccamo and Buggs, {Richard J A}",

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month = jan,

day = "12",

doi = "10.1038/nature20786",

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pages = "212–216",

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T1 - Genome sequence and genetic diversity of European ash trees

AU - Sollars, Elizabeth S A

AU - Harper, Andrea L

AU - Kelly, Laura J

AU - Sambles, Christine M

AU - Ramirez-Gonzalez, Ricardo H

AU - Swarbreck, David

AU - Kaithakottil, Gemy

AU - Cooper, Endymion D

AU - Uauy, Cristobal

AU - Havlickova, Lenka

AU - Worswick, Gemma

AU - Studholme, David J

AU - Zohren, Jasmin

AU - Salmon, Deborah L

AU - Clavijo, Bernardo J

AU - Li, Yi

AU - He, Zhesi

AU - Fellgett, Alison

AU - McKinney, Lea Vig

AU - Nielsen, Lene Rostgaard

AU - Douglas, Gerry C

AU - Kjær, Erik Dahl

AU - Downie, J Allan

AU - Boshier, David

AU - Lee, Steve

AU - Clark, Jo

AU - Grant, Murray

AU - Bancroft, Ian

AU - Caccamo, Mario

AU - Buggs, Richard J A

PY - 2017/1/12

Y1 - 2017/1/12

N2 - Ash trees (genus Fraxinus, family Oleaceae) are widespread throughout the Northern Hemisphere, but are being devastated in Europe by the fungus Hymenoscyphus fraxineus, causing ash dieback, and in North America by the herbivorous beetle Agrilus planipennis. Here we sequence the genome of a low-heterozygosity Fraxinus excelsior tree from Gloucestershire, UK, annotating 38,852 protein-coding genes of which 25% appear ash specific when compared with the genomes of ten other plant species. Analyses of paralogous genes suggest a whole-genome duplication shared with olive (Olea europaea, Oleaceae). We also re-sequence 37 F. excelsior trees from Europe, finding evidence for apparent long-term decline in effective population size. Using our reference sequence, we re-analyse association transcriptomic data, yielding improved markers for reduced susceptibility to ash dieback. Surveys of these markers in British populations suggest that reduced susceptibility to ash dieback may be more widespread in Great Britain than in Denmark. We also present evidence that susceptibility of trees to H. fraxineus is associated with their iridoid glycoside levels. This rapid, integrated, multidisciplinary research response to an emerging health threat in a non-model organism opens the way for mitigation of the epidemic.

AB - Ash trees (genus Fraxinus, family Oleaceae) are widespread throughout the Northern Hemisphere, but are being devastated in Europe by the fungus Hymenoscyphus fraxineus, causing ash dieback, and in North America by the herbivorous beetle Agrilus planipennis. Here we sequence the genome of a low-heterozygosity Fraxinus excelsior tree from Gloucestershire, UK, annotating 38,852 protein-coding genes of which 25% appear ash specific when compared with the genomes of ten other plant species. Analyses of paralogous genes suggest a whole-genome duplication shared with olive (Olea europaea, Oleaceae). We also re-sequence 37 F. excelsior trees from Europe, finding evidence for apparent long-term decline in effective population size. Using our reference sequence, we re-analyse association transcriptomic data, yielding improved markers for reduced susceptibility to ash dieback. Surveys of these markers in British populations suggest that reduced susceptibility to ash dieback may be more widespread in Great Britain than in Denmark. We also present evidence that susceptibility of trees to H. fraxineus is associated with their iridoid glycoside levels. This rapid, integrated, multidisciplinary research response to an emerging health threat in a non-model organism opens the way for mitigation of the epidemic.

U2 - 10.1038/nature20786

DO - 10.1038/nature20786

M3 - Letter

C2 - 28024298

SN - 0028-0836

VL - 541

SP - 212

EP - 216

JO - Nature

JF - Nature

IS - 7636

ER -

Genome sequence and genetic diversity of European ash trees

Abstract

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