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FraxiFam

Reconstructing gene family evolution in the ash genus (Fraxinus

Total Cost €

EC-Contrib. €

Partnership

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Outcomes and
results

FraxiFam project word cloud

Explore the words cloud of the FraxiFam project. It provides you a very rough idea of what is the project "FraxiFam" about.

compiling restoration plants host survey duplicated retained question limited resistant ash differences rounds ecological fraxifam evolution repeatability fraxinus comparisons conduct containing divergence organisms until novo genomic diverge hypothesise diverged content pervasive attempts first arise dataset database patterns shaped tandem retention hypotheses appear suggests families genome dieback unexpectedly duplication genes fact orphan undergone rates multiple horizontal inferred data ancestry gene stages duplications public family plant sequences primary trees surprisingly sequence seems transfers contains drivers wgds duplicates lab de wgd hampered flux species genus lost gain

Project "FraxiFam" data sheet

The following table provides information about the project.

Coordinator	QUEEN MARY UNIVERSITY OF LONDON Organization address address: 327 MILE END ROAD city: LONDON postcode: E1 4NS website: http://www.qmul.ac.uk contact info title: n.a. name: n.a. surname: n.a. function: n.a. email: n.a. telephone: n.a. fax: n.a.
Coordinator Country	United Kingdom [UK]
Project website	http://www.ashgenome.org
Total cost	195˙454 €
EC max contribution	195˙454 € (100%)
Programme	1. H2020-EU.1.3.2. (Nurturing excellence by means of cross-border and cross-sector mobility)
Code Call	H2020-MSCA-IF-2014
Funding Scheme	MSCA-IF-EF-ST
Starting year	2015
Duration (year-month-day)	from 2015-07-01 to 2017-06-30

Partnership

Take a look of project's partnership.

#	participants	country	role	EC contrib. [€]
1	QUEEN MARY UNIVERSITY OF LONDON QUEEN MARY UNIVERSITY OF LONDON Organization address address: 327 MILE END ROAD city: LONDON postcode: E1 4NS website: http://www.qmul.ac.uk contact info title: n.a. name: n.a. surname: n.a. function: n.a. email: n.a. telephone: n.a. fax: n.a.	UK (LONDON)	coordinator	195˙454.00

Map

Project objective

Comparisons among whole genome sequences allow us to survey differences in gene content among organisms, and hypothesise patterns of gene gain and loss through evolution. Rates of gene flux appear to be surprisingly high, and many genes are unexpectedly unique to species (“orphan” genes). In plants, increasing evidence suggests that genome evolution has been shaped by multiple rounds of whole genome duplication (WGD) after which many duplicated genes are lost, but some duplicates are retained and diverge. The extent to which novel genes arise due to WGD, tandem duplications, horizontal gene transfers, or de novo, remains an open question, especially in plants where WGD seems to be such a pervasive feature of evolution. Our knowledge is hampered by the fact that until now we have been limited to comparisons of whole genome sequences in plants that are highly diverged from one another. This means that the early consequences of gene duplication, and the early divergence of duplicated genes, have not been studied on a genomic scale. This project will use a new dataset, generated by the host lab, containing the whole genome sequence of every species within a plant genus (the genus Fraxinus – ash trees). As well as having inferred WGDs in its ancestry, this genus contains species that have undergone recent WGD. We propose to conduct a comprehensive analysis of gene and gene family evolution in this genus, compiling a major public database of Fraxinus gene families (FraxiFam). Using this data we will conduct the first genome-wide and genus-wide study of gene content evolution, allowing us to study the early stages of gene sequence and gene content divergence. We will test hypotheses about: (1) the primary drivers of gene content evolution, (2) the repeatability of patterns in gene loss and retention after WGD, and (3) the early evolution of orphan genes. This research will contribute to attempts to develop ash trees resistant to ash dieback, for EU ecological restoration.

Publications

List of publications.
year	authors and title	journal	last update
2016	Endymion D. Cooper Data archiving â€“ editorial published pages: i, ISSN: 1030-1887, DOI: 10.1071/SBv29n1_ED	Australian Systematic Botany 29/1	2019-06-18
2016	Endymion D. Cooper Botanical capital published pages: i, ISSN: 1030-1887, DOI: 10.1071/SBv29n3_ED1	Australian Systematic Botany 29/3	2019-06-18
2016	EndymionÂ D. Cooper Plant Evolution: Evolving Antagonistic Gene Regulatory Networks published pages: R493-R495, ISSN: 0960-9822, DOI: 10.1016/j.cub.2016.05.015	Current Biology 26/12	2019-06-18
2015	CharlesÂ Francis Delwiche, EndymionÂ Dante Cooper The Evolutionary Origin of a Terrestrial Flora published pages: R899-R910, ISSN: 0960-9822, DOI: 10.1016/j.cub.2015.08.029	Current Biology 25/19	2019-06-18
2016	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 KjÃ¦r, J. Allan Downie, David Boshier, Steve Lee, Jo Clark, Murray Grant, Ian Bancroft, Mario Caccamo, Richard J. A. Buggs Genome sequence and genetic diversity of European ash trees published pages: 212-216, ISSN: 0028-0836, DOI: 10.1038/nature20786	Nature 541/7636	2019-06-18

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The information about "FRAXIFAM" are provided by the European Opendata Portal: CORDIS opendata.