Bioinformatics and genomic and phenomic platform development

Armstead, Ian (Prif Ymchwilydd)
Swain, Martin (Cyd-ymchwilydd)
Doonan, John (Cyd-ymchwilydd)
Boyle, Roger (Cyd-ymchwilydd)
Hegarty, Matthew (Cyd-ymchwilydd)
Thomas, Ian (Cyd-ymchwilydd)
Huang, Lin (Cyd-ymchwilydd)
Fernandez Fuentes, Narcis (Cyd-ymchwilydd)
Neal, M (Cyd-ymchwilydd)
Gay, Alan (Cyd-ymchwilydd)

Prosiect: Ymchwil a ariannwyd yn allanol

Disgrifiad

Technological and analytical advances in plant science are increasingly data intensive. While these offer new opportunities for understanding and developing precision plant breeding they also bring considerable challenges. One of these challenges is in developing an informatics infrastructure that can accommodate the various dataset-types generated by research from the molecule to the field and implement the necessary relational integration to mine these datasets. This work brings together process and research in order to deliver informatic-based, high-throughput and genome/phenome-scale analytical methodologies to inform both fundamental research into genome/phenome biology and germplasm improvement in the context of plant breeding.

Statws	Wedi gorffen
Dyddiad cychwyn/gorffen dod i rym	01 Ebr 2012 → 31 Maw 2017

Nodau Datblygu Cynaliadwy y CU

Yn 2015, cytunodd gwladwriaethau sy’n aelodau'r Cenhedloedd Unedig ar 17 o Nodau Datblygu Cynaliadwy (NDC) byd-eang i ddod â thlodi i ben, diogelu’r blaned a sicrhau ffyniant i bawb. Mae’r prosiect hwn yn cyfrannu at y NDC canlynol:

NDC 2 Dim Newyn
NDC 3 Iechyd a Llesiant Da
NDC 6 Dŵr Glân a Glanweithdra
NDC 13 Gweithredu ar y Newid yn yr Hinsawdd

Mynd i’r Prosiect

42 Erthygl
2 Pennod
1 Poster
1 Erthygl olygyddol
Mwy
- 1 Adolygu Llenyddiaeth

A deep learning-integrated micro-CT image analysis pipeline for quantifying rice lodging resistance-related traits
Wu, D., Wu, D., Feng, H., Duan, L., Dai, G., Liu, X., Wang, K., Yang, P., Chen, G., Gay, A. P., Doonan, J. H., Niu, Z., Xiong, L. & Yang, W., 08 Maw 2021, Yn: Plant Communications. 2, 2, 13 t., 100165.
Allbwn ymchwil: Cyfraniad at gyfnodolyn › Erthygl › adolygiad gan gymheiriaid

Mynediad agored
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42 Dyfyniadau (Scopus)

190 Wedi eu Llwytho i Lawr (Pure)
Drought priming effects on alleviating the photosynthetic limitations of wheat cultivars (Triticum aestivum L.) with contrasting tolerance to abiotic stresses
Mendanha, T., Rosenqvist, E., Nordentoft Hyldgaard, B., Doonan, J. H. & Ottosen, C. O., 27 Tach 2020, Yn: Journal of Agronomy and Crop Science. 206, 6, t. 651-664 14 t.
Allbwn ymchwil: Cyfraniad at gyfnodolyn › Erthygl › adolygiad gan gymheiriaid

Mynediad agored
Ffeil
24 Dyfyniadau (Scopus)

353 Wedi eu Llwytho i Lawr (Pure)
Genotypic variations in leaf and whole-plant water use efficiencies are closely related in bread wheat genotypes under well-watered and water-limited conditions during grain filling
del Pozo, A., Méndez-Espinoza, A. M., Romero-Bravo, S., Garriga, M., Estrada, F., Alcaíno, M., Camargo-Rodriguez, A. V., Corke, F. M. K., Doonan, J. H. & Lobos, G. A., 16 Ion 2020, Yn: Scientific Reports. 10, 1, 460.
Allbwn ymchwil: Cyfraniad at gyfnodolyn › Erthygl › adolygiad gan gymheiriaid

Mynediad agored
Ffeil
33 Dyfyniadau (Scopus)

167 Wedi eu Llwytho i Lawr (Pure)
Gradual polyploid genome evolution revealed by pan-genomic analysis of Brachypodium hybridum and its diploid progenitors
Gordon, S. P., Contreras-Moreira, B., Levy, J. J., Djamei, A., Czedik-Eysenberg, A., Tartaglio, V. S., Session, A., Martin, J., Cartwright, A., Katz, A., Singan, V. R., Goltsman, E., Barry, K., Dinh-Thi, V. H., Chalhoub, B., Diaz-Perez, A., Sancho, R., Lusinska, J., Wolny, E. & Nibau, C. & 13 eraill, Doonan, J. H., Mur, L. A. J., Plott, C., Jenkins, J., Hazen, S. P., Lee, S. J., Shu, S., Goodstein, D., Rokhsar, D., Schmutz, J., Hasterok, R., Catalan, P. & Vogel, J. P., 29 Gorff 2020, Yn: Nature Communications. 11, 1, 16 t., 3670.
Allbwn ymchwil: Cyfraniad at gyfnodolyn › Erthygl › adolygiad gan gymheiriaid

Mynediad agored
Ffeil
79 Dyfyniadau (Scopus)

317 Wedi eu Llwytho i Lawr (Pure)
High-Throughput Genome-Wide Genotyping To Optimize the Use of Natural Genetic Resources in the Grassland Species Perennial Ryegrass (Lolium perenne L.)
Keep, T., Sampoux, J. P., Blanco-Pastor, J. L., Dehmer, K. J., Hegarty, M. J., Ledauphin, T., Litrico, I., Muylle, H., Roldán-Ruiz, I., Roschanski, A. M., Ruttink, T., Surault, F., Willner, E. & Barre, P., 01 Medi 2020, Yn: G3 (Bethesda, Md.). 10, 9, t. 3347-3364 18 t.
Allbwn ymchwil: Cyfraniad at gyfnodolyn › Erthygl › adolygiad gan gymheiriaid

Mynediad agored
Ffeil
30 Dyfyniadau (Scopus)

160 Wedi eu Llwytho i Lawr (Pure)
Semi-Automated Field Plot Segmentation From UAS Imagery for Experimental Agriculture
Robb, C., Hardy, A., Doonan, J. H. & Brook, J., 09 Rhag 2020, Yn: Frontiers in Plant Science. 11, 13 t., 591886.
Allbwn ymchwil: Cyfraniad at gyfnodolyn › Erthygl › adolygiad gan gymheiriaid

Mynediad agored
Ffeil
24 Dyfyniadau (Scopus)

209 Wedi eu Llwytho i Lawr (Pure)
A comparative assessment of the performance of a stay-green sorghum (Sorghum bicolor (L) Moench) introgression line developed by marker-assisted selection and its parental lines
Galyuon, I. K., Gay, A., Hash, C. T., Bidinger, F. R. & Howarth, C., 26 Meh 2019, Yn: African Journal of Biotechnology. 18, 26, t. 548-563 16 t., 7118D0361330.
Allbwn ymchwil: Cyfraniad at gyfnodolyn › Erthygl › adolygiad gan gymheiriaid

Mynediad agored
Ffeil
303 Wedi eu Llwytho i Lawr (Pure)
Differential gene expression and gene ontologies associated with increasing water-stress in leaf and root transcriptomes of perennial ryegrass (Lolium perenne)
Fradera-Sola, A., Thomas, A., Gasior, D., Harper, J., Hegarty, M., Armstead, I. & Fernandez Fuentes, N., 30 Gorff 2019, Yn: PLoS ONE. 14, 7, e0220518.
Allbwn ymchwil: Cyfraniad at gyfnodolyn › Erthygl › adolygiad gan gymheiriaid

Mynediad agored
Ffeil
8 Dyfyniadau (Scopus)

206 Wedi eu Llwytho i Lawr (Pure)
Genomic insights from the first chromosome-scale assemblies of oat (Avena spp.) diploid species
Maughan, P. J., Lee, R., Walstead, R., Vickerstaff, R. J., Fogarty, M. C., Brouwer, C. R., Reid, R. R., Jay, J. J., Bekele, W. A., Jackson, E. W., Tinker, N. A., Langdon, T., Schlueter, J. A. & Jellen, E. N., 22 Tach 2019, Yn: BMC Biology. 17, 1, 92.
Allbwn ymchwil: Cyfraniad at gyfnodolyn › Erthygl › adolygiad gan gymheiriaid

Mynediad agored
Ffeil
63 Dyfyniadau (Scopus)

193 Wedi eu Llwytho i Lawr (Pure)
Integrating a newly developed BAC-based physical mapping resource for Lolium perenne with a genome-wide association study across a L. Perenne European ecotype collection identifies genomic contexts associated with agriculturally important traits
Harper, J., de Vega, J., Swain, S., Heavens, D., Gasior, D., Thomas, A., Evans, C., Lovatt, A., Lister, S., Thorogood, D., Skot, L., Hegarty, M., Blackmore, T., Kudrna, D., Byrne, S., Asp, T., Powell, W., Fernandez-Fuentes, N. & Armstead, I., 08 Mai 2019, Yn: Annals of Botany. 123, 6, t. 977-992 16 t., mcy230.
Allbwn ymchwil: Cyfraniad at gyfnodolyn › Erthygl › adolygiad gan gymheiriaid

Mynediad agored
Ffeil
6 Dyfyniadau (Scopus)

204 Wedi eu Llwytho i Lawr (Pure)
Physiological and biochemical basis for stay-green trait in sorghum
Galyuon, I. K. A., Gay, A., Borrell, A. K. & Howarth, C. J., 2019, Yn: African Crop Science Journal. 27, 4, t. 653, 677
Allbwn ymchwil: Cyfraniad at gyfnodolyn › Erthygl › adolygiad gan gymheiriaid

Mynediad agored
Ffeil

170 Wedi eu Llwytho i Lawr (Pure)

C3G: Lolium and Trifolium genetics, genomics and germplasm development
Armstead, I. (Prif Ymchwilydd), Skot, L. (Cyd-ymchwilydd), Jenkins, G. (Cyd-ymchwilydd), Thomas, I. (Cyd-ymchwilydd), Marshall, A. (Cyd-ymchwilydd) & Thorogood, D. (Cyd-ymchwilydd)
01 Ebr 2012 → 31 Maw 2017
Prosiect: Ymchwil a ariannwyd yn allanol
Introgression and wide hybrid genetics, genomics and germplasm development in Lolium/Festuca (Festulolium) and white clover
Armstead, I. (Prif Ymchwilydd), Humphreys, M. (Cyd-ymchwilydd) & Jenkins, G. (Cyd-ymchwilydd)
01 Ebr 2012 → 31 Maw 2017
Prosiect: Ymchwil a ariannwyd yn allanol
Developing tools and resources for oat breeding
Armstead, I. (Prif Ymchwilydd), Howarth, C. (Cyd-ymchwilydd) & Langdon, T. (Cyd-ymchwilydd)
01 Ebr 2012 → 31 Maw 2017
Prosiect: Ymchwil a ariannwyd yn allanol
Crop Genetics, Genomics and Germplasm (C3G) ISPG
Armstead, I. (Prif Ymchwilydd)
Biotechnology and Biological Sciences Research Council
01 Ebr 2012 → 31 Maw 2017
Prosiect: Ymchwil a ariannwyd yn allanol

11 Cyflwyniad llafar
5 Cynhadledd
5 Gweithdy, Seminar, neu Cwrs
1 Gwesteia ymwelydd an-academaidd
Mwy
- 1 Gwesteio ymwelydd academaidd

Conservation Agriculture workshop
Armstead, I. (Siaradwr)
2018
Gweithgaredd: Cymryd rhan mewn digwyddiad neu drefnu digwyddiad › Gweithdy, Seminar, neu Cwrs
DivSeek round table
Doonan, J. (Siaradwr)
13 Ion 2017
Gweithgaredd: Cymryd rhan mewn digwyddiad neu drefnu digwyddiad › Cynhadledd
DivSeek round table
Armstead, I. (Siaradwr)
13 Ion 2017 → 17 Ion 2017
Gweithgaredd: Cymryd rhan mewn digwyddiad neu drefnu digwyddiad › Gweithdy, Seminar, neu Cwrs
Essex University
2016
Gweithgaredd: Gwesteio ymwelydd › Gwesteio ymwelydd academaidd
Series of tours of NPPC
Armstead, I. (Siaradwr)
2016
Gweithgaredd: Sgwrs neu gyflwyniad › Cyflwyniad llafar
C-DES project talk
Armstead, I. (Siaradwr)
2016
Gweithgaredd: Sgwrs neu gyflwyniad › Cyflwyniad llafar
Application of fluorescence imaging to detect contamination on carcasses;
Gay, A. (Siaradwr)
2016
Gweithgaredd: Sgwrs neu gyflwyniad › Cyflwyniad llafar
Series of tours of the NPPC facility
Armstead, I. (Siaradwr)
2016
Gweithgaredd: Sgwrs neu gyflwyniad › Cyflwyniad llafar
Hyperspectral Imaging
Armstead, I. (Cyfranogwr)
2016
Gweithgaredd: Cymryd rhan mewn digwyddiad neu drefnu digwyddiad › Gweithdy, Seminar, neu Cwrs
Waitrose Limited
2016
Gweithgaredd: Gwesteio ymwelydd › Gwesteia ymwelydd an-academaidd
Series of tours of NPPC facilities
Armstead, I. (Siaradwr)
2016
Gweithgaredd: Sgwrs neu gyflwyniad › Cyflwyniad llafar

Bioinformatics and genomic and phenomic platform development

Manylion y Prosiect

Disgrifiad

Nodau Datblygu Cynaliadwy y CU

Mynd i’r Prosiect

Ôl bys

A deep learning-integrated micro-CT image analysis pipeline for quantifying rice lodging resistance-related traits

Drought priming effects on alleviating the photosynthetic limitations of wheat cultivars (Triticum aestivum L.) with contrasting tolerance to abiotic stresses

Genotypic variations in leaf and whole-plant water use efficiencies are closely related in bread wheat genotypes under well-watered and water-limited conditions during grain filling

Gradual polyploid genome evolution revealed by pan-genomic analysis of Brachypodium hybridum and its diploid progenitors

High-Throughput Genome-Wide Genotyping To Optimize the Use of Natural Genetic Resources in the Grassland Species Perennial Ryegrass (Lolium perenne L.)

Semi-Automated Field Plot Segmentation From UAS Imagery for Experimental Agriculture

A comparative assessment of the performance of a stay-green sorghum (Sorghum bicolor (L) Moench) introgression line developed by marker-assisted selection and its parental lines

Differential gene expression and gene ontologies associated with increasing water-stress in leaf and root transcriptomes of perennial ryegrass (Lolium perenne)

Genomic insights from the first chromosome-scale assemblies of oat (Avena spp.) diploid species

Integrating a newly developed BAC-based physical mapping resource for Lolium perenne with a genome-wide association study across a L. Perenne European ecotype collection identifies genomic contexts associated with agriculturally important traits

Physiological and biochemical basis for stay-green trait in sorghum

C3G: Lolium and Trifolium genetics, genomics and germplasm development

Introgression and wide hybrid genetics, genomics and germplasm development in Lolium/Festuca (Festulolium) and white clover

Developing tools and resources for oat breeding

Crop Genetics, Genomics and Germplasm (C3G) ISPG

Conservation Agriculture workshop

DivSeek round table

DivSeek round table

Essex University

Series of tours of NPPC

C-DES project talk

Application of fluorescence imaging to detect contamination on carcasses;

Series of tours of the NPPC facility

Hyperspectral Imaging

Waitrose Limited

Series of tours of NPPC facilities

Bioinformatics and genomic and phenomic platform development

Manylion y Prosiect

Disgrifiad

Nodau Datblygu Cynaliadwy y CU

Mynd i’r Prosiect

Ôl bys

Allbwn ymchwil

Prosiectau

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