eprintid: 11571
rev_number: 21
eprint_status: archive
userid: 3170
dir: disk0/00/01/15/71
datestamp: 2020-08-29 16:38:55
lastmod: 2021-02-08 05:13:54
status_changed: 2020-08-29 16:38:55
type: article
metadata_visibility: show
creators_name: Raubach, S
creators_name: Kilian, B
creators_name: Dreher, K
creators_name: Amri, A
creators_name: Bassi, F M
creators_name: Boukar, O
creators_name: Cook, D
creators_name: Cruickshank, A
creators_name: Fatokun, C
creators_name: El Haddad, N
creators_name: Humphries, A
creators_name: Jordan, D
creators_name: Kehel, Z
creators_name: Kumar, S
creators_name: Labarosa, S J
creators_name: Nguyen, L H
creators_name: Mace, E
creators_name: McCouch, S
creators_name: McNally, K
creators_name: Marshall, D F
creators_name: Mikwa, E O
creators_name: Milne, I
creators_name: Odeny, D A
creators_name: Plazas, M
creators_name: Prohens, J
creators_name: Rieseberg, L H
creators_name: Schafleitner, R
creators_name: Sharma, S
creators_name: Stephen, G
creators_name: Tin, H Q
creators_name: Togola, A
creators_name: Warschefsky, E
creators_name: Werner, P
creators_name: Shaw, P D
creators_gender: Female
creators_gender: Female
creators_gender: Female
icrisatcreators_name: Sharma, S
affiliation: Department of Information and Computational Sciences, The James Hutton Institute, Errol Road, Invergowrie, Dundee
affiliation: Global Crop Diversity Trust, Platz der Vereinten Nationen 7, Bonn
affiliation: International Maize and Wheat Improvement Center (CIMMYT), Edo. De Mexico, Texcoco
affiliation: Universitat Politècnica de València, Valencia
affiliation: Department of Botany, University of British Columbia, Vancouver, British Columbia
affiliation: ICRISAT (Patancheru)
affiliation: SRUC, Peter Wilson Building,West Mains Road, Edinburgh
affiliation: Department of Plant Pathology, College of Agricultural and Environmental Sciences, University of California–Davis, One Shields Avenue, Davis
affiliation: ICRISAT (Nairobi)
affiliation: South Australian Research and Development Institute (SARDI),Waite Institute, Urrbrae
affiliation: International Institute of Tropical Agriculture (IITA), Kano
affiliation: International Institute of Tropical Agriculture (IITA), HQ, Ibadan
affiliation: International Rice Research Institute (IRRI), Pili Drive, Los Baños, Laguna
affiliation: Plant Breeding & Genetics, Cornell University, Ithaca
affiliation: University of Queensland and Department of Agriculture and Fisheries,Warwick
affiliation: Mekong Delta Development Research Institute, Can Tho University, Can Tho
affiliation: The University of Bonn/Crop Trust, Bonn, Germany
affiliation: Roland Schafleitner,World Vegetable Center, Shanhua, Taiwan
affiliation: International Center For Agricultural Research In The Dry Areas (ICARDA), Rabat
country: Scotland
country: Germany
country: Mexico
country: Spain
country: Canada
country: India
country: USA
country: Kenya
country: Australia
country: Nigeria
country: Philippines
country: Vietnam
country: Taiwan
country: Morocco
title: From bits to bites: Advancement of the Germinate platform to support prebreeding informatics for crop wild relatives
ispublished: pub
subjects: PLB1
subjects: S7
divisions: CRPS5
divisions: CRPS3
crps: CG1
full_text_status: public
keywords: Plant Breeding, Germinate, Data resources
abstract: Management and distribution of experimental data from prebreeding projects
is important to ensure uptake of germplasm into breeding and research programs.
Being able to access and share this data in standard formats is essential.
The adoption of a common informatics platform for crops that may have limited
resources brings economies of scale, allowing common informatics components
to be used across multiple species. The close integration of such a platform with
commonly used breeding software, visualization, and analysis tools reduces the
barrier for entry to researchers and provides a common framework to facilitate
collaborations and data sharing. This work presents significant updates to the
Germinate platform and highlights its value in distributing prebreeding data for
14 crops as part of the project ‘Adapting Agriculture to Climate Change: Collecting,
Protecting and Preparing Crop Wild Relatives’ (hereafter Crop Trust Crop
Wild Relatives project) led by the Crop Trust (https://www.cwrdiversity.org). The
addition of data on these species compliments data already publicly available in
Germinate. We present a suite of updated Germinate features using examples
from these crop species and their wild relatives. The use of Germinate within the
Crop TrustCropWildRelatives project demonstrates the usefulness of the system
and the benefits a shared informatics platform provides. These data resources
provide a foundation on which breeding and research communities can develop
additional online resources for their crops, harness new data as it becomes available,
and benefit collectively from future developments of the Germinate platform.
date: 2020-06
date_type: published
publication: Crop Science (TSI)
publisher: Crop Science Society of America
pagerange: 1-29
id_number: doi:10.1002/csc2.20248
refereed: TRUE
issn: 0011-183X
official_url: https://doi.org/10.1002/csc2.20248
related_url_url: https://scholar.google.com/scholar?hl=en&as_sdt=0%2C5&q=10.1002%2Fcsc2.20248&btnG=
related_url_type: pub
citation:   Raubach, S and Kilian, B and Dreher, K and Amri, A and Bassi, F M and Boukar, O and Cook, D and Cruickshank, A and Fatokun, C and El Haddad, N and Humphries, A and Jordan, D and Kehel, Z and Kumar, S and Labarosa, S J and Nguyen, L H and Mace, E and McCouch, S and McNally, K and Marshall, D F and Mikwa, E O and Milne, I and Odeny, D A and Plazas, M and Prohens, J and Rieseberg, L H and Schafleitner, R and Sharma, S and Stephen, G and Tin, H Q and Togola, A and Warschefsky, E and Werner, P and Shaw, P D  (2020) From bits to bites: Advancement of the Germinate platform to support prebreeding informatics for crop wild relatives.  Crop Science (TSI).  pp. 1-29.  ISSN 0011-183X     
document_url: http://oar.icrisat.org/11571/1/Crop%20Science%20Germinate%20from%20bits%20to%20bites.pdf