Using the Field Book App and BIMS in GDR for Peach Breeding Ksenija Gasic, Trevor Rife, Jesse Poland, Sook Jung, Jim McFerson, Michael Coe, Kate Evans, Nnadozie Oraguzie, Lisa Wasko DeVetter, Cameron Peace, Mercy Olmstead, Michael Kahn, Dorrie Main

Outline Using the FieldBook App in peach breeding Demo of GDR BIMS (Breeding Information Management System)

Collecting Field notes Get the App by searching for Field Book github.com/trife wheatgenetics.org/apps

FieldBook App

FieldBook App - traits Numeric Date Percent Categorical Text Photo Multicat Rust Rating Counter

FieldBook App – import file Field_ID Row Tree Name R_T NVB_1_1-3_KV970512-501 1 1_3 KV970512-501 R1T1_3 NVB_1_7-9_KV930465-301 7_9 KV930465-301 R1T7_9 NVB_1_10-12_KV980677-801 10_12 KV980677-801 R1T10_12 NVB_1_13-15_KV980316-701 13_15 KV980316-701 R1T13_15 NVB_1_16-18_KV930386-401 16_18 KV930386-401 R1T16_18 NVB_1_19-21_KV980330-601 19_21 KV980330-601 R1T19_21 NVB_1_22-24_Sweet Dream 22_24 Sweet Dream R1T22_24 NVB_1_25-26_Galaxy 25_26 Galaxy R1T25_26 NVB_1_27-29_China Pearl 27_29 China Pearl R1T27_29 NVB_1_36-38_Intrepid 36_38 Intrepid R1T36_38 NVB_1_39-40_Carolina Gold 39_40 Carolina Gold R1T39_40 NVB_1_42-44_Summer Gold 42_44 Summer Gold R1T42_44 NVB_1_45-47_Belle of Georgia 45_47 Belle of Georgia R1T45_47 NVB_1_49-50_Flameprince 49_50 Flameprince R1T49_50 NVB_2_25-27_Late Large 23 2 25_27 Late Large 23 R2T25_27 NVB_2_22,24_5D Big 22,24 5D Big R2T22,24 NVB_2_19-21_9 Ball 9 Ball R2T19_21

FieldBook App – exporting data Export to CSV files Two formats: database, table Choose what gets exported All field columns vs. Unique ID All traits vs. Active traits Overwrite previous export Option to share to other services after export

FieldBook App – export formats Database Field_ID Row Tree Name R_T trait value person timestamp NVB_1_25-26_Galaxy 1 25_26 Galaxy R1T25_26 50% Bloom 2015.3.10 trey_ 2015.03.11 16:00:37 90% Bloom 2015.3.12 2015.03.11 16:00:45 NVB_4_49-50_BY01z1957t 4 49_50 BY01z1957t R4T49_50 2015.3.11 2015.03.11 16:02:06 NVB_4_43-45_BY00m2264z 43_45 BY00m2264z R4T43_45 2015.3.8 2015.03.11 16:02:15 2015.03.11 16:02:18 Table Field_ID Row Tree Name R_T 50% Bloom 90% Bloom NVB_1_1-3_KV970512-501 1 1_3 KV970512-501 R1T1_3 2015.3.10 2015.3.12 NVB_1_7-9_KV930465-301 7_9 KV930465-301 R1T7_9 2015.3.11 2015.3.13 NVB_1_10-12_KV980677-801 10_12 KV980677-801 R1T10_12 2015.3.8 NVB_1_13-15_KV980316-701 13_15 KV980316-701 R1T13_15 NVB_1_16-18_KV930386-401 16_18 KV930386-401 R1T16_18 2015.3.15

Using the FieldBook App in peach breeding FieldBook app downloaded on two tablets and one phone All material relevant for the peach breeding program and planted at the research farm, prepared as “import files”, uploaded into the app Traits prepared and uploaded to all devices Collected data stays within the app No syncing between devices available – will be part of BIMS Weekly export of collected data and update of the import files with column “evaluated” (yes/no) allows the tracking of what has been evaluated

Using the FieldBook App in peach breeding Data are connected with the Unique_ID not the import file name Data can be changed in the app and lost if not downloaded frequently Data stay in the app until the database has been reset Reset removes the data from the app and disconnects the collected audio and photo data from unique_ID Prior to resetting download the database FieldBook is used for collection of data in field and in lab

Vision of BIMS To aid new cultivar development by providing individual breeders with a secure and comprehensive online breeding information management system which will allow them to: Store, manage, archive and analyze their private breeding program data Fully integrate their data with publicly available genomic, genetic and breeding data Manage data from the Field Book App, an android app for efficient collection of phenotype data in the field and laboratory

Components of BIMS in GDR Archive Manage Breeding Data Import, Edit and Download Search and Compare Field Book App Management Data Analysis Tools Breeding Decision Tools

BIMS Home Login from GDR home page accesses the breeders private BIMS

Archive Archive complete breeding program data to PC and view history of archiving The Archive function in BIMS allows you at any time to save your data to your local device (computer, tablet, phone etc.) You will be able to select all the data, some of the data, between dates and in requested format.

Manage Breeding – Manage Program In the manage program section, you can edit information on your program and also add members and give them privileges to read or read and write. Add members and give them privileges to read or read/write

Manage Breeding – Manage Lists Create lists of germplasm and traits to make phenotypic data collection sheets, download phenotypic or genotypic data in ‘Download’ or any other future BIMS tools. You can create lists of germplasm and traits to make phenotypic data collection sheets, download phenotypic or genotypic data in ‘Download’ or any other future BIMS tools.

Manage Breeding – Manage Traits View existing traits and trait details Add/edit/delete traits in admin menu In the manage trait section, you can view existing traits and trait details. In the Admin menu, you can add, edit or delete traits. You can do the same thing in sections such as location, cross and germplasm.

Manage Breeding – Manage Trials View all trials. Clicking on a trial name, populates the trial description

Manage Breeding – Manage Trials Add new trials, edit or remove trials from the program.

Manage Breeding – Manage Trials View all trials. Right click and create new folders and move trials into the new folder.

Manage Breeding – Manage Trials Clicking on trial provides data selectable by trait, stats about the trait and access to view/ download all the data for the trial.

Manage Breeding – Manage Trials The phenotypic data can be sorted by column heading. We will add ability to select what data is displayed in the table

Manage Breeding – Manage Trials The Breeding Line Tree shows all the progeny and breeding lines that have been tested. Clicking on a breeding line shows all the trials where the breeding line was phenotyped, Clicking any trial name will access the same phenotype page with the statistical information and the entire phenotype data.

Data Import - Templates In data import, templates for each type of data are available for download in template list page. Data import for Field Book App output will be shortly available.

Data Import - Templates In data import, templates for each type of data are available for download in template list page. Data import for Field Book App output will be shortly available.

Data Import – Upload data from Templates In data upload, files can be uploaded. The status of the upload is shown. The history of files uploaded is being added with submission details.

Search – By Germplasm Name Search by name, search germplasm records by name or upload a file of germplasm to return summary details, then drill down to crosses, trials and phenotype data for that germplasm.

Download – By Trial Download all the phenotype data by trial. Download by list available later.

FieldBook App Management Upload trait evaluation data collected with the Field Book App to BIMS Download trait data collection files in Field Book Format

Timeline for Development V1.0 by January 2017 Load complete breeding program data and tested by breeder Feedback from breeders on proposed BIMS V1.0 by June 2017 Excel template and FieldBook App data loading available Search germplasm by name, parentage, trait, and genotype available Archiving available V2.0 by September 2017 Compare by germplasm and dataset available