1. IWIS Review SDD November 2003 IWIS International Wheat Information System

2. IWIS Review SDD November 2003 IWIS Overview Introduction IWIS Architecture IWIS Components IWIS and the wheat breeding process

3. IWIS Review SDD November 2003 Introduction “ The International Wheat Information System (IWIS) manages and integrates diverse information pertaining to bread wheat, durum wheat, triticale, and barley. IWIS provides each germplasm used in the wheat breeding process with a unique identifier. Using the IWIS identifier, users can pinpoint a particular wheat despite its many names, trace its family tree, and then explore what is known about the wheat line.”

4. IWIS Review SDD November 2003 Introduction IWIS allows researchers to: Trace the ancestry of individual wheat lines and estimate the degree of relatedness among them Update family trees as additional data on ancestry become available Generate field books for germplasm evaluation Gather genetic, environmental, and phenotypic information to be used in germplasm improvement

5. IWIS Review SDD November 2003 IWIS Architecture Function/Task 1 Function/Task 2 Update Tools Report Tools Query Tools Operating System (Windows NT) Database System (SQL Server) Network System Application 1 Application 2 Application n....... Function/Task n Infrastructure Perspective System Perspective Users Perspective uses supports

6. IWIS Review SDD November 2003 IWIS Components Pedigree Management (WPMS) Data Management (WDMS) Field Books Management (WPFBS) Germplasm Bank (WGBS) International Nurseries (WINS)

7. IWIS Review SDD November 2003 IWIS Components IWIS Tools for:  Germplasm Data Curators

8. IWIS Review SDD November 2003 IWIS Components IWIS Tools for:  Research Assistants

9. IWIS Review SDD November 2003 IWIS Components IWIS Tools for:  Researchers

10. IWIS Review SDD November 2003 IWIS Components IWIS Tools for:  Database Administrators

11. IWIS Review SDD November 2003 IWIS Components IWIS Tools for:  International Nursery Testing

12. IWIS Review SDD November 2003 IWIS Components - PMS Functions Unique identification of crosses and selections - Cross Id, Selection Id (CID, SID) Female CID Female SID Male CID Male SID BOBWHITE, CM 33203 CM33203-K-10M-7Y-3M-2Y-1M-0Y GARA, CM33203-K-9M-19Y-3M-3Y-0M-0ETH[ETH]

13. IWIS Review SDD November 2003 IWIS Components - PMS Functions Semantic interpretation of crosses and selections  Generic/Specific names  Synonyms  Sister lines BOBWHITE, CM 33203 CM33203-K-10M-7Y-3M-2Y-1M-0Y GARA, CM33203-K-9M-19Y-3M-3Y-0M-0ETH[ETH] PAI MISTOL, CM33203-K-9M-19Y-3M-3Y-0M-0ETH[ETH]

14. IWIS Review SDD November 2003 IWIS Components - PMS Functions Syntactical analysis of crosses and selections Pedigree CID,SID

15. IWIS Review SDD November 2003 IWIS Components - PMS Functions Genealogy tree generation

16. IWIS Review SDD November 2003 IWIS Components - PMS Functions Purdy notation expansion

17. IWIS Review SDD November 2003 IWIS Components - PMS Functions Foreign material introduction Pedigree Origin

18. IWIS Review SDD November 2003 IWIS Components - PMS Functions Genetic relationships quantification

19. IWIS Review SDD November 2003 IWIS Components - FBS Functions Crossing block New cross Female parent Male parent

20. IWIS Review SDD November 2003 IWIS Components - FBS Functions Trial Data Entry Progenitors Selection History F1 fieldbooks

21. IWIS Review SDD November 2003 IWIS Components - FBS Functions Selection of segregating material New selection Source material

22. IWIS Review SDD November 2003 IWIS Components - FBS Functions Trial data Entry Pedigree Origin Segregating material fieldbooks

23. IWIS Review SDD November 2003 IWIS Components - FBS Functions Trial data Design Pedigree Origin International nurseries fieldbooks

24. IWIS Review SDD November 2003 IWIS Components - DMS Functions Electronic data input and validation

25. IWIS Review SDD November 2003 IWIS Components - DMS Functions Environmental data management

26. IWIS Review SDD November 2003 IWIS Components - DMS Functions Genetic data management

27. IWIS Review SDD November 2003 IWIS Components - DMS Functions Phenotypic data management

28. IWIS Review SDD November 2003 IWIS Components - DMS Functions Alpha lattice statistical analysis (REML)

29. IWIS Review SDD November 2003 IWIS Components - WINS Functions International nurseries distribution and shipment

30. IWIS Review SDD November 2003 IWIS Components - WINS Functions Cooperator data management

31. IWIS Review SDD November 2003 IWIS Components - WINS Functions Phytosanitary certificates

32. IWIS Review SDD November 2003 IWIS and the wheat breeding process Diagram of Germplasm Flow Cd. Obregon A x B Toluca F1 x C or A or B Cd. Obregon (Individual plants) 1 F2 Toluca (Bulk of 10 spikes) F3 Cd. Obregon (Bulk of 10 spikes) F4 Toluca (Bulk of 10 spikes) F5 Cd. Obregon (10 individual spike) F6 Toluca (Bulk of whole plot) F7 F1T F2 (Individual plants) F3 (Bulk of 10 spikes) F4 (Bulk of 10 spikes) F5 (Bulk of 10 spikes) F6 (10 individual spikes) Cd. Obregon PYT AL F7 (Bulk of whole plot) (ME1, ME4, ME5) (ME2, ME3, ME6) Toluca EAL PYT AL (ME1, ME4, ME5) (ME2, ME3, ME6) (ME1, ME4, ME5) Cd. Obregon YT EAL PYT (ME1, ME4, ME5) (ME2, ME3, ME6) (ME1, ME4, E5) Toluca YT EAL (ME2, ME3, ME6) (ME1, ME4, ME5) Cd. Obregon YT (ME1, ME4, ME5) El Batan Candidates, International Nurseries and Yield Trials (Small Increase) Mexicali Candidate, International Nurseries and Yield Trials (Large Multiplication) WORLD International Nurseries and Yield Trials Crossing Selection of segregating material Germplasm evaluation Germplasm multiplication Replicated yield testing

33. IWIS Review SDD November 2003 IWIS and the wheat breeding process Crossing

34. IWIS Review SDD November 2003 IWIS and the wheat breeding process Selection of segregating material

35. IWIS Review SDD November 2003 IWIS and the wheat breeding process Germplasm evaluation and multiplication

36. IWIS Review SDD November 2003 IWIS and the wheat breeding process Replicated yield testing

37. IWIS Review SDD November 2003 IWIS Recent improvements WPMS  Any reports  Standard reports  Parser functionality 100% WFBS  New fonts and field book layouts  Conversion of IN field books to laser printer format  Randomized field books in Excel format WDMS (PGD)  Phenotypic data queries on multiple traits  Direct access at Obregon (soon at Toluca)

38. IWIS Review SDD November 2003 WPMS Update Tools - WPMS Update Type in the pedigree or paste it from another application (for instance Excel). Then click the Parse button to get Unknown Elements. Now you can create the crosses with the “Next” button.

39. IWIS Review SDD November 2003 WPMS Update Tools - WPMS Update Insert new cross from the “Next” button of Pedigree, or Update/Delete of existing crosses. Make a Standard BCID using the fields Program, Year, Free, Organization and Location.

40. IWIS Review SDD November 2003 WPMS Update Tools - WPMS Update Manage names for both crosses and selections. Search by Name Search by Abbreviation Search by CID List of names for this CID (7691)

41. IWIS Review SDD November 2003 WPMS Update Tools - WPMS Update Type in the selection history or paste it from another application (for instance Excel). Then click the Parse button to get Unknown Elements. Now you can create the selections with the “Next” button. Search by CID+SID

42. IWIS Review SDD November 2003 WPMS Update Tools - WPMS Update Insert new selection from the “Next” button of Selection History, or Update/Delete of existing selections. Search by CID+SID

43. IWIS Review SDD November 2003 WPMS Update Tools - WPMS Update Search by Name Search by Abbreviation Search by CID+SID Manage Selection Names List of names for this CID (7691) and SID (0).

44. IWIS Review SDD November 2003 WPMS Update Tools - WPMS Update Manage parts of a selection history that doesn’t consist of standard selection elements. Search by CID+SID

45. IWIS Review SDD November 2003 WPID Results list of CID and BCID related to Name or Cross that we are looking for. Input field for Name or Cross WPID

46. IWIS Review SDD November 2003 WPSEL Input field for Selection history Resultant Cross CID,SID Aditional description about results WPSEL

47. IWIS Review SDD November 2003 WPMS Query Tools- Dendrogram Search by name, BCID or CID/SID

48. IWIS Review SDD November 2003 WPMS Query Tools- Dendrogram Expansion level Genealogy tree display options Name and selection history

49. IWIS Review SDD November 2003 WPMS Query Tools- Dendrogram Mendelgram: Theoretical percentage contribution of ancestors to a pedigree assuming equal contribution from both parents in a cross

50. IWIS Review SDD November 2003 Wheat Coefficient of Parentage Capture information for:  Cross Name  Cross Identification (CID) and Selection Identification (SID)  Breeder Cross Identification (BCID) List Target Genotypes Generate and Display Coefficients of Parentage Matrix

51. IWIS Review SDD November 2003 Wheat Coefficient of Parentage Creating Genealogical Dendrogram  creates the fully expanded genealogical tree for each target genotype. Fusing Common Elements of Genealogical Dendrograms  combines the genealogical trees of target genotypes into a kind of "multiple genealogical tree" where common ancestors are "shared" by their offspring. Creating Matrix  the matrix of Coefficients of Parentage is generated based on the Rodgers & Cox algorithm. Loading Matrix  the matrix is constructed and displayed with the HTC (highest theoretical genetic contribution at maximum expansion) values for each target genotype.

52. IWIS Review SDD November 2003 Wheat Coefficient of Parentage The generated COP Matrix is displayed in the Matrix window. You can print the matrix by clicking the "Print COP Matrix" icon. Gen (a sequential genotype number for each target genotype assigned for the COP analysis) Cross ID and Selection ID. Name. Abbreviation. HTC (highest theoretical genetic contribution).

53. IWIS Review SDD November 2003 WPMS Reports Use this command to define the format used to display or print WPMS records. Query Builder. This command will display the Query Builder screen, which permits searching the WPMS database and retrieving subsets of records, which can be displayed or printed. Fast Query Report. This command will display the Fast Query Builder, which permits to search with a single search criteria.

54. IWIS Review SDD November 2003 WPMS Reports Select Crosses Fields and Names Fields. This box shows the list of data fields, associated with genotypes, that can be included as a search criteria in the query expression: Operator. This box is displayed after selecting one field (Cross or Names) and shows the list of logical operators that can be used to associate Cross or Names fields with specific data field values: Verify. Check the correct syntax of the query expression. If the query expression is correct, the Execute button becomes active and the search can be performed. Otherwise, the application will ask you to correct the expression. Execute. Execute the query expression and retrieve the records matching the search criteria.

55. IWIS Review SDD November 2003 WPMS Reports Sort retrieved data. You may select one of the displayed fields for sorting. Then proceed, browsing or printing the retrieved and sorted records. Print. This command has two options:  Print All-Fields. Choose this option to print all the fields defined for the active format.  Print Selected_Fields. Choose this option to print a subset of the fields defined for the active format. If you choose this option, the application displays a screen showing all the fields defined for the active format. You may select one field at the time, select all the fields or cancel the operation clicking on the corresponding buttons included on this screen.

56. IWIS Review SDD November 2003 WFB PC Search CID, SID information by Name for the checks.

57. IWIS Review SDD November 2003 WFB PC

58. IWIS Review SDD November 2003 WFB PC

59. IWIS Review SDD November 2003 WFB PC

60. IWIS Review SDD November 2003 WFB Trial From Origins The program Trial From Origins offers an interactive method for entering all related information for the entries of a given trial, and to evaluate if this information is correct. This is done by keeping a list of origins for each trial. There are 5 types of Trials: 1. Crosses Trial 2. Selections Trial 3. Movements Trial 4. CIDs with no origin Trial 5. Mixed Trial

61. IWIS Review SDD November 2003 WFB Trial From Origins An example of a Mixed Trial. In this example, some records are Crosses origins (CRS), some records are Female Movement origins (FMOV). Only columns that are relevant for that type of record are filled out.

62. IWIS Review SDD November 2003 WFB Trial From Origins An example of a Crosses Trial.

63. IWIS Review SDD November 2003 WFB Trial From Origins An example of a Selections Trial with checks in entries 401 and 402.

64. IWIS Review SDD November 2003 WFB Trial From Origins An example of a CIDs with no origin Trial.

65. IWIS Review SDD November 2003 WFB Trial From Origins An example of a Movements Trial.

66. IWIS Review SDD November 2003 WFB Trial From Origins Buttons: 1. Fill a column with a number or a range of numbers. 2. Verify that the origins are correct. 3. Save the trial. 4. Insert an Entry. 5. Delete an Entry. 6. Make selections automatically. 7. Generate a report of which BCIDs will be generated based on the origins (only enabled for Crosses Trials). 8. Import Clipboard from Excel (or a text file).

67. IWIS Review SDD November 2003 WFB Trial From Origins When verifying the trial, all origins will be checked for errors. All errors are reported in the error file shown here. If no errors are found, only Trial ID (here 99054), type of trial and number of entries and number of checks are mentioned.

68. IWIS Review SDD November 2003 WFB Trial From Origins The BCID report will show which BCIDs the different new crosses will get if the trial were to be frozen at this very moment. The actual BCIDs depend on which numbers have already been used when freezing the trial.

69. IWIS Review SDD November 2003 WFB Freeze Trial When the trial has no more errors in Trial From Origins, Freeze Trial can create the entries in Wfb_Entrylist based on the origins. You enter the Trial ID and click “Send” to launch a batch process.

70. IWIS Review SDD November 2003 WFB Freeze Trial The next tab shows the jobs that have been launched, whether they are pending, are currently processing or have already finished.

71. IWIS Review SDD November 2003 WPMS Report Tools - AnyReport Report Name Parameters There are currently 12 reports included in the combo box.

72. IWIS Review SDD November 2003 WPMS Report Tools - AnyReport The result is a report in a text file:

73. IWIS Review SDD November 2003 WFB/WPMS Standard Reports Create a report with all the selection histories of a given CID

74. IWIS Review SDD November 2003 WFB/WPMS Standard Reports The text file with all the selection histories of a given CID. The list contains Cross Identifier (CID), Previous Selection Identifier (PSID), Selection Identifier(SID) and Selection History.

75. IWIS Review SDD November 2003 WFB/WPMS Standard Reports The CID,SID report will show you all entries from Wfb_Entrylist of a given CID or CID+SID pair.

76. IWIS Review SDD November 2003 WFB/WPMS Standard Reports The CID,SID report will show you all entries from Wfb_Entrylist of a given CID or CID+SID pair. This is the output text file.

77. IWIS Review SDD November 2003 WFB/WPMS Standard Reports The CID descendants report will show you all entries from Wfb_Entrylist which has a CID which is a descendant of a given CID or CID+SID pair.

78. IWIS Review SDD November 2003 WFB/WPMS Standard Reports The CID descendants report will show you all entries from Wfb_Entrylist which has a CID which is a descendant of a given CID or CID+SID pair. This is the output text file.

79. IWIS Review SDD November 2003 WFB/WPMS Standard Reports You can get reports from many different tables based on a number of commonly used text fields, like Cross Name, Pedigree, Selection History, Trial Name etc. etc. All fields of the used table will be shown, with the records that corresponds to the search string. Specify which fields you want to have the records ordered by.

80. IWIS Review SDD November 2003 WFB/WPMS Standard Reports The report text file of the Trial Names that have the string INV somewhere in the Trial Name. We ordered by Cycle and Trial Abbreviation, which can be appreciated in the example report.

81. IWIS Review SDD November 2003 RANDOMIZATIONS Options : - Add randomizations. Format types : - Free design - Alphagen - Delete randomizations.

82. IWIS Review SDD November 2003 RANDOMIZATIONS Range of Trials

83. IWIS Review SDD November 2003 RANDOMIZATIONS Range of occurrences

84. IWIS Review SDD November 2003 RANDOMIZATIONS Format type

85. IWIS Review SDD November 2003 Field Books (IWISFBS) Tid Ocurrences Field Book Type Print Field Books (on Block)

86. IWIS Review SDD November 2003 Field Books (IWISFBS) Tid Occurrence Field Book Type Print Field Book (one by one)

87. IWIS Review SDD November 2003 Field Books (IWISFBS) General Trial Data Entry Name and Selection History of Parents Area to take notes Field Book Type 23, F1 Historic, with 2 columns to take notes. Selection History

88. IWIS Review SDD November 2003 Field Books (IWISFBS) General Trial Data Entry Name and Selection History Area to take notes Field Book Type 24, National Basic Material, with 14 columns to take notes. Origin

89. IWIS Review SDD November 2003 Field Books (IWISFBS) General Trial Data Entry Name and Selection History Origin Field Book Type 25, National Segregating without columns to take notes.

90. IWIS Review SDD November 2003 Field Books (IWISFBS) General Trial Data Entry Name and Selection History Area to take notes Field Book Type 26, National Basic Material with 5 columns to take notes. Origin

91. IWIS Review SDD November 2003 Field Books (IWISFBS) General Trial Data Plot Name and Selection History Area to take notes Field Book Type 28, National Material with a column for code, with 13 columns to take notes. Origin Code

92. IWIS Review SDD November 2003 Field Books (IWISFBS) General Trial Data Entry Name and Selection History Repetitions Field Book Type 29, National with no columns to take notes. Origin

93. IWIS Review SDD November 2003 Field Books (IWISFBS) General Trial Data Plot Name and Selection History Area to take notes Field Book Type 41, National development with 13 columns to take notes. Entry Origin

94. IWIS Review SDD November 2003 Field Books (IWISFBS) General Trial Data Entry Name and Selection History Area to take notes Field Book Type 42, National Basic Material from the Germplasm Bank, with 14 columns to take notes. Introduction Id Origin

95. IWIS Review SDD November 2003 Field Books (IWISFBS) General Trial Data Entry Name and Selection History Area to take notes Field Book Type 43, National Basic and Segregating Material from the Germplasm Bank, with 5 columns. Introduction Id Origin

96. IWIS Review SDD November 2003 Field Books (IWISFBS) General Trial Data Entry Name and Selection History of Parents Repetitions Field Book Type 47, National combined, cross and movement, with no columns to take notes. Origin

97. IWIS Review SDD November 2003 Field Books (IWISFBS) General Trial Data Plot Name and Selection History of Parents Area to take notes Field Book Type 48, National combined, cross and movement with design, with 13 columns to take notes. Entry Origins

98. IWIS Review SDD November 2003 Field Books (IWISFBS) General Trial Data Design Name and Selection History Origin Field Book Type 60, International Yield, with 9 columns to take notes.

99. IWIS Review SDD November 2003 Field Books (IWISFBS) General Trial Data Entry Name and Selection History Area to take notes Field Book Type 61, International Screening, with 13 columns to take notes. Origin

100. IWIS Review SDD November 2003 Field Books (IWISFBS) General Trial Data Entry Name and Selection History Area to take notes Field Book Type 62, International Segregating, with 5 columns to take notes. Origin

101. IWIS Review SDD November 2003 Field Books (IWISFBS) General Trial Data Design Name and Selection History Origin Field Book Type 63, International Barley Yield, with 9 columns to take notes.

102. IWIS Review SDD November 2003 Field Books (IWISFBS) General Trial Data Entry Name and Selection History Area to take notes Field Book Type 64, International Barley Screening, with 14 columns to take notes. Origin

103. IWIS Review SDD November 2003 Field Books (IWISFBS) General Trial Data Entry Name and Selection History Area to take notes Field Book Type 65, International Barley Segregating, with 5 columns to take notes. Origin

104. IWIS Review SDD November 2003 Field Books (IWISFBS) Field Book Type 6, Excel format. Column Titles

105. IWIS Review SDD November 2003 Field Books (IWISFBS) Field Book Type 49, Information of Parents in a excel format. Column Titles

106. IWIS Review SDD November 2003 Field Books (IWISFBS) Field Book Type 66, Yield Excel format. Column Titles

107. IWIS Review SDD November 2003 Field Books (IWISFBS) Field Book Type 67, Screening Excel format. Column Titles

108. IWIS Review SDD November 2003 Field Books (IWISFBS) Field Book Type 4, Tags. Cross Name Selection History Trial name Program Introduction Id Cycle

109. IWIS Review SDD November 2003 Field Books (IWISFBS) Field Book Type 5, Labels. Trial Name Program Cycle Entry Cross Name Selection History

110. IWIS Review SDD November 2003 Field Books (IWISFBS) Field Book Type 21, Randomized labels. Trial Name Program Cycle Plot Cross Name Selection History

111. IWIS Review SDD November 2003 Field Books (IWISFBS) Field Book Type 22, Randomized tags. Cross Name Selection History Trial name Program Cycle Plot

112. IWIS Review SDD November 2003 WDMS Catalog Allow the users to add, update,view and delete : - Scales or Units - Traits - Measured In - Transformations - Stations

113. IWIS Review SDD November 2003 WDMS Catalog Scale types : - Discrete - Continue Value types : - Integer - Real - Text - Date

114. IWIS Review SDD November 2003 WDMS Catalog Class types : - GE. Phenotypic (G x E) - G. Genetic. - E. Environmental

115. IWIS Review SDD November 2003 WDMS Catalog Scales/Units that the trait can be measured in.

116. IWIS Review SDD November 2003 WDMS Catalog

117. IWIS Review SDD November 2003 WDMS Catalog

118. IWIS Review SDD November 2003 WDMS Reports WDMS Traits

119. IWIS Review SDD November 2003 WDMS Reports Scales/Units

120. IWIS Review SDD November 2003 WDMS Reports Titles Continuos Transformation.

121. IWIS Review SDD November 2003 WDMS Reports Titles Discrete Transformations.

122. IWIS Review SDD November 2003 WDMS Reports Titles Geographic Data, Sorted by General Number.

123. IWIS Review SDD November 2003 WINS Institution types : - Educational - Government - Private - Other Sowing date

124. IWIS Review SDD November 2003 WINS Program : B. Barley BW. Bread Wheat DW. Durum Wheat TR. Triticale SP. Special Project Trial identification Range of occurrences

125. IWIS Review SDD November 2003 WINS Continent Cooperator id. (coopkey) Country Institution name Last name

126. IWIS Review SDD November 2003 WDMS Query Tools- PGD Genetic, environmental, and phenotypic data queries within trials Phenotypic data queries by genotypes and locations

127. IWIS Review SDD November 2003 WDMS Query Tools- PGD Select cycle and trial for queries within trials

128. IWIS Review SDD November 2003 WDMS Query Tools- PGD Genetic data is linked to PMS through CID,SID

129. IWIS Review SDD November 2003 WDMS Query Tools- PGD Genetic data queries Trial G Traits G Data

130. IWIS Review SDD November 2003 WDMS Query Tools- PGD Environmental data is associated to locations

131. IWIS Review SDD November 2003 WDMS Query Tools- PGD Environmental data queries Trial E Traits (name and abbreviation) E Data

132. IWIS Review SDD November 2003 WDMS Query Tools- PGD Phenotypic data queries Table options Trial GxE Trait in standard scale Locations GxE Data (REML means across reps) Basic statistics across locations

133. IWIS Review SDD November 2003 WDMS Query Tools- PGD Phenotypic data queries on multiple traits Grain Yield data Other traits statistics

134. IWIS Review SDD November 2003 WDMS Query Tools- PGD Phenotypic data queries on genotypes Genotype Nurseries where the genotype has been evaluated

135. IWIS Review SDD November 2003 WDMS Query Tools- PGD Phenotypic data queries on locations