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Changes in genetic evaluations and editing system

Evaluation date Changes in genetic evaluations and editing systems
April 2, 2018 Issues affecting Guernsey evaluations in April 2018

  • Guernsey unknown parent groups in April 2018
  • About pre-released 105el.zip file
  • April 2018 Evaluation system

  • New health evaluations for Holsteins officially released
  • All-breed system extended to genomic evaluations
  • Productive Life (PL) correction
  • December 2017 Evaluation system

  • Publication of AH2 - Second haplotype affecting Ayrshire fertility
  • Test run for health traits and GL evaluation on females
  • New phantom groups in productive traits for polygenic effect
  • Updates on composites in all breeds
  • Changes in age grouping for sire conception rate (SCR) on Holstein
  • Excluding animals with unlikely grandparent information
  • Changes in web functions
  • August 2017 Evaluation system

  • Gestation length evaluations
  • Changes in unknown parent group definitions
  • Type composite correction
  • Introduction of new edits in calving traits
  • Reduced computation in Holstein evaluations
  • April 2017 Evaluation system

  • Cow livability and revised body weight composite in net merit
  • Revision of heterosis adjustments
  • Correction of SCS parent averages for non-genotyped heifers
  • Revision of rear udder width for Brown Swiss
  • December 2016 Evaluation system

  • Beginning with the 1612 evaluations, three new traits have been added to the "Comparison of Genomic and Traditional evaluations" report - Livability, Cow Conception Rate, and Heifer Conception Rate. The order of the traits has also been slightly revised.
  • August 2016 Evaluation system

  • Cow livability evaluation
  • Genomic mating file format
  • Genotype exchanges with Japan and Switzerland
  • Mutations in HH5
  • April 2016 Evaluation system

  • Genomic evaluation of Guernseys
  • Breed base representation for crossbreds
  • Edits and adjustments for heifer conception rate
  • Mutations in HCD and in BH2
  • Reliability and inbreeding in weekly evaluations
  • December 2015 Evaluation system

  • Genetic variance for Jersey type traits
  • Unknown parent group definitions
  • Additional breeds from Interbull
  • Editing changes for sire conception rate
  • August 2015 Evaluation system

  • New Holstein Haplotype for Cholesterol Deficiency (HCD)
  • April 2015 Evaluation system

  • Sire conception rate and calving traits for all bulls
  • Brown Swiss haplotype for polled
  • Productive life standard deviation
  • December 2014 Evaluation system

  • Genetic base change for all traits
  • Net merit revised and grazing merit introduced
  • Delivery of preliminary evaluations weekly
  • New genetic evaluation software
  • Revised evaluation of daughter pregnancy rate
  • August 2014 Evaluation system

  • Genomic inbreeding for mating programs
  • Jersey haplotype 2 (JH2)
  • Holstein haplotypes for dominant red (HDR) and black/red (HBR)
  • Incorrect input data for MOFRA007045598076 PLUMITIF
  • April 2014 Evaluation system

  • Improved discovery of maternal grandsires
  • Revised LD chip and incorporation of gene tests
  • Revised calculation of genomic future inbreeding
  • Jersey genotypes from Denmark
  • January 2014 Evaluation system

  • Inclusion of Danish Jersey genotypes
  • December 2013 Evaluation system

  • Multi-trait, multi-breed conception rate evaluations
  • Genomic evaluations using 61,013 markers
  • Additional chips introduced
  • Genomic weighting and deregression improved
  • Jersey haplotype for Polled
  • September 2013 Evaluation system

  • Jersey haplotype for polled added
  • HHR haplotype test results not released
  • August 2013 Evaluation system

  • New fertility and stillbirth haplotypes and changes in haplotype status
  • Version 2 of GeneSeek Genomic Profiler chip
  • Foreign and genomic information in parent averages
  • Six digit cow control numbers
  • May 2013 Evaluation system

  • Release rule changes
  • Additional variables added to XML files
  • Information on GP2 chip
  • April 2013 Evaluation system

  • Distribution and access to genomic evaluations
  • Use of a new chip with 76,867 markers
  • Ayrshire genomic evaluations
  • Weights used in genomic evaluations
  • Calving-ease format change
  • December 2012 Evaluation system

  • Correction and adjustment of health trait evaluations and reliabilities
  • PTA for days from calving to first insemination
  • Changes in HH1, HH3, and JH1 status
  • New reproductive status and culling annual reports
  • Automated processing of genotypes
  • August 2012 Evaluation system

  • Revisions to heifer and cow conception rates
  • Specific cow adjustments by country of evaluation for Holsteins
  • Genomic and pedigree inbreeding match better
  • Mobility for Brown Swiss and additional traits for Milking Shorthorns
  • Additional Brown Swiss genotypes from Interbull
  • Updated Chromosomal PTA Query
  • April 2012 Evaluation system

  • Adjustments to genomic evaluations and reliabilities
  • Data cutoff date for sire conception rate
  • Productive life field format
  • Sire-dam multitrait across-country evaluation (MACE)
  • December 2011 Evaluation system

  • Genomic evaluations using 6,909 markers
  • Maternal grandsire detection and discovery
  • August 2011 Evaluation system

  • Inclusion of British and Italian Holstein genotypes
  • Reporting of haplotypes that affect fertility
  • Changes in marker edits
  • April 2011 Evaluation system

  • Adjustment of yield evaluations for all cows
  • Improved imputation
  • Chip type and genomic inbreeding in formats 38 and 105
  • Multitrait heifer and cow conception rates
  • Genomic Reliability Discount
  • December 2010 Evaluation system

  • Evaluations using 2,900 markers
  • Data sources for sire conception rate evaluations
  • November 2010 Estimated 2010 Genetic Base Changes for Goats-Production and Type Traits
    [AIPL Supplemental Report (07-10)]
    August 2010 Evaluation system

  • Mexican cow records
  • Validation of genomic evaluations
  • Improvements to imputed dam genotypes
  • Preliminary evaluations using 3,000 markers
  • Conception rate evaluations for males and females
  • April 2010 Evaluation system

  • Cow adjustments in genomic evaluation of yield traits
  • Haplotypes used for imputing genotypes
  • Breed-specific markers
  • Fertility data
  • Genotypes from Switzerland
  • Improved reliability for genomic evaluations
  • January 2010 Evaluation system

  • Base change
  • Net merit revision
  • Heifer and cow conception rates
  • Revised genomic evaluation methods
  • Web query to track genotypes
  • AIPL e-mail addresses

    Net merit (2010 review)
  • August 2009 Evaluation system

  • Brown Swiss genomic evaluations
  • Revised marker set used in genomic predictions
  • Blending of genomic and current Interbull evaluations

    Base change documentation for January 2010
  • April 2009 Evaluation system

  • Revisions to genomic calculations
  • January 2009 Evaluation system

  • Genomic evaluations become official
  • Multitrait best prediction
  • Cow and heifer conception rates
  • August 2008 Evaluation system

  • Service sire conception rate
  • Genetic evaluations for clones
  • More traits of foreign sires used in cow evaluations
  • Reporting genetic recessive codes
  • April 2008 Evaluation system

  • Genomic prediction
  • January 2008 Evaluation system

  • New evaluation schedule
  • Interbull fertility evaluations for breeds other than Holstein
  • Interbull evaluations on Milking Shorthorn base
  • Jersey, Brown Swiss, and Guernsey conformation composites
  • August 2007 Evaluation system

  • Breed composition file for crossbreds
  • Adjustments to all-breed model
  • Parent averages for young bulls
  • Revised definition of Interbull type-of-proof code

    Editing system

  • Correction of bull identification (ID) numbers with more than nine digits
  • May 2007 Evalustion system

  • All-breed animal model
  • Genetic trend for daughter pregnancy rate
  • Genetic trends for calving ease and stillbirth
  • Revisions to herd variance adjustment
  • Sample population for expected future inbreeding
  • February 2007 Evaluation system

  • Fertility evaluations from Interbull
  • Elimination of duplicate evaluations for Red-and-White bulls and related format-38 changes

    Editing system

  • Consistency in reporting abortions
  • Designation of breedings with sexed semen
  • November 2006 Evaluation system

  • Holstein stillbirth and Brown Swiss calving ease (CE) from Interbull
  • Ayrshire and Red Dairy Cattle breed codes
  • Series-840 animal ID numbers
  • Additional release of yield evaluations for dairy goats

    Editing system

  • Eliminating milk-component values when all cows have the same value
  • August 2006 Evaluation system

  • Productive life (PL) credits revised
  • Stillbirth and calving ability
  • Lifetime net merit revised
  • CE edits
  • May 2006 Evaluation system

  • Bull fertility evaluation transferred to AIPL
  • Milking speed evaluations for Brown Swiss
  • Rear legs/rear view evaluations for Brown Swiss and Guernseys
  • February 2006 Evaluation system

  • Daughter pregnancy rate (DPR) for foreign bulls
  • November 2005 Editing system
    August 2005 Editing system
    May 2005 Evaluation system

  • CE edits
  • Interbull daughter CE
  • Herd-by-sire interaction variance

    Evaluation correction
  • February 2005 Evaluation correction
    Base change (general documentation)

  • Genetic and phenotypic progress
  • DPR and somatic cell score (SCS) genetic bases
  • CE and PL evaluations
  • Model changes
  • Genetic trend validation

    Base changes

  • Type traits
  • Goat evaluations

    CE evaluation changes
    Herd-by-sire interaction in evaluation models
  • November 2004 Evaluation system

  • Interbull longevity evaluations

    Editing system
  • August 2004 No changes
    May 2004 Evaluation system

  • New variances for Jersey and and Brown Swiss type
  • Jersey Interbull type evaluations

    Editing system
  • February 2004 Evaluation system

  • Pregnancy rate excludes embryo donors
  • Release of Interbull type evaluations for Ayrshire bulls
  • November 2003 Evaluation system

  • Earlier evaluation of DPR
  • Fertility and CE in prediction of PL
  • Measure of pedigree completeness
  • August 2003 Evaluation system

  • Fertility and CE in net merit
  • New variances for Ayrshire type traits

    Editing system
    Delivery system
  • May 2003 Evaluation system

  • New variances for type traits
  • Parent averages for net merit and DPR

    Editing system
  • February 2003 Evaluation system

  • DPR evaluations introduced
  • Changes in type evaluations for non-Holsteins
  • November 2002 Evaluation system

  • Release of Interbull type evaluations for Guernsey and Brown Swiss bulls
  • August 2002 Evaluation system

  • Correlations between PL and yield reduced
  • Sire-maternal grandsire threshold model for CE
  • Adjustment for heterogeneous variance in genetic evaluation of type traits

    Editing system
    Delivery system
  • May 2002 No changes
    February 2002 PL for embryo donors
    November 2001 Evaluation system

  • PL in discontinued herds

    Editing system
  • August 2001 Evaluation system

  • Release of Interbull type evaluations for Jersey bulls
  • Early release of bull ID information
  • Early release of official Interbull evaluations

    Editing system
  • May 2001 Evaluation system

  • Interbull SCS evaluations
  • Variance adjustments for Jersey type traits
  • Interbull conformation evaluations
  • Officiality rules changed

    Editing system
  • February 2001 Evaluation system

  • Delayed release of Interbull files
  • Development of comparison tables
  • Development of new e-mail notification list

    Editing system
  • November 2000
  • Effective number of daughters used in Interbull reliabilities
  • Revised correlations in multitrait PL
  • Heritability increase for Jersey and Brown Swiss
  • 3-character error codes
  • Canadian and American ID checking
  • August 2000
  • Base change for production traits
  • Base change for non-Holstein type traits
  • Multitrait PL
  • Lifetime net merit
  • True protein replaced crude protein
  • Foreign bull pedigree added
  • Cross-references generated from cow control number
  • May 2000
  • High ranking grade designation corrected
  • First-herd designation corrected
  • Usable-herd designation corrected
  • Reporting of test-day errors
  • Cross-references derived from cow control number
  • February 2000
  • Foreign evaluations requested for more cow dams
  • Inbreeding sample included more complete pedigrees
  • Editing improved for test-day data
  • Error detection improved for country codes in ID numbers
  • November 1999
  • Foreign evaluations of parents included in cow evaluations
  • Different tests included when cows change herds
  • Foreign ID may be preferred over U.S. ID
  • August 1999
  • Net merit calculated from Interbull evaluations that include SCS and PL evaluations based on 1 to 9 daughters; parent average previously used for those bulls
  • Evaluation start moved 1 week later, allowing an additional week of data to be included
  • May 1999
  • Fluid and cheese merit indexes and expected inbreeding available for cows
  • Cows required to be tested in first 90 instead of 75 days of lactation
  • Maternal grandsire and birth date supplied for international bulls
  • Foreign evaluations of bull dams from more countries used in parent averages
  • February 1999
  • Lactation records computed from test-day data by best prediction
  • Factors to adjust for 3 milkings per day updated
  • Fluid merit and cheese merit indexes introduced
  • New test-day edits and new programs to accommodate American ID installed
  • Use of Canadian dam data extended to other nations
  • New sampling procedures used for expected inbreeding
  • Bull rankings provided on web and automatically by e-mail
  • November 1998
  • Cows in owner-sampler plans received predicted transmitting abilities (PTAs)
  • Registry status and recessive codes provided
  • August 1998 No changes
    May 1998
  • Interbull evaluations official for a larger number of bulls
  • February 1998
  • Formats displayed international ID numbers and 4-digit years
  • Expected inbreeding of future progeny provided to help identify outcross bulls
  • Reliabilities of milk, fat, and protein combined into yield reliability
  • Type data for breeds other than Holstein evaluated with a multitrait animal model
  • November 1997 No changes
    August 1997
  • Heritability increased to 30%, herd-sire interaction decreased to 10%, and permanent environment decreased to 15%
  • Deviations from management group mean limited to 4 standard deviations
  • Five Netherlands bulls received U.S. PTAs
  • May 1997
  • Frequency of evaluations increased to 4 times per year
  • February 1997
  • Owner-sampler and other records with type-of-test 40 to 77 used
  • Future milk prices forecast with a relative protein:fat ratio of 2:1
  • National and international evaluations released together
  • Interbull evaluations preferred when reliability is 5% higher than U.S. reliability except when U.S. reliability reaches 80%
  • Public access to cow and bull PTAs provided at AIPL web site
  • July 1996
  • Lactation weights computed from record standards variables instead of days in milk
  • January 1996
  • Missing PL and SCS added to make net merit available for all cows
  • Reliabilities for foreign bulls account for imperfect genetic correlation
  • July 1995
  • Net merit, PL, and SCS provided for cows with records
  • For bulls with Canadian dams, converted Canadian data used for parent averages
  • January 1995
  • Genetic base changed to cows born in 1990
  • New adjustment factors for age, parity, season, and previous days open
  • Residual age-parity effects included in model
  • New multiplicative SCS age adjustment factors
  • Conversions for European bulls replaced with Interbull multitrait across-country evaluations (MACE)
  • July 1994
  • Direct and indirect measures of PL combined by Holstein Association
  • Missing PL and SCS added to provide net merit for all bulls
  • Percentiles changed from milk-fat-protein dollars (MFP$) to net merit (bulls only)
  • Reliability of net merit added
  • January 1994
  • PL, SCS, and net merit introduced
  • Inbreeding calculated and used in relationship matrix inverse
  • July 1993
  • Converted Canadian data provided on same day and in same format as U.S. data
  • Improved editing system installed
  • Animal model computations moved from Cornell to AIPL
  • Canadian evaluations converted and combined with U.S. PTAs
  • July 1992 No changes
    January 1992 No changes
    July 1991
  • Heterogeneous variance adjustment began
  • January 1991
  • New lactation weights and expansion of partial records began (RIP dip adjustment)
  • July 1990 No changes
    January 1990
  • Records from later herds included in animal model
  • July 1989
  • Animal model implemented
  • Genetic base changed to cows born in 1985
  • Missing protein PTAs estimated
  • Percentiles changed from milk-fat dollars (MF$) to MFP$
  • Red-and-White breed data combined with Holstein data
  • Earlier history History of USDA evaluations