MONT
`
`US 20210368750A1
`
`IN
`
`( 19 ) United States
`( 12 ) Patent Application Publication ( 10 ) Pub . No .: US 2021/0368750 A1
`.
`( 43 ) Pub . Date :
`Dec. 2 , 2021
`Dattilo et al .
`
`( 54 ) BOS TAURUS CELL TYPE
`' HO840003210132823
`( 71 ) Applicant : ABS Global , Inc. , DeForest , WI ( US )
`( 72 ) Inventors : Katrina Dattilo , Waunakee , WI ( US ) ;
`Devan Funk , DeForest , WI ( US )
`( 73 ) Assignee : ABS Global , Inc. , DeForest , WI ( US )
`( 21 ) Appl . No .: 17 / 323,658
`May 18 , 2021
`( 22 ) Filed :
`Related U.S. Application Data
`( 60 ) Provisional application No. 63 / 031,761 , filed on May
`29 , 2020 .
`
`Publication Classification
`
`( 51 ) Int . Cl .
`A01K 67/027
`AOIN 1/02
`C12N 5/073
`
`( 2006.01 )
`( 2006.01 )
`( 2006.01 )
`
`( 2006.01 )
`C12N 5/075
`( 2006.01 )
`CI2N 5/0735
`( 52 ) U.S. CI .
`A01K 67/027 ( 2013.01 ) ; AOIN 1/0221
`CPC
`( 2013.01 ) ; AOIK 2227/101 ( 2013.01 ) ; C12N
`5/0609 ( 2013.01 ) ; C12N 5/0611 ( 2013.01 ) ;
`C12N 5/0604 ( 2013.01 )
`( 57 )
`ABSTRACT
`The disclosure relates to Bovine germplasm of Bos taurus
`HO840003210132823 . Included in the present disclosure
`cells
`comprising
`the genome of Bovine
`are
`HO840003210132823 characterized by the presence of
`homozygous loci and spermatozoa obtained from said cells .
`Also provided by the present disclosure are tissue cultures of
`cells , animals obtained from said cells , and parts thereof ,
`including F1 spermatozoa . The disclosure further provides
`for methods of breeding , selecting , and using the germplasm
`to improve existing commercial cattle herds generated from
`in vitro fertilization methods and progeny cattle obtained
`from in vitro fertilization and implantation and artificial
`insemination methods .
`Specification includes a Sequence Listing .
`
`Exhibit 1005
`Select Sires, et al. v. ABS Global
`
`

`

`US 2021/0368750 Al
`
`1
`
`Dec. 2 , 2021
`
`BOS TAURUS CELL TYPE
`' HO840003210132823 "
`
`CROSS REFERENCE TO RELATED
`APPLICATION
`This application claims the benefit of and priority
`[ 0001 ]
`to U.S. Provisional Application 63 / 031,761 , filed on May
`29 , 2020. 63 / 031,761 is hereby incorporated by reference in
`its entirety .
`INCORPORATION OF SEQUENCE LISTING
`[ 0002 ] The Sequence Listing , including the file named
`DG - 66-2020 - US1 - SEQLST.txt , which is 12,898,823 bytes
`in size , was created on May 18 , 2021 and is hereby incor
`porated by reference in its entirety .
`
`FIELD
`[ 0003 ] The present disclosure relates to the field of Bos
`taurus breeding . In particular , the present disclosure related
`to Bos taurus HO840003210132823 having high multi - trait
`selection indices and high trait transmissibility .
`
`BACKGROUND
`[ 0004 ] There are numerous steps in the development of
`any new , desirable Bos taurus germplasm . Bos taurus breed
`ing begins with the analysis and definition of problems and
`weaknesses of the current germplasm , the establishment of
`program goals , and the definition of specific breeding objec
`tives . The next step is selection of germplasm that possesses
`the traits to meet the program goals . A goal is to combine in
`a single animal an improved combination of desirable traits
`from the parental germplasm . See Schefers et al . , Animal
`Frontiers 2 ( 1 ) : 1-9 ( 2012 ) .
`[ 0005 ] During breeding , cattle breeders have a variety of
`sources when making breeding decisions . In addition to
`genomic data , a number of agencies and organizations
`collect and release analysis of population data and indexes .
`Every three months , the Animal Improvement Programs
`Laboratory ( AIPL ) of the United States Department of
`Agriculture releases the newest USDA - DHIA ( Dairy Herd
`Improvement Association ) genetic evaluations for dairy
`bulls and cows . The AIPL calculates genetic evaluations for
`type for various breeds , and many breed associations pro
`vide their own indexes or other strategies for evaluating
`certain breed - relevant traits . U.S. dairy genetic evaluations
`are computed every four months by the Council on Dairy
`Cattle Breeding ( CDCB ) and Holstein Association USA
`( HAU ) . Both CDCB and HAU traits provide the breeder
`with important comparative data to evaluate the complex
`genetic and phenotypic traits to develop improved and
`desirable Bos taurus germplasm . For Holstein and Jersey
`sires , for example , evaluations are genomically enhanced
`and represent a blending of genomic data , pedigree infor
`mation , and results from progeny . These genetic evaluations
`provide the breeder with important information for the
`selection of desirable germplasm and the development of
`new and valuable inseminates .
`[ 0006 ] There is a continuous need to develop improved
`Bos taurus germplasm for use in improving production
`herds as well as for the continued improvement of elite
`animals .
`
`a
`
`SUMMARY
`[ 0007 ] The present disclosure provides for and includes
`elite Bos taurus germplasm . In various embodiments , the
`present teachings can provide for a Bos taurus cell of type
`a
`Animal , a representative sample of cells of type Animal
`comprising the Deposit . In some configurations , the present
`teachings can include a frozen vial , a cell culture , a tissue ,
`a zygote , or an embryo comprising a plurality of the Bos
`taurus cell disclosed herein . In various configurations , the
`present teachings can include a bull comprising a plurality of
`the Bos taurus cell disclosed herein . In various configura
`tions , the cell can be a sperm cell . In some configurations ,
`semen can comprise a plurality of the sperm cell of the
`present teachings .
`[ 0008 ]
`In various configurations , the present teachings can
`include an embryo produced by contacting the cell with a
`Bos taurus ovum .
`[ 0009 ]
`In various configurations , the present teachings can
`include a composition of matter comprising the cell and a
`Bos taurus ovum .
`[ 0010 ]
`In various embodiments , the present teachings can
`provide for a Bos taurus cell produced by somatic cell
`nuclear transfer of a Bos taurus cell of type Animal , a
`representative sample of cells of type Animal comprising the
`Deposit . In some configurations , the present teachings can
`include a frozen vial , a cell culture , a tissue , a zygote , or an
`embryo comprising a plurality of the Bos taurus cell . In
`various configurations , the present teachings can include a
`bull comprising a plurality of the Bos taurus cell . In various
`configurations , the cell can be a sperm cell . In some con
`figurations , semen can comprise the sperm cell of the present
`teachings .
`[ 0011 ]
`In various embodiments , the present teachings can
`provide for a Bos taurus cell from an F1 offspring of an
`animal comprising a cell of type Animal , a representative
`sample of cells of type Animal comprising the Deposit . In
`some configurations , the present teachings can include a
`frozen vial , a cell culture , a tissue , a zygote , or an embryo
`comprising a plurality of the Bos taurus cell from an F1
`offspring . In various configurations an animal can comprise
`a plurality of the Bos taurus cell from the F1 offspring . In
`some configurations , the present teachings can include a
`container of semen produced by the animal wherein the
`animal is a bull . In some configurations , the animal can be
`a bull , a cow , or a heifer . In various configurations , the
`animal can be a bull . In various configurations , the animal
`can be a cow or heifer . In various configurations , the F1
`offspring can be a gene edited animal .
`[ 0012 ]
`In various configurations , the cell can be an ovum .
`[ 0013 ]
`In various configurations , the cell can be a sperm
`cell . In some configurations , the present teachings can
`include semen comprising a plurality of the Bos taurus
`sperm cell .
`[ 0014 ]
`In some various configurations , the present teach
`ings can include an embryo produced using a gamete of the
`F1 animal of the present teachings . In various configura
`tions , the present teachings can include an embryo produced
`by contacting the sperm cell of the F1 bull with a Bos taurus
`?
`ovum . In various configurations , the present teachings can
`include an embryo produced by contacting an ovum of the
`F1 cow or heifer of the present teachings with Bos taurus
`sperm cell .
`[ 0015 ]
`In various configurations , the present teachings can
`include a composition of matter comprising a gamete of the
`
`Exhibit 1005
`Select Sires, et al. v. ABS Global
`
`

`

`US 2021/0368750 A1
`
`2
`
`Dec. 2 , 2021
`
`F1 animal of the present teachings and a gamete cell from a
`second Bos taurus parent . In various configurations , the
`present teachings can include a composition of matter com
`prising the F1 sperm cell of the present teachings and a Bos
`taurus ovum . In various configurations , the present teach
`ings can include a composition of matter comprising the F1
`ovum of the present teachings and a Bos taurus sperm cell .
`The present disclosure provides for and includes elite Bos
`taurus germplasm . In various embodiments of the present
`teachings can provide for a Bos taurus cell having a genome
`a
`comprising at least 90 % of loci comprising a Homozygous
`Genotype of Animal , a representative sample of which
`comprises the Deposit . In some configurations , the genome
`comprises 95 % of loci comprising the genotype of Animal .
`[ 0016 ]
`In various configurations , the Bos taurus cell can
`further comprise a plurality of the cell comprising a frozen
`vial of the plurality of the cell , a cell culture , a tissue , a
`zygote , an embryo , a calf , or a mature adult . In various
`configurations , the Bos taurus cell further comprises a
`plurality of the cell comprising a bull .
`[ 0017 ]
`In various embodiments , the present disclosure
`provides for and includes a Bos taurus cell comprising a
`genome comprising at least 90 % of loci comprising a
`Haploid Genotype of Animal , a representative sample of
`which comprises the Deposit . In some configurations , the
`genome comprises at least 95 % of loci comprising a Haploid
`Genotype of Animal . In various configurations , the cell is a
`gamete . In various configurations , the cell is a sperm . In
`some configurations , the sperm further comprises a plurality
`of sperm comprising semen . In some configurations , the
`semen is contained in a straw . In some configurations , the
`straw of semen is cryopreserved .
`[ 0018 ]
`In various embodiments , the present disclosure
`provides for and includes a Bos taurus cell from an F1
`offspring of an animal having a genome comprising at least
`90 % of loci comprising the Homozygous Genotype of
`Animal , a representative sample of Animal comprises the
`Deposit . In some configurations , the F1 offspring cell com
`prises at least 70 % of loci that comprise a Homozygous
`Genotype of Animal . In various nfigurations , the at least
`70 % of loci that comprise a Homozygous Genotype of
`Animal is at least 80 % of loci that comprise a Homozygous
`Genotype of Animal . In various configurations , the at least
`70 % of loci that comprise a Homozygous Genotype of
`Animal is at least 90 % of loci that comprise a Homozygous
`Genotype of Animal . In various configurations , the at least
`70 % of loci that comprise a Homozygous Genotype of
`Animal is at least 95 % of loci that comprise a Homozygous
`Genotype of Animal . In various configurations , the at least
`70 % of loci that comprise a Homozygous Genotype of
`Animal is at least 98 % of loci that comprise a Homozygous
`Genotype of Animal . In various configurations , the F1
`offspring further comprises at least one gene edited
`sequence . In various configurations , the cell from an F1
`offspring further comprises a plurality of the cell comprising
`meat . In various configurations , the cell from an F1 offspring
`further comprises a plurality of the cell comprising a frozen
`vial of the plurality of the cell , a cell culture , a tissue , a
`zygote , an embryo , a calf , or a mature adult . In various
`configurations , the cell from an F1 offspring further com
`prises a plurality of the cell comprising a bull .
`[ 0019 ]
`In various embodiments , the present disclosure
`provides for and includes a Bos taurus haploid cell from an
`F1 offspring of an animal having a genome comprising at
`
`least 90 % of loci comprising the Homozygous Genotype of
`Animal , a representative sample of Animal comprising the
`Deposit . In various configurations , the haploid cell com
`prises at least 50 % of loci that comprise a Homozygous
`Genotype of Animal . In various configurations , the haploid
`cell comprises at least 66 % of loci that comprise a Homozy
`gous Genotype of Animal . In various configurations , the
`haploid cell comprises at least 75 % of loci that comprise a
`Homozygous Genotype of Animal . In various configura
`tions , the haploid cell comprises at least one gene edited
`sequence . In various configurations , the cell is a gamete . In
`various configurations , the cell is an ovum . In various
`configurations , the cell is a sperm . In some configurations ,
`the sperm further comprises a plurality of sperm comprising
`semen . In various configurations , the semen is contained in
`a straw . In various configurations , the straw of semen is
`cryopreserved .
`[ 0020 ]
`In various embodiments the present disclosure pro
`vides for and includes a method of producing an embryo
`comprising crossing Animal to a cow or heifer . In some
`configurations the embryo can be a cow embryo . In various
`configurations , the embryo can be a calf embryo . In various
`configurations , the present disclosure provides for and
`includes an F1 offspring or part thereof of Animal that
`matured from an embryo produced by the instant method . In
`various configurations , the part of the F1 offspring can be a
`gamete . In various configurations , the gamete can be a
`sperm .
`
`a
`
`DETAILED DESCRIPTION
`[ 0021 ] A goal of a Bos taurus breeding program is to
`combine in a single Bos taurus animal an improved com
`bination of desirable traits from the parental germplasm that
`provides for desirable progeny when used in artificial
`insemination programs , in vitro fertilization programs ,
`Embryo transfer programs , or a combination thereof .
`Improved Bos taurus inseminate varieties are useful for
`various artificial breeding techniques , including artificial
`insemination ( “ AI ” ) and embryo transfer ( “ ET " ) . Improved
`Bos taurus germplasm , varieties , oocytes , embryos , and
`inseminates prepared therefrom , are desirable .
`[ 0022 ] The present disclosure provides for , and includes ,
`an improved elite germplasm obtained from a multigenera
`tional breeding program . The germplasm is unique and
`readily distinguishable from germplasm present in non
`selected cattle . Indeed , in the absence of continued selection ,
`the germplasm reverts to heterogeneity and diversity . As
`provided herein , the germplasm of the present disclosure is
`identifiable using standard methods and the germplasm can
`be readily identified in progeny generations . Indeed , as few
`as 800 SNP markers are sufficient to identify parentage with
`greater than 99 % accuracy . See McClure et al . , Frontiers in
`Genetics 9 ( 84 ) : 1-14 ( 2018 ) . As provided here , the tens of
`thousands of sequences provide for tracking and selecting
`animals through multiple generations . Breeding with the
`germplasm provided herein , combined with the selection of
`suitable mates , will maintain the desirable germplasm in
`subsequent generations . Moreover , genetic testing allows for
`the removal of progeny having germplasm that lacks that set
`of desired loci for the improvement of cattle herds .
`[ 0023 ]
`It is to be understood that the disclosure is not
`necessarily limited in its application to the details set forth
`in the following description or exemplified by the Examples .
`
`Exhibit 1005
`Select Sires, et al. v. ABS Global
`
`

`

`US 2021/0368750 A1
`
`3
`
`Dec. 2 , 2021
`
`The disclosure is capable of other aspects or of being
`practiced or carried out in various ways .
`Definitions
`“ Animal ” as used herein , refers to cells , animals , or
`[ 0024 ]
`particularly gametes and embryos of Bos taurus
`HO840003210132823 .
`The terms
`“ Animal ”
`and
`“ HO840003210132823 ” are used interchangeably without
`any change in their meaning .
`[ 0025 ]
`“ Diploid Genotype ” as used herein refers to a
`genotype containing two copies of each chromosome . This
`genotype is generally present in somatic cells .
`[ 0026 ]
`“ Haploid Genotype ” as used herein , refers to a
`genotype containing one copy of each chromosome . There
`fore , relative to a diploid genotype for a given individual , it
`will contain half of the loci comprising a diploid chromo
`some . This term can refer to the genotype of a haploid cell ,
`or to one half of the genotype of a diploid cell . This genotype
`is generally present in gametes .
`[ 0027 ]
`“ Homozygous Genotype ” as used herein refers to
`the loci of a diploid genome wherein both chromosomes
`have the same allele at a given locus .
`[ 0028 ]
`“ Heterozygous Genotype ” as used herein , refers to
`the loci of a diploid genome wherein each chromosome has
`a different allele at a given locus .
`[ 0029 ]
`“ Animal Genotype ” as used herein , refers to the
`genotype of Animal and is characterized by the SNPs and
`flanking regions recited in SEQ ID NOs : 1 to 41546 .
`[ 0030 ]
`" Animal Homozygous Genotype " as used herein ,
`refers to the loci in Animal that are homozygous and is
`characterized by the SNPs and flanking regions recited in
`SEQ ID NOs : 1 to 28548 .
`[ 0031 ]
`" Animal Heterozygous Genotype " as used herein ,
`refers to the Heterozygous Genotype of Animal and is
`characterized by the SNPs and flanking regions recited in
`SEQ ID NOs : 28549 to 41546 .
`[ 0032 ]
`“ Animal Haploid Genotype ” , as used herein , refers
`to a Haploid Genotype derived from Animal and comprises
`at least one copy of the SNPs and flanking regions of the
`Animal Hor zygous enotype and , on average , at least one
`copy of 50 % of the SNPs and flanking regions of the Animal
`Heterozygous genotype . This can refer to the genotype of a
`haploid cell , or to one half of the genotype of a diploid cell .
`[ 0033 ]
`“ Animal F1 Genotype , ” as used herein , refers to
`the genome of an F1 offspring derived from Animal and a
`second parent . This offspring has a set of chromosomes
`comprising a pair of chromosomes for each chromosome
`( 1-29 and a sex chromosome ) : one member of the pair
`inherited from Animal , the other member of the pair inher
`ited from the second parent .
`[ 0034 ]
`“ Deposit ” as used herein , refers to a representative
`sample of cells of Animal deposited under ATCC Accession
`No. TBD on TBD . The Deposit contains cells obtained from
`Animal as described in Example 3. The Deposit was made
`under the Budapest Treaty with the American Type Culture
`Collection ( ATCC ) , 10801 University Boulevard , Manassas ,
`Va . 20110-2209 USA . Upon issuance , all restrictions on the
`availability to the public of the deposit will be irrevocably
`removed consistent with all of the requirements of the
`Budapest Treaty and 37 C.F.R. SS 1.801-1.809 . Applicant
`does not waive any infringement of rights granted under this
`patent .
`[ 0035 ] The term “ Cell of Type Animal ” means any type of
`cell having the same genotype across each of the nuclear
`
`>
`
`a
`
`chromosomes as the cell line comprising the Deposit . As
`used herein , two cells may have the same genotype even
`when read errors or mutations make the measured DNA
`sequences of the two cells not completely identical . While
`the cell line comprising the Deposit is a diploid line , a
`plurality of haploid Cells of Type Animal can be genotyped
`and can have the same genotype ( allowing for read errors or
`mutations ) as the cells comprising the Deposit . Multiple
`haploid Cells of Type Animal have the same average geno
`type as the cell line comprising the Deposit . For any given
`cell , meiotic recombination may result in chromosomes that
`have a different arrangement of alleles than the parent , but
`a plurality of haploid cells from an animal with an Animal
`cell type can be genotyped and will have the same genotype
`as the cells comprising the Deposit . The germplasm of
`Animal inherently comprises this genotype , and therefore
`can be defined by a cell of type Animal .
`[ 0036 ] The phrase " producing an embryo from an animal "
`as used herein refers to the process of fertilization . With
`regard to the bull , this refers to contact of the bull's sperm
`cells with a Bos taurus ovum resulting in fertilization of the
`ovum to produce an embryo . Regarding the cow or heifer ,
`this refers to contact of an ovum of the cow or heifer with
`Bos taurus sperm cells . Contacting a sperm and an ovum can
`comprise natural service , artificial insemination , in vitro
`fertilization or any other method wherein an ovum and
`sperm are brought into proximity such that they can join to
`form an embryo .
`[ 0037 ]
`“ Sire ” as used herein , refers to the sire of Animal ,
`Bos taurus HO840003141494670 .
`[ 0038 ]
`“ Dam ” as used herein , refers to the dam of Animal ,
`Bos taurus HO840003143328234 .
`[ 0039 ]
`“ Paternal Grand - Sire ” as used herein , refers to the
`paternal
`grand
`sire
`of Animal ,
`Bos taurus
`HO840003129038181 .
`[ 0040 ]
`“ Paternal Grand - Dam ” as used herein , refers to the
`paternal
`grand dam of Animal ,
`Bos taurus
`HO840000074258448 .
`[ 0041 ]
`“ Maternal Grand Sire ” as used herein , refers to the
`maternal
`grand
`sire
`of Animal ,
`Bos
`taurus
`HO840003128557482 .
`[ 0042 ]
`“ Maternal Grand Dam ” as used herein , refers to the
`paternal
`grand dam of Animal ,
`Bos taurus
`HO840003133318719 .
`[ 0043 ]
`Offspring , as used herein , refers to the progeny of
`an animal created through natural service , artificial insemi
`nation , somatic cell nuclear transfer , or in vitro fertilization
`( IVF ) .
`[ 0044 ] As used herein ,
`“ germplasm ” includes intact
`genomes comprising chromosomes present in cells or
`nuclei . The term " germplasm ” may include any gamete or
`germ cell , or any somatic cell from which an animal can be
`cloned .
`[ 0045 ] As used herein the term “ about ” refers to + 10 % .
`[ 0046 ] As used herein , the singular forms “ a , " " an , ” and
`“ the ” include plural references unless the context clearly
`dictates otherwise . For example , the term “ a compound ” or
`“ at least one compound ” may include a plurality of com
`pounds , including mixtures thereof .
`[ 0047 ] Throughout this application , various embodiments
`of this disclosure may be presented in a range format . It
`should be understood that the description in range format is
`merely for convenience and brevity and should not be
`construed as an inflexible limitation on the scope of the
`
`Exhibit 1005
`Select Sires, et al. v. ABS Global
`
`

`

`US 2021/0368750 A1
`
`4
`
`Dec. 2 , 2021
`
`9
`
`disclosure . Accordingly , the description of a range should be
`considered to have specifically disclosed all the possible
`subranges as well as individual numerical values within that
`range . For example , description of a range such as “ from 1
`to 6 " should be considered to have specifically disclosed
`subranges such as “ from 1 to 3 , ” “ from 1 to 4 , ” “ from 1 to
`5 , " " from 2 to 4 , ” “ from 2 to 6 , ” “ from 3 to 6 , " etc. , as well
`as individual numbers within that range , for example , 1 , 2 ,
`3 , 4 , 5 , and 6. This applies regardless of the breadth of the
`range .
`[ 0048 ] Whenever a numerical range is indicated herein , it
`is meant to include any cited numeral ( fractional or integral )
`within the indicated range . The phrases “ ranging / ranges
`between ” a first indicate number and a second indicate
`number and “ ranging / ranges from ” a first indicate number
`“ to ” a second indicate number are used herein interchange
`ably and are meant to include the first and second indicated
`numbers and all the fractional and integral numerals there
`between .
`[ 0049 ] For the purposes of this disclosure , the term
`“ semen ” means seminal fluid which may contain sperm
`( also referred to as “ spermatozoa ” ) secreted by the gonads of
`a male animal which can be collected from the male animal
`by any method known to those in the animal breeding arts .
`[ 0050 ] As used herein , “ locus ” , or plural “ loci ” , refers to
`a physical site or location of a specific gene or marker on a
`chromosome . Loci of the present disclosure include , and are
`identifiable by , a SEQ ID NO , each SEQ ID NO providing
`the identity of the polymorphism at a single nucleotide
`polymorphic ( SNP ) site and the adjacent 100 base pairs .
`[ 0051 ]
`Loci may also be characterized as either ‘ A ’ loci ,
`' B ' loci , or heterozygous ‘ A / B ' loci . The identification of
`loci as either ‘ A ’ or ‘ B ' loci is determined according to the
`top ( TOP ) and bottom ( BOT ) designations based on the
`polymorphism itself , or the contextual surrounding sequence
`as developed by ILLUMINA® , Inc. ( San Diego , Calif . ) .
`Methods for determining the designation of a polymorphic
`site as ‘ A ’ or ' B ' are known in the art , for example as
`provided by ILLUMINA®'s Technical Note entitled
`“ “ TOP / BOT ” Strand and ‘ A / B ’ Allele ” , available on the
`internet at www ( dot ) illumina ( dot ) com / documents / products /
`technotes / technote_topbot.pdf . The NCBI's dbSNP data
`base adopted the TOP / BOT nomenclature in 2005 and the
`designation is well known to those of skill in the art . As
`shown in the Examples , thorough sequence comparison
`extensive information about each locus is available to a
`person of ordinary skill in the art , including , but not limited
`to , dbSNP identifier , sources , chromosomal location , genes ,
`transcripts , linkage to genes or quantitative trait loci ( QTL ) ,
`and interactions .
`[ 0052 ]
`In diploid cells , the germplasm is characterized by
`the presence of sequences representing the sequences at
`polymorphic sites ( e.g. , SNPs ) that are homozygous or
`heterozygous . As used herein , the germplasm of the present
`disclosure is characterized by the homozygous loci . In
`haploid cells ( e.g. , ova or sperm ) , each of the sequences at
`each homozygous locus in the parent are present in each cell .
`In contrast , heterozygous loci are present in haploid germ
`plasm according to random assortment . Accordingly , the
`genotype at heterozygous loci in haploid cells varies from
`haploid cell to haploid cell , while the sequences of the
`homozygous loci from the parent are present in each haploid
`cell and are therefore faithfully transmitted to progeny .
`
`[ 0053 ] During breeding , to maintain and improve the
`germplasm , selections of a second parent may be an elite
`second parent having superior traits . As demonstrated in the
`examples , such select crosses result in progeny that retain
`significant numbers of homozygous loci present in each elite
`parent and further result in additional loci becoming
`homozygous . Thus , select crosses result in some or all of the
`homozygous loci of the Bos taurus cells of the present
`disclosure being retained in progeny generations . Generally ,
`locus homozygosity is maintained when the second parent is
`an elite parent with high trait values as described below .
`Similarly , the improved germplasm of the present disclosure
`can be maintained by selecting superior breeding partners in
`the F1 and later progeny generations . By suitable selection
`of the second parent , the germplasm can be maintained at the
`homozygous loci . Even further , careful selection of elite
`breeding partners results in increased numbers of homozy
`gous loci as the preferred allele at the heterozygous loci of
`the parent become homozygous in elite progeny .
`[ 0054 ] As used herein , “ gamete ” refers to a haploid germ
`cell and includes either a sperm or an ovum and may be used
`interchangeably . Generally , the identity as a sperm or an
`ovum can be determined by the context as bulls produce
`sperm and cows produce ova . For the purposes of this
`disclosure the term “ sperm ” means the haploid cell that is
`the gamete of a male animal which may join an egg ( also
`referred to as “ ovum ” ) to produce a zygote and broadly
`encompasses infertile sperm , sperm having a comparably
`lesser or a comparably greater fertility between a first
`amount of sperm obtained from a first animal and a second
`amount of sperm obtained from a second animal and which
`may be obtained in the form of a raw ejaculated semen ,
`frozen semen , as sperm separated from the semen and
`contained in an extender or diluent , or as sex - selected sperm .
`[ 0055 ] As used herein , the term “ inseminate ” is intended
`to broadly encompass an amount of sperm whether con
`tained in semen alone or together with a cryoprotectant ,
`extender , or other diluent . Inseminates may optionally
`include one or more " extenders ” and diluents which can be
`utilized to fertilize the eggs of a female animal whether in
`a
`vitro or in vivo . As used herein , inseminates can further
`include sex - selected sperm compositions .
`[ 0056 ] As used herein , the term “ sex - selected sperm ”
`means sperm which have been separated , regardless as to the
`method of separation , into subpopulations containing
`X - chromosome bearing sperm and Y - chromosome bearing
`sperm having a purity in the range of about 70 percent
`( " % " ) , 80 % , 90 % , and about 100 % .
`[ 0057 ] As used herein , the term F1 refers to the first filial
`generation progeny born from the gametes of a particular
`parent . Therefore , as used herein , an F1 Animal is a direct
`genetic reproduction descendent of Animal . Because cattle
`reproduce by meiosis , this term refers to an animal arising
`from a gamete of the parent in this case , from a gamete
`from Animal . Therefore , for each of Animal's chromosome
`pairs , their offspring , an F1 Animal , will receive one copy of
`the chromosome carrying one of Animal’s alleles for each
`locus . In general , this means that for each locus , an F1
`Animal will receive one allele from Animal and one from
`their other parent . An F1 Animal , therefore , will receive one
`copy of each of Animal's homozygous alleles , and , for each
`locus , one copy of one of Animal's heterozygous alleles .
`This means that two progeny of Animal with the same
`second parent will not necessarily inherit the same heterozy
`
`Exhibit 1005
`Select Sires, et al. v. ABS Global
`
`

`

`US 2021/0368750 A1
`
`5
`
`Dec. 2 , 2021
`
`gous alleles from Animal and may have varying genotypes
`for Animal's heterozygous loci .
`Animal Genotype Characterizations
`[ 0058 ] The present disclosure provides for , and includes ,
`cells , animals , and progeny of Bos taurus Animal compris
`ing an improved germplasm characterized by the Animal
`Genotype and homozygous loci comprising the nucleic acid
`sequences of Animal Homozygous Genotype . Animal differs
`from the reference genome at 11645 homozygous loci , or
`about 28 % of the total loci . All chromosome positions are
`determined using the ARS - UCD1.2 October , 2019 bovine
`genome build .
`
`TABLE 1 - continued
`Genotype of Bos taurus Animal
`37795-38218
`38219-38522
`38523-38891
`38892-39178
`39179-39497
`39498-39740
`39741-40051
`40052-40299
`40300-40592
`40593-40853
`40854-41023
`41024-41255
`41256-41546
`
`Chr . 17
`Chr . 18
`Chr . 19
`Chr . 20
`Chr . 21
`Chr . 22
`Chr . 23
`Chr . 24
`Chr . 25
`Chr . 26
`Chr . 27
`Chr . 28
`Chr . 29
`
`No. of
`
`Alternate
`Alleles
`
`681
`628
`504
`546
`443
`636
`565
`547
`476
`542
`528
`371
`358
`416
`369
`385
`384
`281
`319
`415
`301
`313
`229
`324
`172
`221
`278
`221
`192
`11645
`
`TABLE 1
`
`Genotype of Bos taurus Animal
`SEQ ID Range
`SEQ ID NOs : 1 to 28548
`
`Reference
`Allele
`
`1-1015
`1016-1888
`1889-2772
`2773-3563
`3564-4256
`4257-4995
`4996-5785
`5786-6581
`6582-7201
`7202-7906
`7907-8579
`8580-9102
`9103-9702
`9703-10234
`10235-10807
`10808-11353
`11354-11847
`11848-12351
`12352-12774
`12775-13336
`13337-13808
`13809-14285
`14286-14627
`14628-15078
`15079-15423
`15424-15826
`15827-16183
`16184-16499
`16500-16874
`
`Alternate Allele
`
`16875-17556
`17557-18185
`18186-18690
`18691-19237
`19238-19681
`19682-20318
`20319-20884
`20885-21432
`21433-21909
`21910-22452
`22453-22981
`22982-23353
`23354-23712
`23713-24129
`24130-24499
`24500-24885
`24886-25270
`25271-25552
`25553-25872
`25873-26288
`26289-26590
`26591-26904
`26905-27134
`27135-27459
`27460-27632
`27633-27854
`27855-28133
`28134-28355
`28356-28548
`No. Alternate
`alleles
`
`SEQ ID
`Range
`
`28549-29513
`29514-30221
`30222-30874
`30875-31534
`31535-32165
`32166-32832
`32833-33299
`33300-33865
`33866-34