(19) United States
`(12) Patent Application Publication (10) Pub. No.: US 2015/0038331 A1
`Hinga et al.
`(43) Pub. Date:
`Feb. 5, 2015
`
`US 20150.038331A1
`
`(54)
`
`RCE RESISTANT TO HPPD AND ACCASE
`INHIBITING HERBCDES
`
`(71)
`
`Applicant:
`
`(72)
`
`Inventors:
`
`RCETEC
`AKTIENGESELLSCHAFT, Vaduz
`(LI)
`Melissa Hinga, League City, TX (US);
`Melissa Shannon Moon, Pearland, TX
`(US); Venu Reddy vari
`CHANNARAYAPPA, Friendswood, TX
`(US); Russell D. RASMUSSEN, League
`City, TX (US); Federico CUEVAS,
`League City, TX (US)
`
`(21)
`
`Appl. No.:
`
`14/465,242
`
`(22)
`
`Filed:
`
`Aug. 21, 2014
`
`(63)
`
`(60)
`
`Related U.S. Application Data
`Continuation-in-part of application No. 13/975,034,
`filed on Aug. 23, 2013, Continuation-in-part of appli
`cation No. 13/554,675, filed on Jul. 20, 2012.
`Provisional application No. 61/869,608, filed on Aug.
`23, 2013, provisional application No. 61/692,861,
`filed on Aug. 24, 2012, provisional application No.
`
`61/510,585, filed on Jul. 22, 2011, provisional appli
`cation No. 61/541,832, filed on Sep. 30, 2011.
`Publication Classification
`
`(2006.01)
`(2006.01)
`(2006.01)
`(2006.01)
`(2006.01)
`(2006.01)
`
`(51) Int. Cl.
`CI2N 5/82
`CI2N 9/00
`AOIH I/02
`AOIN 43/60
`AOIN4I/O
`CI2O I/68
`(52) U.S. Cl.
`CPC ............ CI2N 15/8274 (2013.01); A0IN 41/10
`(2013.01); C12O 1/6895 (2013.01); A0IH I/02
`(2013.01); A0IN 43/60 (2013.01); C12N 9/93
`(2013.01); C12N 15/8209 (2013.01); C12O
`2600/13 (2013.01); C12O 2600/156 (2013.01);
`CI2Y 604/01002 (2013.01)
`USPC ........... 504/136: 800/300; 435/418; 504/348;
`435/6.11: 800/260,536/23.2
`ABSTRACT
`(57)
`Rice is described that is tolerant/resistant to a plurality of
`herbicides, for example, ACCase and HPPD inhibitors. Use
`of the rice for weed control and methods of producing toler
`ant/resistant rice are also described.
`
`Ex. 1003
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`Feb. 5, 2015 Sheet 1 of 27
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`Patent Application Publication
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`Patent Application Publication
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`Patent Application Publication
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`Patent Application Publication
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`Feb. 5, 2015 Sheet 4 of 27
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`US 2015/0038331 A1
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`RiceTec, Inc.
`Page 005
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`Patent Application Publication
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`Feb. 5, 2015 Sheet 5 of 27
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`Patent Application Publication
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`Feb. 5, 2015 Sheet 6 of 27
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`US 2015/0038331 A1
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`Ex. 1003
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`Patent Application Publication
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`Feb. 5, 2015 Sheet 7 of 27
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`US 2015/0038331 A1
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`Ex. 1003
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`Patent Application Publication
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`Patent Application Publication
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`Feb. 5, 2015 Sheet 9 of 27
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`US 2015/0038331 A1
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`
`Ex. 1003
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`Patent Application Publication
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`Feb. 5, 2015 Sheet 10 of 27
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`US 2015/0038331 A1
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`Page 011
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`Feb. 5, 2015 Sheet 11 of 27
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`US 2015/0038331 A1
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`Page 012
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`Patent Application Publication
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`Feb. 5, 2015 Sheet 12 of 27
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`Ex. 1003
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`Page 013
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`Patent Application Publication
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`Patent Application Publication
`
`Feb. 5, 2015 Sheet 15 of 27
`
`US 2015/0038331 A1
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`RiceTec, Inc.
`Page 016
`
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`

`Patent Application Publication
`
`Feb. 5, 2015 Sheet 16 of 27
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`US 2015/0038331 A1
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`RiceTec, Inc.
`Page 017
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`Patent Application Publication
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`Feb. 5, 2015 Sheet 17 of 27
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`Ex. 1003
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`Page 018
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`Patent Application Publication
`
`Feb. 5, 2015 Sheet 18 of 27
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`US 2015/0038331 A1
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`RiceTec, Inc.
`Page 019
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`

`

`Patent Application Publication
`
`Feb. 5, 2015 Sheet 19 of 27
`
`US 2015/0038331 A1
`
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`Ex. 1003
`RiceTec, Inc.
`Page 020
`
`PGR2021-00113
`
`

`

`Patent Application Publication
`
`Feb. 5,2015 Sheet 20 of 27
`
`US 2015/0038331 A1
`
`CCTGTTCTGCTAGGAATAATAGAACTACATACTGCTATGATTTTCCACTGGTGAGTTGAC
`CCTGTTCTGCTAGGAATAATAGAACTACATACTGCTATGATTTTCCACTGGTGAGTTGAC
`CCTGTTCTGCTAGGAATAATAGAACTACATACTGCTATGATTTTCCACTGGTGAGTTGAC
`
`
`
`
`
`
`
`
`
`
`
`
`
`CAATGCATTACCATAGCAAATTCATATTCGTTCATGTTGTCAAAA
`PPONBARE . TXT
`GCTCCCTTATATT
`146.TXT
`GCTCCCTTATATTCAATGCATTACCATAGCAAATTCATATTCGTTCATGTTGTCAAAA
`PM72399.TXT
`TGCTCCCTTATATT CAATGCATTACCATAGCAAATTCATATTCGTTCATGTTGTCAAAAT
`
`
`
`
`
`
`
`NI
`RO
`OSs
`
`PPONBARE.TXT
`146.TXT
`PM72399,TXT
`
`
`
`
`
`
`
`
`
`
`
`NI
`RO
`Os
`
`NI
`RO
`og
`
`NI
`RO
`og
`
`NI
`RO
`og
`
`
`
`
`
`
`
`
`
`
`
`
`PPONBARE.TXT AAGCCGATGAAAATTCAAAACTGTAGGCATTTGAAACTGCAGTGAGGAAGTCATGGTCC
`TCAAAACTGTAGGCATTTGAAACTGCAGTGAGGAAGTCATGGTCC
`146.TXT
`AAGCCGATGAAAAT
`
`TCAAAACTGTAGGCATTTGAAACTGCAGTGAGGAAGTCATGGTCC
`PM72399,TXT
`AAGCCGATGAAAAT
`
`
`
`
`
`
`
`
`
`PPONBARE.TXT
`CTAGTACCTCTGGTGCTTCTAAAGGTGTTGAAAATGCCCAATGTTATGTTAAAGCTACAG
`
`
`CTAGTACCTCTGGTGCTTCTAAAGGTGTTGAAAATGCCCAATGTTATGTTAAAGCTACAG
`146.TXT
`PM72399,TXT
`CTAGTACCTCTGGTGCTTCTAAAGGTGTTGAAAATGCCCAATGTTATGTTAAAGCTACAG
`
`
`
`
`
`
`
`
`
`
`
`
`
`
`
`
`
`
`PPONBARE.TXT AGTTGGTATTTGCGGACAAACATGGGT CATGGGGCACTCCTTTAGTTCAAATGGACCGGC
`146.TXT
`AGTTGGTATT TGCGGACAAACATGGGT CATGGGGCACTCCTTTAGTT CAAATGGACCGGC
`PM72399,TXT
`AGTTGGTATTTGCGGACAAACATGGGT CATGGGGCACTCCTTTAGTTCAAATGGACCGGC
`
`
`
`
`
`
`
`
`
`
`
`NI
`RO
`as
`
`PPONBARE.TXT
`146.TXT
`PM72399.TXT
`
`
`
`CTGCTGGGCTCAATGACATTGGTATGGTAGCTTGGACCTTGAAGATGTCCACTCCTGAA
`CTGCTGGGCT CAATGACATTGGTATGGTAGCT TGGACCTTGAAGATGTCCACTCCTGAAT
`
`CTGCTGGGCT CAATGACATTGGTATGGTAGCT TGGACCTTGAAGATGT CCACTCCTGAA
`
`
`
`
`
`
`
`PPONBARE . TXT
`TCCTAGTGGTAGGGAGATTATTGTTGTTGCAAATGATATTACGTTCAGAGCTGGATCA
`TTICCTAGTGGTAGGGAGATTATTGTTGTTGCAAATGATATTACGTTCAGAGCTGGATCAT
`146.TXT
`
`TCCTAGTGGTAGGGAGATTATTGTTGTTGCAAATGATATTACGTTCAGAGCTGGATCA
`PM72399.TXT
`
`
`
`
`
`PPONBARE.TXT
`146.TXT
`PM72399.TXT
`
`TTGGCCCAAGGGAAGATGCA
`TTGGCCCAAGGGAAGATGCA
`TTGGCCCAAGGGAAGATGCA
`
`
`
`
`
`
`
`
`
`
`TTTGAAGCTGTTACCAACCTAGCCTGTGAGAAGAAAC
`
`TT TGAAGCTGTTACCAACCTAGCCTGTGAGAAGAAAC
`TTTGAAGCTGTTACCAACCTAGCCTGTGAGAAGAAAC
`
`
`
`
`
`
`
`
`
`
`
`
`
`PPONBARE . TXT
`TCCTCTTATTTA
`146. TXT
`TCCTCTTATTTA
`PM72399.TXT
`TCCTCTTATTTA
`
`
`
`
`
`
`
`
`GGCAGCAAATTCTGGTGCT CGAATTGGCATAGCAGATGAAGTGA
`GGCAGCAAATT CTGGTGCTCGAATTGGCATAGCAGATGAAGTGA
`GGCAGCAAATTCTGGTGCTCGAATTGGCATAGCAGATGAAGTGA
`
`
`
`
`
`
`
`
`
`
`
`
`
`
`
`
`
`
`
`
`
`
`
`
`
`
`
`
`
`
`
`
`
`
`
`
`
`
`PPONBARE.TXT AATCTTGCTTCCGTGTTGGGTGGTCTGATGATGGCAGCCCTGAACGTGGGTTTCAGTACA
`
`
`AATCTTGCTTCCGTGTTGGGTGGTCTGATGATGGCAGCCCTGAACGTGGG
`146.TXT
`CAGTACA
`PM72399.TXT
`AATCTTGCTTCCGTGTTGGGTGGTCTGATGATGGCAGCCCTGAACGTGGG
`CAGTACA
`
`
`
`
`
`
`
`
`
`
`
`PPONBARE.TXT
`146.TXT
`PM72399.TXT
`
`
`
`
`
`TTTATCTAAGCGAAGAAGACTATGCTCGTATTGGCACTTCTGTCATAGCACATAAGATGC
`TTATCTAAGCGAAGAAGACTATGCTCGTATTGGCACTTCTGTCATAGCACATAAGATGC
`TTATCTAAGCGAAGAAGACTATGCTCGTATTGGCACTTCTGTCATAGCACATAAGATGC
`
`
`
`
`
`
`
`
`
`PPONBARE.TXT AGCTAGACAGTGGTGAAATTAGGTGGGTTATTGATTCTGTTGTGGGCAAGGAAGATGGAC
`
`AGCTAGACAGTGGTGAAAT TAGGTGGGTTATTGATTCTGT TGTGGGCAAGGAAGATGGAC
`146.TXT
`PM72399.TXT
`AGCTAGACAGTGGTGAAAT TAGGTGGGTTATTGATTCTGTTGTGGGCAAGGAAGATGGAC
`
`
`
`
`
`
`
`
`
`
`
`FIG. 20
`
`PGR2021-00113 Ex. 1003
`RiceTec,Inc.
`Page 021
`
`NI
`RO
`as
`
`NI
`RO
`as
`
`NI
`RO
`as
`
`NI
`RO
`as
`
`NI
`RO
`os
`
`NI
`RO
`os
`
`Ex. 1003
`RiceTec, Inc.
`Page 021
`
`PGR2021-00113
`
`

`

`Patent Application Publication
`
`Feb. 5, 2015 Sheet 21 of 27
`
`US 2015/0038331 A1
`
`
`PPONBARE. TXT
`GGTG
`
`146. TXT
`‘GGTG
`
`PM72399.TXT
`‘GGTG
`
`
`
`
`
`
`
`
`GGAGAATATACATGGAAGTGCTGC
`
`GGAGAATATACATGGAAGTGCTGC
`
`GGAGAATATACATGGAAGTGCTGC
`
` PPPp
`
`
`
`
`
`NI
`RO
`09
`
`
`GCCAGTGCTTATTCTAGGGCATA'
`
`GCCAGTGCTTATTCTAGGGCATA
`GCCAGTGCTTATTCTAGGGCATA
`
`
`
` PPP
`
`NI
`RO
`O9
`
`PPONBARE . TXT
`146.TXT
`PM72399.TXT
`
`
`
`
`
`
`
`
`
`
`
`ACACTTACATTTGTGACTGGAAGAACTGT TGGAATAGGAGCTTATCTTG
`AGGAGACA
`
`ACACTTACATTTGTGACTGGAAGAACTGTTGGAATAGGAGCTTATCTTG
`AGGAGACA
`AGGAGACATTTACACTTACATTTGTGACTGGAAGAACTGTTGGAATAGGAGCTTATCTTG
`
`
`
`
`
`
`
`
`
`
`
`
`
`GGCATCCGGTGCATACAGCGTC
`PPONBARE . TXT
`CTCGAC
`
`
`146. TXT
`CTCGAC GGCATCCGGTGCATACAGCGTC
`
`PM72399.TXT
`CTCGAC
`GGCATCCGGTGCATACAGCGTC
`
`
`
`
`
` CTGCAC
`
`
`PPONBARE. TXT
`CTGCAC
`
`146. TXT
`CTGCAC
`
`PM72399.TXT
`
`GAACAAGCTT CT TGGGCGGGAAG
`GAACAAGCTTCTTGGGCGGGAAG
`GAACAAGCTT CT TGGGCGGGAAG
`
`
`
`
`QQ@@
`
`
`GACCAGCCTATTATTCTTACAGGCTA'
`
`GACCAGCCTATTATTCTTACAGGCTA'
`GACCAGCCTATTATTCTTACAGGCTA'
`
`
`
`
`
`
`ACAGCTCCCACATGCAGTTGGGTGGTC
`
`ACAGCTCCCACATGCAGTTGGGTGGTC
`ACAGCTCCCACATGCAGTTGGGTGGTC
`
`
`
`NI
`RO
`O9
`
`PPONBARE . TXT
`146.TXT
`PM72399.TXT
`
`CCAAAA
`CCAAAA
`CCAAAAT
`
`
`
`CATGGCAACTAATGGTGTTGTCCATCTTACTGTTT CAGATGACCTTGAAGGCG
`
`CATGGCAACTAATGGTGTTGTCCATCTTACTGTTT CAGATGACCTTGAAGGCG
`[CATGGCAACTAATGGTGTTGTCCATCTTACTGTTT CAGATGACCTTGAAGGCG
`
`
`
`
`
`
`
`NI
`RO
`09
`
`NI
`RO
`09
`
`NI
`RO
`ag
`
`PPONBARE . TXT
`146. TXT
`PM72399.TXT
`
`
`
`
`
`
`
`
`
`TITCTAATATATTGAGGTGGCTCAGTTATGTTCCTGCCTACATTGGTGGACCACTTCCAG
`TITCTAATATATTGAGGTGGCTCAGTTATGTTCCTGCCTACATTGGTGGACCACTTCCAG
`
`CCAG
`
`
`
`
`
`
`
`
`
` CTAATATATTGAGGTGGCTCAGTTATGTTCCTGCCTACATTGGTGGACCAC
`
`
`
`
`
`
`
`
`
`
`
`QQQ
`
`
`
`TAACAACACCGTTGGACCCACCGGACAGACC
`TAACAACACCGTTGGACCCACCGGACAGACC
`TAACAACACCGTTGGACCCACCGGACAGACC
`
`NI
`RO
`09
`
`PPONBARE . TXT
`146. TXT
`PM72399.TXT
`
`
`GCATACATTCCTGAGAACTCG
`
`GCATACATTCCTGAGAACTCG
`GCATACATTCCTGAGAACTCGTG
`
`
`
`
`
` Q@ QQQ
`
`
`
`
`
`
`
`
`
`NI PPONBARE.TXT ATCC CGAGCGGCTATCCGTGGTGTTGAT[[TGACAGC CAAGGGAAATGGTTAGGTGGTATG
`
`RO
`146.TXT
`ATCC
`CGAGCGGCTATCCGTGGTGTTGAT
`[['GACAGCCAAGGGAAATGGTTAGGTGGTATG
`O9
`PM72399.TXT
`ATCCTCGAGCGGCTATCCGTGGTGTTGAT
`['GACAGCCAAGGGAAATGGTTAGGTGGTATGT
`
`
`
`
`
`
`
`
`PPONBARE . TXT
`GATAAAGACAGCTTTGTGGAAACA
`
`146. TXT
`GATAAAGACAGCTTTGTGGAAACA
`
`PM72399 .TXT
`GATAAAGACAGCTTTGTGGAAACA
`
`
`
`
`
`
`
`GGGCTAAGACAGTGGTTACTGGCA
`GGGCTAAGACAGTGGTTACTGGCA
`GGGCTAAGACAGTGGTTACTGGCA
`
`
`GAAGG'
`
`GAAGG'
`GAAGG'
`
`
`
`
`
`
`
`
`
`PPONBARE . TXT
`146.TXT
`PM72399.TXT
`
`GAGCAAAGC
`GAGCAAAGC
`GAGCAAAGC
`
`
`
`GGTGGAATTCCAGTGGGTGTGATAGCTGTGGAGACTCAGACCATGATGC
`
`
`GGTGGAATTCCAGTGGGTGTGATAGCTGTGGAGACTCAGACCATGATGC
`GGT GGAATT CCAGTGGGTGTGATAGCTGTGGAGACTCAGACCATGATGC
`
`
`
`
`
`
`
`
`
`AAAC PPPp
`
`
`
`
`
`
`PPONBARE. TXT
`AAAC
`CCCTGCTGACCCTGGTCAGCTTGA'
`CCCGTGAGCAATCTGTTCCTCGTGC
`
`146.TXT
`CCCGTGAGCAATCTGTTCCTCGTGC
`
`
`PM72399 .TXT
`CCCTGCTGACCCTGGTCAGCTTGA
`CCCGTGAGCAATCTGTTCCTCGTGC
`
`
`
`NI
`RO
`a9
`
`NI
`RO
`09
`
`NI
`RO
`O9
`
`NI
`RO
`a9
`
`CCCTGCTGACCCTGGTCAGCTTGA
`
`
`
`
`
`AAAC
`
`
`
`
`
`
`
`
`
`
`
` QQ
`
`
`
`
`
`
`
`
`CAACC
`CAACC
`cAACcC
`
`PPONBARE . TXT
`146. TXT
`PM72399.TXT
`
`
`GACAAG GTGGTTT CCAGATTCTGCAACCAAGACTGCGCAGGCATTGCTGGAC
`
`GACAAG GTGGTTT CCAGATTCTGCAACCAAGACTGCGCAGGCATTGCTGGAC
`GACAAG
`GTGGTTT CCAGATTCTGCAACCAAGACTGCGCAGGCATTGCTGGAC
`
`
`
`
`
`FIG. 20 (cont.)
`
`PGR2021-00113 Ex. 1003
`RiceTec,Inc.
`Page 022
`
`Ex. 1003
`RiceTec, Inc.
`Page 022
`
`PGR2021-00113
`
`

`

`Patent Application Publication
`
`Feb. 5, 2015 Sheet 22 of 27
`
`US 2015/0038331 Al
`
`
`
`
`
`
`
`
`
`
`
`
`
`
`
`
`
`
`
`
`NIPPONBARE.TXT GTGAAGGATTACCTCTGTTCATCCTCGCTAACTGGAGAGGCTTCTCTGGTGGACAAAGAG
`RO146.TXT
`GTGAAGGATTACCTCTGTTCATCCTCGCTAACTGGAGAGGCTTCTCTGGTGGACAAAGAG
`09PM72399.TXT
`GTGAAGGATTACCTCTGTTCATCCT CGCTAACTGGAGAGGCTT
`CT CTGGTGGACAAAGAG
`
`
`
`
`
`
`
`
` NIPPONBARE.TXT ATC GAAGGAATTCTTCAGGCTGGCTCGACTATTGTTGAGAACCTTAGGACATACA
`
`
`
`ATC
`GAAGGAATTCTTCAGGCTGGCTCGACTATTGTTGAGAACCTTAGGACATACA
`RO146. TXT
`
`09PM72399.TXT
`ATC
`GAAGGAATTCTTCAGGCTGGCTCGACTATTGTTGAGAACCTTAGGACATACA
`
`
`
`
`
`
`
`
`
`
`
`
`
`
`
`
`
`
`
`
`
`
`
`
`
`
`
`
`
`
`ATCAGCCTGCCTTTGTCTACATTCCCATGGCTGCAGAGCTACGAGGAGGGGCTTGGGTTGNIPPONBARE.TXT
`RO146.TXT
`ATCAGCCTGCCTTTIGTCTACATT CCCATGGCTGCAGAGCTACGAGGAGGGGCTTGGGTTG
`09PM72399.TXT
`ATCAGCCTGCCTTTIGTCTACATTCCCATGGCTGCAGAGCTACGAGGAGGGGCTTGGGTTG
`
`
`
`
`
`
`
`
`
`
`
`
`
`
`
`NIPPONBARE . TXT
`GGT
`TGATAGCAAGATAAACCCAGACCGCATTGAGTGCTATGCTGAGAGGACTGCAAAA
`RO146.TXT
`TGGTTGATAGCAAGATAAACCCAGACCGCATTGAGTGCTATGCTGAGAGGACTGCAAAA
`
`09PM72399.TXT
`GGT
`TGATAGCAAGATAAACCCAGACCGCATTGAGTGCTATGCTGAGAGGACTGC.
`
`
`
`
`
`
`
`
`
`
`
`
`GCAATGTTCTGGAACCGCAAGGGTTAATTGAGAT CAAGTTCAGGTCAGAGGAACTCCAGGNIPPONBARE.TXT
`GCAATGTTCTGGAACCGCAAGGGTTAATTGAGATCAAGTTCAGGT CAGAGGAACTCCAGG
`GCAATGTTCTGGAACCGCAAGGGT TAATTGAGAT CAAGT TCAGGT CAGAGGAACTCCAGG
`
`
`RO146.TXT
`09PM72399.TXT
`
`
`
`
`
`
`
`
`
`
`
`
`
`NIPPONBARE.TXT GCATGAGTCGGCTTGACCCAACATTAATTGAT CTGAAAGCAAAACTCGAAGTAGCAA
`
`
`RO146.TXT
`GCATGAGTCGGCTTGACCCAACATTAATTGAT CTGAAAGCAAAACT CGAAGTAGCAA
`
`09PM72399.TXT
`GCATGAGTCGGCTTGACCCAACATTAATTGAT CTGAAAGCAAAACTCGAAGTAGCAA
`
`
`
`
`
`
`
`DDp
`
`
`
`
`
`
`
`
`
`
`ATAAAAATGGAAGTGCTGACACAAAAT CGCTTCAAGAAAATATAGAAGCTCGAACAAAACNIPPONBARE.TXT
`RO146.TXT
`ATAAAAATGGAAGTGCTGACACAAAAT CGCTT
`CAAGAAAATATAGAAGCT CGAACAAAAC
`09PM72399.TXT
`ATAAAAATGGAAGTGCTGACACAAAAT CGCTT CAAGAAAATATAGAAGCT CGAACAAAAC
`
`
`
`
`
`
`
`
`
`NIPPONBARE.TXT
`AGTTGATGCCTCTATATACTCAGATTGCGATACGG
`GCTGAATTGCATGATACATCCC
`RO146.TXT
`AGTTGATGCCTCTATATACTCAGATTGCGATACGGTTTGCTGAATTGCATGATACATCCC
`09PM72399.TXT
`AGTTGATGCCTCTATATACTCAGATTGCGATACGG'
`GCTGAATTGCATGATACATCCC
`
`
`
`
`
`
`
`
`
`
`
`
`
`
`
`TCAGAATGGCTGCGAAAGGTGTGATTAAGAAAGTTGTGGACTGGGAAGAATCACGATCTTNIPPONBARE.TXT
`CAGAATGGCTGCGAAAGGTGTGAT TAAGAAAGTTGTGGACTGGGAAGAATCACGATC
`RO146.TXT
`
`09PM72399.TXT
`CAGAATGGCTGCGAAAGGTGTGAT TAAGAAAGTTGTGGACTGGGAAGAATCACGATC
`
`
`
`
`
`
`
`
`
`
`
`
`
`
`
`
`
`
` NIPPONBARE. TXT CTTCTATAAGAGATTACGGAGGAGGATCTCTGAGGATGTTCTTGCAAAAGAAATTAGAG
`
`
`CTTCTATAAGAGATTACGGAGGAGGATCTCTGAGGATGTTCTTGCAAAAGAAATTAGAG
`RO146.TXT
`09PM72399.TXT
`CTTCTATAAGAGATTACGGAGGAGGATCTCTGAGGATGTTCTTGCAAAAGAAATTAGAG
`
`
`
`
`
`
`
`
`
`
`
`
`
`
`
`
`
`
`
`
`
`
`
`
`
`
`
`
`
`
`
`
`
`
`
`
`
`
`
`
`
`
`
`
`
`
`
`
`
`
`CTGTAGCAGGTGAGCAGTTTTCCCACCAACCAGCAATCGAGCTGATCAAGAAATGGTA!NIPPONBARE.TXT
`RO146.TXT
`CTGTAGCAGGTGAGCAGT TTT CCCACCAACCAGCAAT CGAGCTGATCAAGAAATGGTA
`09PM72399.TXT
`CTGTAGCAGGTGAGCAGTTTTCCCACCAACCAGCAAT CGAGCTGATCAAGAAATGGTATT
`
`
`
`NIPPONBARE.TXT
`CAGCTTCACATGCAGCTGAATGGGATGATGACGATGCTTTTGTIGCTTGGATGGATAACC
`RO146.TXT
`CAGCTTCACATGCAGCTGAATGGGATGATGACGATGCTTTTGTTGCTTGGATGGATAACC
`09PM72399.TXT
`CAGCTTCACATGCAGCTGAATGGGATGATGACGATGCTTTTGTTGCTTGGATGGATAACC
`
`
`
`
`
`
`
`
`
`
`
`
`
`
`
`
`
`
`
`
`
`
`
`
`
`
`
`
`
`
`
`
`
`
`
`
`
`FIG.20 (cont.)
`
`PGR2021-00113 Ex. 1003
`RiceTec,Inc.
`Page 023
`
`Ex. 1003
`RiceTec, Inc.
`Page 023
`
`PGR2021-00113
`
`

`

`Patent Application Publication
`
`Feb. 5, 2015 Sheet 23 of 27
`
`US 2015/0038331 A1
`
`NIPPONBARETXT CTGAAAACTACAAGGATTATATTGAATATCTTAAGGCTCA AAGAGTATCCCAATCCCTCT
`RO46. TXT
`CTGAAAACTACAAGGATTATATTCAATATCTTAAGGCT CAAAGAGTATCCCAATCCCTCT
`O9PM72399. TXT
`CTGAAAACTACAAGGATTATATTCAATATCTTAAGGCTCAAAGAGTATCCCAATCCCTCT
`
`CCATGTTAC
`NIPPONBARETXT CAAGTCTTTCAGATTCCAGCTCAGATTTGCAAGCCCTGCCACAGGGTC
`RO46. TXT
`CAAGTCTTTCAGATTCCAGCTCAGATTTGCAAGCCCTGCCACAGGGTCTTTCCATGTTAC
`O9PM72399. TXT
`CAAGTCTTTCAGATTCCAGCTCAGATTTGCAAGCCCTGCCACAGGGTC
`CCATGTTAC
`
`NIPPONBARETXT
`RO46. TXT
`O9PM72399. TXT
`
`TCATTACATATGGCTGG
`AGATAAGGTAATTAGCTTACTGATGCTTATATAAATTCT
`TAGATAAGGTAATTAGCTTACTGATGCTTATATAAATTCTTTTTCATTACATATGGCTGG
`AGATAAGGTAATTAGCTTACTGATGCTTATATAAATTCT
`TCATTACATATGGCTGG
`
`NIPPONBARETXT AGAACTATCTAATCAAATAATGATTATAATTCCAATCGTTCTTTTTATGCCATTATGATC
`RO46. TXT
`AGAACTATCTAATCAAATAATGATTATAATTCCAATCGTTCTTTTTATGCCATTATGATC
`O9PM72399. TXT AGAACTATCTAATCAAATAATGATTATAATTCCAATCGTTCTTTTTATGCCATTATGATC
`
`NPPONBARETXT TTCTGAAATTTCCTTCTTTGGACACTTATTCAGATGGATCCCTCTAGA AGAGCTCA ACTT
`RO46. TXT
`TTCTGAAATTTCCTTCTTTGGACACTTATTCAGATGGATCCCTCTAGA AGAGCTCAACTT
`O9PM72399. TXT
`CTGAAATTTCCTTCTTTGGACACTTATTCAGATGGATCCCTCTAGAAGAGCTCAACTT
`
`NPPONBARE. TXT GTTGAAGAAATCAGGAAGGTCCTTGGTTGAATCATATGATG
`RO 146. TXT
`GTTGAAGAAATCAGGAAGGTCCTTGGTTGAATCATATGATG
`O9PM72399. TXT GTTGAAGAAATCAGGAAGGTCCTTGGTTGAATCATATGATG
`
`FIG. 20 (cont.)
`
`Ex. 1003
`RiceTec, Inc.
`Page 024
`
`PGR2021-00113
`
`

`

`Patent Application Publication
`
`Feb. 5, 2015 Sheet 24 of 27
`
`US 2015/0038331 Al
`
`MDRPAGLNDIGMVAWTLKMSTPEFPSGRELIIVVANDITFRAGS FGPREDAFFEAVTNLAC
`NIPP-PRO.TXT
`MDRPAGLNDIGMVAWTLKMSTPEFPSGRELIIVVANDITFRAGS FGPREDAFFEAVTNLAC
`RO146-PRO.TXT
`09PM72399-PRO.TX MDRPAGLNDIGMVAWTLKMSTPEFPSGRETIVVANDITFRAGS FGPREDAF FEAVTNLAC
`
`
`
`
`
`
`
`EKKLPLIYLAANSGARIGIADEVKSCFRVGWSDDGSPERGFOYIYLSEEDYARIGTSVIA
`NIPP-PRO.TXT
`EKKLPLIYLAANSGAR IGIADEVKSCFRVGWSDDGSPERGFOY IYLSEEDYARIGTSVIA
`RO146-PRO.TXT
`O09PM72399-PRO.TX EKKLPLIYLAANSGARIGIADEVKSCFRVGWSDDGSPERGFOY [YLSEEDYARIGTSVIA
`
`
`
`NIPP-PRO.TXT
`HKMQLDSGEIRWVIDSVVGKEDGLGVENTHGSAATASAYSRAYKETFTLTFVTGRIVGIG
`
`RO146-PRO.TXT
`HKMQLDSGETIRWVIDSVVGKEDGLGVENTHGSAATASAYSRAYKETFTLTFVTGRIVGIG
`09PM72399-PRO.TX HKMQLDSGEIRWVIDSVVGKEDGLGVENIHGSAATASAYSRAYKETFTLTFVTGRIVGIG
`
`
`AYLARLGIRCIQRLDQPIILTGYSALNKLLGREVYSSHMQOLGGPKIMATNGVVHLTVSDD
`NIPP-PRO.TXT
`
`AYLARLGIRCIQRLDQPIILTGYSALNKLLGREVYSSHMOLGGPKIMATNGVVHLTVSDD
`RO146-PRO.TXT
`09PM72399-PRO.TX AYLARLGIRCIQRLDQPIILTGYSALNKLLGREVYSSHMOLGGPKIMATNGVVHLTVSDD
`
`
`
`
`
`
`
`
`
`
`
`
`
`
`
`
`
`
`
`
`
`
`
`
`
`
`
`
`
`
`
`
`
`
`
`
`
`
`
`
`
`LEGVSNILRWLSYVPAYIGGPLPVTTPLDPPDRPVAYI PENSCDPRAATRGVDDSQGKWL
`NIPP-PRO.TXT
`LEGVSNILRWLSYVPAYIGGPLPVTTPLDPPDRPVAYI PENSCDPRAATRGVDDSQGKWL
`RO146-PRO.TXT
`09PM72399-PRO.TX LEGVSNILRWLSYVPAYIGGPLPVTTPLDPPDRPVAYI PENSCDPRAATRGVDDSQOGKWL
`
`
`
`
`
`
`
`
`
`
`
`GGMFDKDSFVETFEGWAKTVVTGRAKLGGIPVGVIAVETQTMMQTIPADPGQLDSREQSV
`NIPP-PRO.TXT
`GGMFDKDSFVETFEGWAKTVVTGRAKLGGIPVGVIAVETQTMMQTIPADPGQLDSREQSV
`RO146-PRO.TXT
`09PM72399-PRO.TX GGMFDKDSFVETFEGWAKTVVTGRAKLGGIPVGV IAVETOQTMMOTIPADPGOLDSREQSV
`
`
`
`
`
`
`
`
`PRAGOQVWFPDSATKTAQALLDFNREGLPLFILANWRGFSGGORDLFEGILQAGSTIVENL
`NIPP-PRO.TXT
`
`
`
`
`PRAGOQVWFPDSATKTAQALLDFNREGLPLFILANWRGFSGGORDLFEGILQAGSTIVENL
`RO146-PRO.TXT
`
`09PM72399-PRO.TX PRAGOQVWFPDSATKTAQALLDFNREGLPLFILANWRGFSGGORDLFEGILOAGSTIVENL
`
`
`
`
`
`LEPOGLIEIKFRSE
`LEPOGLIEIKFRSE
`LEPOGLIEIKFRSE
`
`RTYNQPAFVY I PMAARLRGGAWVVVDSKINPDRIECYAERTA
`NIPP-PRO.TXT
`RTYNQPAFVY I PMAARLRGGAWVVVDSKINPDRIECYAERTA
`RO146-PRO.TXT
`09PM72399-PRO.TX RTYNQPAFVYI PMAARLRGGAWVVVDSKINPDRIECYAERTA!
`
`
`
`
`ELQDCMSRLDPTLIDLKAKLEVANKNGSADTKSLOENI EARTKOLMPLYTOIAIRFAELH
`NIPP-PRO.TXT
`
`
`
`
`
`ELQDCMSRLDPTLIDLKAKLEVANKNGSADTKSLOENI EARTKOLMPLYTOIAIRFAELH
`RO146-PRO.TXT
`
`09PM72399-PRO.TX ELODCMSRLDPTLIDLKAKLEVANKNGSADTKSLOENIEARTKOLMPLYTOIAIRFAELH
`
`DTSLRMAAKGV I KKVVDWEESRSFFYKRLRRRISEDVLAKETRAVAGEOQFSHOPAIELIK
`NIPP-PRO.TXT
`DTSLRMAAKGV I KKVVDWEESRSFFYKRLURRRISEDVLAKETRAVAGEOFSHQPAIBLIK
`RO146-PRO.TXT
`09PM72399-PRO.TX DTSLRMAAKGVIKKVVDWEESRSFFYKRLRRRISEDVLAKE TRAVAGEOFSHOPAIEBELIK
`
`
`
`
`
`
`
`
`
`
`
`
`
`
`
`
`
`
`
`
`
`
`KWYSASHAAEWDDDDAFVAWMDNPENYKDYIQYLKAORVSQOSLSSLSDSSSDLQALPQGL
`NIPP-PRO.TXT
`
`KWYSASHAAEWDDDDAFVAWMDNPENYKDYIQYLKAQORVSOSLSSLSDSSSDLQALPQGL
`RO146-PRO.TXT
`09PM72399-PRO.TX KWYSASHAAEWDDDDAFVAWMDNPENYKDYIQYLKAQRVSQSLSSLSDSSSDLQALPQGL
`
`
`
`SMLLDKVISLLMLISs
`NIPP-PRO.TXT
`SMLLDKVISLLMLI
`RO146-PRO.TXT
`
`
`09PM72399-PRO.TX SMLLDKVISLLMLI2
`
`
`
`
`
`FIG.21
`
`PGR2021-00113 Ex. 1003
`RiceTec,Inc.
`Page 025
`
`Ex. 1003
`RiceTec, Inc.
`Page 025
`
`PGR2021-00113
`
`

`

`Patent Application Publication
`
`Feb. 5, 2015 Sheet 25 of 27
`
`US 2015/0038331 A1
`
`N
`S
`(N
`O
`V
`
`CO S.
`N S S
`O
`d d 9
`2
`r
`S
`S
`S
`
`9
`
`9
`
`y
`O
`O
`CP
`CO
`CO
`(N
`V
`?y
`
`3
`>
`S
`cu
`
`?y
`O
`
`o
`
`
`
`
`
`
`
`w
`w
`
`w
`w
`w
`w
`w
`w
`
`s
`s
`s
`s
`
`s
`s
`s
`s
`s
`s
`
`s
`s
`s
`s
`
`s s
`
`w
`
`w s w
`
`w
`
`AunulueOued
`
`On O
`N -
`i?
`
`S
`-
`
`9
`
`s
`
`r
`r
`
`r
`
`Ex. 1003
`RiceTec, Inc.
`Page 026
`
`PGR2021-00113
`
`

`

`Patent Application Publication
`
`Feb. 5, 2015 Sheet 26 of 27
`
`US 2015/0038331 A1
`
`
`
`Ex. 1003
`RiceTec, Inc.
`Page 027
`
`PGR2021-00113
`
`

`

`Patent Application Publication
`
`Feb. 5, 2015 Sheet 27 of 27
`
`US 2015/0038331 A1
`
`Parent - MLO831265-O3O93 x
`
`Parent - MLO83.1265-O1493
`
`
`
`selected for low injury to
`high rates of mesotrione
`and presence of G2096S
`ACCase mutation
`
`All three lines are ACCase resistant
`PL1214418M2-73.009 - both HPPD resistant QTLS
`PL1214418 M2-73.001 – mutation induced resistant
`PL1214418M2-73013 – non induced
`
`F5
`
`Carries ACCase resistance
`PL1214418M280048 – both HPPD resistant QTLs
`
`FIG. 24
`
`Ex. 1003
`RiceTec, Inc.
`Page 028
`
`PGR2021-00113
`
`

`

`US 2015/0038331 A1
`
`Feb. 5, 2015
`
`RICE RESISTANT TO HPPD AND ACCASE
`INHIBITING HERBCDES
`
`CROSS-REFERENCE TO RELATED PATENT
`APPLICATIONS
`0001. This application claims the benefit of priority under
`35 U.S.C. S 119(e) to U.S. Provisional Patent Application No.
`61/869,608, filed Aug. 23, 2013, and is a Continuation-in-Part
`of copending U.S. patent application Ser. No. 13/975,034,
`filed Aug. 23, 2013, which claims the benefit of priority under
`35 U.S.C. S 119(e) to U.S. Provisional Patent Application No.
`61/692,861 filed Aug. 24, 2012; this application is also a
`Continuation-in-Part of copending U.S. patent application
`Ser. No. 13/554,675, filed Jul. 20, 2012, which claims the
`benefit of priority under 35 U.S.C. S 119(e) to U.S. Provi
`sional Patent Application Nos. 61/510,585, filed Jul. 22,
`2011, and 61/541,832, filed Sep. 30, 2011. The disclosures set
`forth in the referenced applications are incorporated herein by
`reference in their entireties.
`
`SEQUENCE LISTING
`0002 The instant application contains a Sequence Listing
`which has been submitted in ASCII format via EFS-Web and
`is hereby incorporated by reference in its entirety. Said ASCII
`copy, created on Aug. 13, 2014, is named 706191 SEQ US.
`txt and is 79 KB in size.
`
`BACKGROUND
`0003 Mutant rice is disclosed that is (1) resistant/tolerant
`to both HPPD and ACCase inhibiting herbicides; or (2) resis
`tant/tolerant only to 4-hydroxyphenylpyruvate dioxygenase
`(HPPD) inhibiting herbicides. Methods of weed control are
`disclosed using rice with these herbicide resistant/tolerant
`crops in fields. Methods to produce herbicide resistant/toler
`ant rice are also disclosed.
`
`Value of Rice Crops
`0004 Rice is an ancient agricultural crop and today is one
`of the principal food crops of the world. There are two culti
`vated species of rice: Oryza sativa L., the Asian rice, and
`Oryza glaberrima Steud., the African rice. The Asian species
`constitutes virtually all of the worlds cultivated rice and is the
`species grown in the United States. Three major rice produc
`ing regions exist in the United States: the Mississippi Delta
`(Arkansas, Mississippi, northeast Louisiana, Southeast Mis
`souri), the Gulf Coast (Southwest Louisiana, Southeast
`Texas), and the Central Valley of California. Other countries,
`in particular in South America and the East, are major rice
`producers.
`0005 Rice is one of the few crops that can be grown in a
`shallow flood as it has a unique structure allowing gas
`exchange through the stems between the roots and the atmo
`sphere. Growth in a shallow flood results in the best yields and
`is the reason that rice is usually gown in heavy clay soils, or
`soils with an impermeable hard pan layer just below the soil
`surface. These soil types are usually either not suitable for
`other crops or at best, the crops yield poorly.
`0006. The constant improvement of rice is imperative to
`provide necessary nutrition for a growing world population.
`A large portion of the world population consumes rice as their
`primary Source of nutrition and crops must thrive in various
`environmental conditions including competing with weeds
`and attacks by unfavorable agents. Rice improvement is car
`
`ried out through conventional breeding practices and also by
`recombinant genetic techniques. Though appearing straight
`forward to those outside this discipline, crop improvement
`requires keen scientific and artistic skill and results are gen
`erally unpredictable.
`0007 Although specific breeding objectives vary some
`what in the different rice producing regions of the world,
`increasing yield is a primary objective in all programs.
`0008 Plant breeding begins with the analysis and defini
`tion of strengths and weaknesses of cultivars in existence,
`followed by the establishment of program goals, to improve
`areas of weakness to produce new cultivars. Specific breeding
`objectives include combining in a single cultivaran improved
`combination of desirable traits from the parental sources.
`Desirable traits may be introduced due to spontaneous or
`induced mutations. Desirable traits include higher yield,
`resistance to environmental stress, diseases and insects, better
`stems and roots, tolerance to low temperatures, better agro
`nomic characteristics, nutritional value and grain quality.
`0009 For example, the breeder initially selects and
`crosses two or more parental lines, followed by selection for
`desired traits among the many new genetic combinations. The
`breeder can theoretically generate billions of new and differ
`ent genetic combinations via crossing. Breeding by using
`crossing and selfing, does not imply direct control at the
`cellular level. However, that type of control may be achieved
`in part using recombinant genetic techniques.
`0010 Pedigree breeding is used commonly for the
`improvement of self-pollinating crops such as rice. For
`example, two parents which possess favorable, complemen
`tary traits are crossed to produce an F1 generation. One or
`both parents may themselves represent an F from a previous
`cross. Subsequently a segregating population is produced, by
`growing the seeds resulting from selfing one or several FS if
`the two parents are pure lines, or by directly growing the seed
`resulting from the initial cross if at least one of the parents is
`an F. Selection of the best individual genomes may begin in
`the first segregating population or F, then, beginning in the
`F, the best individuals in the best families are selected.
`“Best' is defined according to the goals of a particular breed
`ing program e.g., to increase yield, resist diseases. Overall a
`multifactorial approach is used to define “best” because of
`genetic interactions. A desirable gene in one genetic back
`ground may differ in a different background. In addition,
`introduction of the gene may disrupt other favorable genetic
`characteristics. Replicated testing of families can begin in the
`F generation to improve the effectiveness of selection for
`traits with low heritability. At an advanced stage of inbreeding
`(i.e., F and F7), the best lines or mixtures of phenotypically
`similar lines are tested for potential release as new parental
`lines.
`Backcross breeding has been used to transfer genes
`0011
`for a highly heritable trait into a desirable homozygous cul
`tivar or inbred line which is the recurrent parent. The source
`of the trait to be transferred is called the donor parent. The
`resulting plant is expected to have the attributes of the recur
`rent parent (e.g., cultivar) and the desirable trait transferred
`from the donor parent. After the initial cross, individuals
`possessing the phenotype of the donor parent are selected and
`repeatedly crossed (backcrossed) to the recurrent parent. The
`process is used to recover all of the beneficial characteristics
`of the recurrent parent with the addition of the new trait
`provided by the donor parent.
`
`Ex. 1003
`RiceTec, Inc.
`Page 029
`
`PGR2021-00113
`
`

`

`US 2015/0038331 A1
`
`Feb. 5, 2015
`
`0012 Promising advanced breeding lines are thoroughly
`tested and compared to appropriate standards in environ
`ments representative of the commercial target area(s) for at
`least three or more years. The best lines are candidates for
`new commercial varieties or parents of hybrids; those still
`deficient in a few traits may be used as parents to produce new
`populations for further selection.
`0013 These processes, which lead to the final step of
`marketing and distribution, usually take from 8 to 12 years
`from the time the first cross is made and may rely on the
`development of improved breeding lines as precursors.
`Therefore, development of new cultivars is not only a time
`consuming process, but requires precise forward planning,
`efficient use of resources, and a minimum of changes in
`direction. The results include novel genetic combinations not
`found in nature.
`0014 Some improvement of rice throughbreeding may be
`restricted to the natural genetic variation in rice and hybrid
`izing species, such as wild rice. The introduction of new
`variation in a breeding program is usually through the cross
`ing program as described. Such as pedigree or backcross
`breeding. However, occasionally natural mutations are found
`that result in the introduction of new traits such as disease
`resistance or height changes. Breeders have also developed
`new traits by inducing mutations (Small changes in the DNA
`sequence) into a rice genome. Some of these mutations or
`combination of genes are not found in nature. Commonly,
`EMS or sodium azide plus MNU are used as mutagenic
`agents. These chemicals randomly induce single base
`changes in DNA, usually of G and C changed to A and T.
`Overall effects are unpredictable. Most of these changes have
`no effect on the crop as they fall either outside the gene coding
`regions or don't change the amino acid sequence of the gene
`product. However, some produce new traits or incorporate
`new DNA changes into previous lines.
`0.015 The breeder has no direct control of mutation sites in
`the DNA sequence. The identification of useful changes is
`due to the random possibility that an effective mutation will
`be induced and that the breeder will recognize the phenotypic
`effects of the change and will be able to selectrice having that
`mutation. Seeds are treated with the mutagenic chemical and
`immediately planted to grow and produce M2 seed. The M2
`seed will carry numerous new variations; therefore, no two
`experiments will produce the same combinations. Among
`these variations new traits previously not existing in rice and
`unavailable for selection by a plant breeder may be found and
`used for rice improvement.
`0016 To find new traits the breeder must use efficient and
`strategic selection strategies as the process is completely ran
`dom and has an extremely low frequency of useful new com
`binations. Among thousands of induced new genetic variants
`there may be only one with a desirable new trait. An optimal
`selection system will screen through thousands of new vari
`ants and allow detection of a few or even a single plant that
`might carry a new trait. After identifying or finding a possible
`new trait the breeder must develop a new cultivar by pedigree
`or backcross breeding and extensive testing to Verify the new
`trait and cultivar exhibits stable and heritable value to rice
`producers.
`0.017. Using recombinant genetic techniques, nucleic acid
`molecules with mutations that encode improved characteris
`tics in rice, may be introduced into rice with commercially
`
`suitable genomes. After a mutation is identified by whatever
`course, it may be transferred into rice by recombinant tech
`niques.
`
`Applications of Herbicide Resistance Patents in Rice
`0018 Weeds and other competitors for resources in crop
`fields compete for resources and greatly reduce the yield and
`quality of the crop. Weeds have been controlled in crops
`through the application of selective herbic