Supplementary Information Negative gravitropism in plant roots · NEGATIVE GRAVITROPIC RESPONSE OF...

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SUPPLEMENTARY INFORMATION DOI: 10.1038/NPLANTS.2016.155 NATURE PLANTS | www.nature.com/natureplants 1 Liangfa Ge 1 and Rujin Chen 1,* 1 Plant Biology Division, The Samuel Roberts Noble Foundation, Ardmore, Oklahoma 73401, USA. *Correspondence to: Rujin Chen, Email: [email protected]; Phone: (580) 224-6730) Negative gravitropism in plant roots

Transcript of Supplementary Information Negative gravitropism in plant roots · NEGATIVE GRAVITROPIC RESPONSE OF...

Page 1: Supplementary Information Negative gravitropism in plant roots · NEGATIVE GRAVITROPIC RESPONSE OF ROOTS is required for root gravitropism in plants Liangfa Ge1 and Rujin Chen1,*

SUPPLEMENTARY INFORMATIONDOI: 10.1038/NPLANTS.2016.155

NATURE PLANTS | www.nature.com/natureplants 1

Supplementary Information

NEGATIVE GRAVITROPIC RESPONSE OF ROOTS is required for root gravitropism in plants

Liangfa Ge1 and Rujin Chen1,*

1 Plant Biology Division, The Samuel Roberts Noble Foundation, Ardmore, Oklahoma 73401,

USA. *Correspondence to: Rujin Chen, Email: [email protected]; Phone: (580) 224-6730)

Negative gravitropism in plant roots

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A17 rep1 A17 rep2 A17 rep3 mtngr rep1 mtngr rep2 mtngr rep3Mtr.41147.1.S1_at 979.48956 946.6219192 866.631863 4.69487656 0.56284151 5.104207191 0.003710303Mtr.29422.1.S1_at 455.3301745 458.6007335 476.621711 1.39580764 9.6536057 1.664490582 0.009143058 Medtr2g013640Mtr.27924.1.S1_at 154.4436018 123.4432575 93.3735373 1.39580764 1.31295214 1.272077666 0.010722494 Medtr8g021230Mtr.1952.1.S1_at 135.3487676 100.4130146 101.022875 2.29490703 1.40670436 0.879940784 0.013603803 Medtr8g021237

Mtr.35490.1.S1_at 94.33888477 112.3023358 110.80752 4.09464933 0.56284151 1.272077666 0.018678822 Medtr8g021230Mtr.47631.1.S1_s_at 274.8283422 274.0562628 263.004192 1.49567077 2.34413624 16.04091008 0.024486995

Mtr.7152.1.S1_at 558.0660342 634.7108138 588.767803 9.70049498 9.46621455 34.89815925 0.030347187 Medtr8g021250Mtr.8003.1.S1_at 14.08772716 9.813289 4.77014039 0.69714197 0.09385901 0.194881745 0.034385872

Mtr.14975.1.S1_x_at 13.97104131 13.70969524 0.34287589 0.2983765 0.37527481 0.292589433 0.034479521 Medtr4g119600Mtr.14552.1.S1_s_at 12.22000688 0.815485153 7.14829382 0.19879062 0.37527481 0.194881745 0.038097272Mtr.39615.1.S1_at 131.2056154 100.496721 122.726264 4.89497996 0.84415621 7.958717093 0.038647709 Medtr8g021230Mtr.25673.1.S1_at 8.127784576 8.653897172 3.75012403 0.39801572 0.37527481 0.194881745 0.047154755Mtr.5398.1.S1_at 19.56600481 7.991695264 11.3340003 0.39801572 0.46906108 0.977943794 0.047439957 Medtr1g105595

Mtr.26186.1.S1_s_at 17.81878764 1.964908603 0.45685425 0.19879062 0.46906108 0.292589433 0.047451335 Medtr5g084210Mtr.50259.1.S1_at 23.98818492 12.71432881 7.60103759 0.49769461 0.75038846 0.879940784 0.048032805Mtr.22243.1.S1_at 9.29805861 1.800459418 17.7752452 0.39801572 0.65661706 0.390371851 0.050045594Mtr.4002.1.S1_at 10.35052913 2.21169693 21.7274471 0.39801572 0.75038846 0.586092239 0.050583638Mtr.19286.1.S1_at 5.666619106 0.406469702 12.9167228 0.39801572 0.37527481 0.194881745 0.050983775 Medtr7g087460Mtr.26584.1.S1_at 17.00306615 12.63139704 0.57076394 0.2983765 0.46906108 0.781962322 0.051295754 Medtr7g088650Mtr.36706.1.S1_at 22.24324113 3.199976841 10.3162607 0.39801572 0.2814812 1.174014077 0.051832718 Medtr2g033860

* http://www.jcvi.org/medicago/display.php?pageName=General&section=Download. Red highlights mark the adjacent probesets that are located in the deleted region in mtngr-1 .

Supplementary Table S1. The top 20 down-regulated probesets in mtngr-1 mutant from microarray transcriptomic profiling analysis

Probeset NameProbeset Signal Value Fold Change

(mtngr /A17) Mt4.0V1*

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Mutant name Species Stock name Mutation typemtngr-1 Medicago truncatula NF-FN2081 Fatst neutron bambarment (FNB) mtngr-2 Medicago truncatula NF14878 Tnt1 retrotransposon insertionmtngr-3 Medicago truncatula NF7824 Tnt1 retrotransposon insertionmtngr-4 Medicago truncatula NF17672 Tnt1 retrotransposon insertionatngr1 Arabidopsis thaliana FLAG_199G07 T-DNA insertionatngr2 Arabidopsis thaliana SAIL_723_H11.v2 T-DNA insertionatngr3-1 Arabidopsis thaliana GK-479C08 T-DNA insertionatngr3-2 Arabidopsis thaliana GK-730C11 T-DNA insertion

Supplementary Table S2. Plant materials used in this study

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Primer Name Sequence UsageMtr_27224-1f CTGGTTTCAAAGATGGTCATGTGGAGGTG Confirmation of deletionMtr_27224-1r GATCACTCTCCAAGGTCCCAAGCCAACAC Confirmation of deletionMtr.27924-1f TTGAAAATGTAAAGAATGCACTCGTAGG Confirmation of deletionMtr.27924-1r AGGCCTTCTAAACTTTTGATGGTGA Confirmation of deletionMtr.29422-1f ACGTTATGGTTTCCTTCTGTGTTGTCT Confirmation of deletionMtr.29422-1r TTATAACGTCGATCACCAACAAAAAGT Confirmation of deletionMtr.35490-1f GTTACAAAAGGCATACGGCACACT Confirmation of deletionMtr.35490-1r TTTCACTACAAGCAATCACACTCACAA Confirmation of deletionMtr.39615-1f CTTCACATTCCTTCTCAAACCCTTACCAA Confirmation of deletionMtr.39615-1r TATCCGTCTTTAGCTTTGGCCATTTTCTG Confirmation of deletionFrag.1-F TCATAGTCTGGGTATTGGCC Chromosome walkingFrag.1-R TGTACAGCTGAAAGGATCCG Chromosome walkingFrag.2-F TTTGTGCACACATAAGCGCC Chromosome walkingFrag.2-R AGAATGTCCACATACAGCCG Chromosome walkingFrag.3-F GATCCTAAATCACCCCTCTG Chromosome walkingFrag.3-R TTAATATGCATGTAGGGTTGGG Chromosome walkingFrag.4-F TTGAACCACATGCTCTCAGG Chromosome walkingFrag.4-R GACTTCACAGAGTCTCCAGC Chromosome walking

Frag.5-F CATACTTTGAATAAGGTGAGACCChromosome walking and amplification of deletion borders

Frag.5-R TTGTCCTGTCTCTTGCCTCC Chromosome walkingFrag.6-F GGTGAATGTTTGGATAAATCACGG Chromosome walkingFrag.6-R ATAGCAAGATCTGGCTAGGG Chromosome walkingFrag.7-F ATGTGGAACGGTCTTTGGGC Chromosome walkingFrag.7-R GAAGTTGCTCATGATTTAAGGG Chromosome walkingFrag.8-F ATTGTACAAATGTTCCGTGAGC Chromosome walkingFrag.8-R GAGAGATTATTTAGCATACGAGAC Chromosome walkingFrag.9-F AAGAGATTTCTGAGCTTCCCC Chromosome walkingFrag.9-R AATAAGTACTTTATGCTTTATTCACC Chromosome walkingFrag.10-F CACAGAAAGTAGAAAGGGATGC Chromosome walking

Supplementary Table S3. Primers used in this study

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Frag.10-R TCGGTTTTGACTGTGGAATGGChromosome walking and amplification of deletion borders

Frag.11-F CTTTCTCTCTCTAAAATGTCCC Chromosome walkingFrag.11-R GAATTCACTGTAGAAGGACGG Chromosome walkingatngr1-LP GCGCAGACAAAAATCTTCTTG Genotypingatngr1-RP TTGGTGGACTCGTTTGCTTAC Genotypingatngr2-LP TTTGGTTTTATGGACCCAACC Genotypingatngr2-RP AAGAGCTTTCTTCCTCCGATG Genotypingatngr3-LP TACCATGACTATCAATCAGGTCC Genotypingatngr3-RP GCTCAAGAACCATCAAGTCCTC GenotypingMtNGR-TntF1 ACGCAAAACCAGAGCCTAGAG Tnt1 screen and genotypingMtNGR-TntF2 CTAGAGAAGAATTTAGTGATTGGCCTC Tnt1 screen and genotypingMtNGR-TntR1 ACATTCAGAATCAGTCTTGACCC Tnt1 screen and genotypingMtNGR-TntR2 GAATCAGTCTTGACCCATTTACTTCC Tnt1 screen and genotypingAtNGR1 Promoter-F CACCGGATCCGGAGAAGGTGGGAGAGCAAGTTGG ConstuctAtNGR1 Promoter-R AGAAGGATCCCTCGAGTTATTGATGAATCAAGATTGGT ConstuctAtNGR2 Promoter-F CACCGAATTCGGGACCAATAAGATATGCATGTTTC ConstuctAtNGR2 Promoter-R AGAGGGATCCGTCTTAGTGACCCGGAAGAAGA ConstuctAMiAtNGR3-F1 AAAGTGTAGTTAAGCAAGTGTTCACAGGTCGTGATATGATTCConstuctAMiAtNGR3-R1 ACACTTGCTTAACTACACTTTCTACATATATATTCCTAAAAC ConstuctAMiAtNGR3-F2 TCACTTGGTTAATTACACCTTCTCTCTTTTGTATTCCAATTT ConstuctAMiAtNGR3-R2 AAGGTGTAATTAACCAAGTGATCAAAGAGAATCAATGATCC ConstuctAtOligoA TTTAAGCTTACAAACACACGCTCGGACGC ConstuctAtOligoB TTCCTGCAGGTTCATCAAATCAAATATAGTTAACC ConstuctAtNGR2-F CACCATGAAGTTTTTCGGGTGGATGC ConstuctAtNGR2-R GATCTCAAGAACAATGAAATCAGAATC ConstuctAtNGR2-GFP-F1 CGCGCCATGAAGTTTTTCGGGTGGATGC ConstuctAtNGR2-GFP-F2 CCATGAAGTTTTTCGGGTGGATGC ConstuctGFP-R ATTGAGCTCTTAGTGGTGGTGGTGGTGG Constuct

http://dx.doi.org/10.1038/nplants.2016.155

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