ERX3510575 E-MTAB-8265:MB3_H3_0h_s ERP116942 PRJEB34088 The effect of γ-butyrolactone (MB3) treatment on the chromatin landscape after wounding of Arabidopsis thaliana roots ERS3670848 SAMEA5882388 MB3_H3_0h_s ChIP-Seq GENOMIC ChIP Samples were taken from roots of 7 days old plants in triplicates. To apply wound stress, roots were cut into 3 mm explants and harvested at 0, 3 and 6 h after wounding. Plants were aligned on Murashige-Skoog (MS) media containing 1% sucrose and 0.6% (w/v) gelzan, overlaid with a nylon mesh (Sefar) and grown for 7 days under continuous light conditions at 22°C. All samples were treated with gamma-butyrolactone (MB3, CAS No. 778649-18-6, ab141255, Abcam) (CHEBI: 42639) 100 micromolar was applied 24 h before cutting by transferring the nylon mesh to MB3-containing MS plates. Root samples were ground to a fine powder using a multi-beads shocker (MB1200, Yasui Kikai) and the nuclear fraction was isolated after cross linking with 1% formaldehyde for 10 min. Chromatin was sheared at 4–6°C for 15 min with a focused ultrasonicator (Covaris) with the following settings: duty cycle 5%, intensity 4, and cycles per burst 200. Chromatin was immunoprecipitated using antibodies against H3 (ab1791; Abcam), H3K27me3 (07-449; Millipore), H3K4me3 (ab8580; Abcam), H3K9/14ac (06-599, Millipore) and H3K27ac (ab4729, Abcam). DNA was extracted with phenol-chlorophorm (1:1), precipitated with ethanol and dissolved in TE. Libraries were prepared using the KAPA Hyper Prep Kit for Illumina (KK8502, KAPA Biosystems) and Illumina compatible adaptors (E7335, E7500, E7710, E7730, NEB). NextSeq 500 Experimental Factor: immunoprecipitate H3 Experimental Factor: injury none Experimental Factor: time 0 ERX3510576 E-MTAB-8265:MB3_H3K27ac_0h_s ERP116942 PRJEB34088 The effect of γ-butyrolactone (MB3) treatment on the chromatin landscape after wounding of Arabidopsis thaliana roots ERS3670849 SAMEA5882389 MB3_H3K27ac_0h_s ChIP-Seq GENOMIC ChIP Samples were taken from roots of 7 days old plants in triplicates. To apply wound stress, roots were cut into 3 mm explants and harvested at 0, 3 and 6 h after wounding. Plants were aligned on Murashige-Skoog (MS) media containing 1% sucrose and 0.6% (w/v) gelzan, overlaid with a nylon mesh (Sefar) and grown for 7 days under continuous light conditions at 22°C. All samples were treated with gamma-butyrolactone (MB3, CAS No. 778649-18-6, ab141255, Abcam) (CHEBI: 42639) 100 micromolar was applied 24 h before cutting by transferring the nylon mesh to MB3-containing MS plates. Root samples were ground to a fine powder using a multi-beads shocker (MB1200, Yasui Kikai) and the nuclear fraction was isolated after cross linking with 1% formaldehyde for 10 min. Chromatin was sheared at 4–6°C for 15 min with a focused ultrasonicator (Covaris) with the following settings: duty cycle 5%, intensity 4, and cycles per burst 200. Chromatin was immunoprecipitated using antibodies against H3 (ab1791; Abcam), H3K27me3 (07-449; Millipore), H3K4me3 (ab8580; Abcam), H3K9/14ac (06-599, Millipore) and H3K27ac (ab4729, Abcam). DNA was extracted with phenol-chlorophorm (1:1), precipitated with ethanol and dissolved in TE. Libraries were prepared using the KAPA Hyper Prep Kit for Illumina (KK8502, KAPA Biosystems) and Illumina compatible adaptors (E7335, E7500, E7710, E7730, NEB). NextSeq 500 Experimental Factor: immunoprecipitate H3K27ac Experimental Factor: injury none Experimental Factor: time 0 ERX3510577 E-MTAB-8265:MB3_H3K27me3_0h_s ERP116942 PRJEB34088 The effect of γ-butyrolactone (MB3) treatment on the chromatin landscape after wounding of Arabidopsis thaliana roots ERS3670850 SAMEA5882390 MB3_H3K27me3_0h_s ChIP-Seq GENOMIC ChIP Samples were taken from roots of 7 days old plants in triplicates. To apply wound stress, roots were cut into 3 mm explants and harvested at 0, 3 and 6 h after wounding. Plants were aligned on Murashige-Skoog (MS) media containing 1% sucrose and 0.6% (w/v) gelzan, overlaid with a nylon mesh (Sefar) and grown for 7 days under continuous light conditions at 22°C. All samples were treated with gamma-butyrolactone (MB3, CAS No. 778649-18-6, ab141255, Abcam) (CHEBI: 42639) 100 micromolar was applied 24 h before cutting by transferring the nylon mesh to MB3-containing MS plates. Root samples were ground to a fine powder using a multi-beads shocker (MB1200, Yasui Kikai) and the nuclear fraction was isolated after cross linking with 1% formaldehyde for 10 min. Chromatin was sheared at 4–6°C for 15 min with a focused ultrasonicator (Covaris) with the following settings: duty cycle 5%, intensity 4, and cycles per burst 200. Chromatin was immunoprecipitated using antibodies against H3 (ab1791; Abcam), H3K27me3 (07-449; Millipore), H3K4me3 (ab8580; Abcam), H3K9/14ac (06-599, Millipore) and H3K27ac (ab4729, Abcam). DNA was extracted with phenol-chlorophorm (1:1), precipitated with ethanol and dissolved in TE. Libraries were prepared using the KAPA Hyper Prep Kit for Illumina (KK8502, KAPA Biosystems) and Illumina compatible adaptors (E7335, E7500, E7710, E7730, NEB). NextSeq 500 Experimental Factor: immunoprecipitate H3K27me3 Experimental Factor: injury none Experimental Factor: time 0 ERX3510578 E-MTAB-8265:MB3_H3K4me3_0h_s ERP116942 PRJEB34088 The effect of γ-butyrolactone (MB3) treatment on the chromatin landscape after wounding of Arabidopsis thaliana roots ERS3670851 SAMEA5882391 MB3_H3K4me3_0h_s ChIP-Seq GENOMIC ChIP Samples were taken from roots of 7 days old plants in triplicates. To apply wound stress, roots were cut into 3 mm explants and harvested at 0, 3 and 6 h after wounding. Plants were aligned on Murashige-Skoog (MS) media containing 1% sucrose and 0.6% (w/v) gelzan, overlaid with a nylon mesh (Sefar) and grown for 7 days under continuous light conditions at 22°C. All samples were treated with gamma-butyrolactone (MB3, CAS No. 778649-18-6, ab141255, Abcam) (CHEBI: 42639) 100 micromolar was applied 24 h before cutting by transferring the nylon mesh to MB3-containing MS plates. Root samples were ground to a fine powder using a multi-beads shocker (MB1200, Yasui Kikai) and the nuclear fraction was isolated after cross linking with 1% formaldehyde for 10 min. Chromatin was sheared at 4–6°C for 15 min with a focused ultrasonicator (Covaris) with the following settings: duty cycle 5%, intensity 4, and cycles per burst 200. Chromatin was immunoprecipitated using antibodies against H3 (ab1791; Abcam), H3K27me3 (07-449; Millipore), H3K4me3 (ab8580; Abcam), H3K9/14ac (06-599, Millipore) and H3K27ac (ab4729, Abcam). DNA was extracted with phenol-chlorophorm (1:1), precipitated with ethanol and dissolved in TE. Libraries were prepared using the KAPA Hyper Prep Kit for Illumina (KK8502, KAPA Biosystems) and Illumina compatible adaptors (E7335, E7500, E7710, E7730, NEB). NextSeq 500 Experimental Factor: immunoprecipitate H3K4me3 Experimental Factor: injury none Experimental Factor: time 0 ERX3510579 E-MTAB-8265:MB3_H3K9/14ac_0h_s ERP116942 PRJEB34088 The effect of γ-butyrolactone (MB3) treatment on the chromatin landscape after wounding of Arabidopsis thaliana roots ERS3670852 SAMEA5882392 MB3_H3K9/14ac_0h_s ChIP-Seq GENOMIC ChIP Samples were taken from roots of 7 days old plants in triplicates. To apply wound stress, roots were cut into 3 mm explants and harvested at 0, 3 and 6 h after wounding. Plants were aligned on Murashige-Skoog (MS) media containing 1% sucrose and 0.6% (w/v) gelzan, overlaid with a nylon mesh (Sefar) and grown for 7 days under continuous light conditions at 22°C. All samples were treated with gamma-butyrolactone (MB3, CAS No. 778649-18-6, ab141255, Abcam) (CHEBI: 42639) 100 micromolar was applied 24 h before cutting by transferring the nylon mesh to MB3-containing MS plates. Root samples were ground to a fine powder using a multi-beads shocker (MB1200, Yasui Kikai) and the nuclear fraction was isolated after cross linking with 1% formaldehyde for 10 min. Chromatin was sheared at 4–6°C for 15 min with a focused ultrasonicator (Covaris) with the following settings: duty cycle 5%, intensity 4, and cycles per burst 200. Chromatin was immunoprecipitated using antibodies against H3 (ab1791; Abcam), H3K27me3 (07-449; Millipore), H3K4me3 (ab8580; Abcam), H3K9/14ac (06-599, Millipore) and H3K27ac (ab4729, Abcam). DNA was extracted with phenol-chlorophorm (1:1), precipitated with ethanol and dissolved in TE. Libraries were prepared using the KAPA Hyper Prep Kit for Illumina (KK8502, KAPA Biosystems) and Illumina compatible adaptors (E7335, E7500, E7710, E7730, NEB). NextSeq 500 Experimental Factor: immunoprecipitate H3K9/14ac Experimental Factor: injury none Experimental Factor: time 0 ERX3510580 E-MTAB-8265:MB3_H3_3h_s ERP116942 PRJEB34088 The effect of γ-butyrolactone (MB3) treatment on the chromatin landscape after wounding of Arabidopsis thaliana roots ERS3670853 SAMEA5882393 MB3_H3_3h_s ChIP-Seq GENOMIC ChIP Samples were taken from roots of 7 days old plants in triplicates. To apply wound stress, roots were cut into 3 mm explants and harvested at 0, 3 and 6 h after wounding. Plants were aligned on Murashige-Skoog (MS) media containing 1% sucrose and 0.6% (w/v) gelzan, overlaid with a nylon mesh (Sefar) and grown for 7 days under continuous light conditions at 22°C. All samples were treated with gamma-butyrolactone (MB3, CAS No. 778649-18-6, ab141255, Abcam) (CHEBI: 42639) 100 micromolar was applied 24 h before cutting by transferring the nylon mesh to MB3-containing MS plates. Root samples were ground to a fine powder using a multi-beads shocker (MB1200, Yasui Kikai) and the nuclear fraction was isolated after cross linking with 1% formaldehyde for 10 min. Chromatin was sheared at 4–6°C for 15 min with a focused ultrasonicator (Covaris) with the following settings: duty cycle 5%, intensity 4, and cycles per burst 200. Chromatin was immunoprecipitated using antibodies against H3 (ab1791; Abcam), H3K27me3 (07-449; Millipore), H3K4me3 (ab8580; Abcam), H3K9/14ac (06-599, Millipore) and H3K27ac (ab4729, Abcam). DNA was extracted with phenol-chlorophorm (1:1), precipitated with ethanol and dissolved in TE. Libraries were prepared using the KAPA Hyper Prep Kit for Illumina (KK8502, KAPA Biosystems) and Illumina compatible adaptors (E7335, E7500, E7710, E7730, NEB). NextSeq 500 Experimental Factor: immunoprecipitate H3 Experimental Factor: injury root wounding Experimental Factor: time 3 ERX3510581 E-MTAB-8265:MB3_H3_6h_s ERP116942 PRJEB34088 The effect of γ-butyrolactone (MB3) treatment on the chromatin landscape after wounding of Arabidopsis thaliana roots ERS3670854 SAMEA5882394 MB3_H3_6h_s ChIP-Seq GENOMIC ChIP Samples were taken from roots of 7 days old plants in triplicates. To apply wound stress, roots were cut into 3 mm explants and harvested at 0, 3 and 6 h after wounding. Plants were aligned on Murashige-Skoog (MS) media containing 1% sucrose and 0.6% (w/v) gelzan, overlaid with a nylon mesh (Sefar) and grown for 7 days under continuous light conditions at 22°C. All samples were treated with gamma-butyrolactone (MB3, CAS No. 778649-18-6, ab141255, Abcam) (CHEBI: 42639) 100 micromolar was applied 24 h before cutting by transferring the nylon mesh to MB3-containing MS plates. Root samples were ground to a fine powder using a multi-beads shocker (MB1200, Yasui Kikai) and the nuclear fraction was isolated after cross linking with 1% formaldehyde for 10 min. Chromatin was sheared at 4–6°C for 15 min with a focused ultrasonicator (Covaris) with the following settings: duty cycle 5%, intensity 4, and cycles per burst 200. Chromatin was immunoprecipitated using antibodies against H3 (ab1791; Abcam), H3K27me3 (07-449; Millipore), H3K4me3 (ab8580; Abcam), H3K9/14ac (06-599, Millipore) and H3K27ac (ab4729, Abcam). DNA was extracted with phenol-chlorophorm (1:1), precipitated with ethanol and dissolved in TE. Libraries were prepared using the KAPA Hyper Prep Kit for Illumina (KK8502, KAPA Biosystems) and Illumina compatible adaptors (E7335, E7500, E7710, E7730, NEB). NextSeq 500 Experimental Factor: immunoprecipitate H3 Experimental Factor: injury root wounding Experimental Factor: time 6 ERX3510582 E-MTAB-8265:MB3_H3K27ac_3h_s ERP116942 PRJEB34088 The effect of γ-butyrolactone (MB3) treatment on the chromatin landscape after wounding of Arabidopsis thaliana roots ERS3670855 SAMEA5882395 MB3_H3K27ac_3h_s ChIP-Seq GENOMIC ChIP Samples were taken from roots of 7 days old plants in triplicates. To apply wound stress, roots were cut into 3 mm explants and harvested at 0, 3 and 6 h after wounding. Plants were aligned on Murashige-Skoog (MS) media containing 1% sucrose and 0.6% (w/v) gelzan, overlaid with a nylon mesh (Sefar) and grown for 7 days under continuous light conditions at 22°C. All samples were treated with gamma-butyrolactone (MB3, CAS No. 778649-18-6, ab141255, Abcam) (CHEBI: 42639) 100 micromolar was applied 24 h before cutting by transferring the nylon mesh to MB3-containing MS plates. Root samples were ground to a fine powder using a multi-beads shocker (MB1200, Yasui Kikai) and the nuclear fraction was isolated after cross linking with 1% formaldehyde for 10 min. Chromatin was sheared at 4–6°C for 15 min with a focused ultrasonicator (Covaris) with the following settings: duty cycle 5%, intensity 4, and cycles per burst 200. Chromatin was immunoprecipitated using antibodies against H3 (ab1791; Abcam), H3K27me3 (07-449; Millipore), H3K4me3 (ab8580; Abcam), H3K9/14ac (06-599, Millipore) and H3K27ac (ab4729, Abcam). DNA was extracted with phenol-chlorophorm (1:1), precipitated with ethanol and dissolved in TE. Libraries were prepared using the KAPA Hyper Prep Kit for Illumina (KK8502, KAPA Biosystems) and Illumina compatible adaptors (E7335, E7500, E7710, E7730, NEB). NextSeq 500 Experimental Factor: immunoprecipitate H3K27ac Experimental Factor: injury root wounding Experimental Factor: time 3 ERX3510583 E-MTAB-8265:MB3_H3K27ac_6h_s ERP116942 PRJEB34088 The effect of γ-butyrolactone (MB3) treatment on the chromatin landscape after wounding of Arabidopsis thaliana roots ERS3670856 SAMEA5882396 MB3_H3K27ac_6h_s ChIP-Seq GENOMIC ChIP Samples were taken from roots of 7 days old plants in triplicates. To apply wound stress, roots were cut into 3 mm explants and harvested at 0, 3 and 6 h after wounding. Plants were aligned on Murashige-Skoog (MS) media containing 1% sucrose and 0.6% (w/v) gelzan, overlaid with a nylon mesh (Sefar) and grown for 7 days under continuous light conditions at 22°C. All samples were treated with gamma-butyrolactone (MB3, CAS No. 778649-18-6, ab141255, Abcam) (CHEBI: 42639) 100 micromolar was applied 24 h before cutting by transferring the nylon mesh to MB3-containing MS plates. Root samples were ground to a fine powder using a multi-beads shocker (MB1200, Yasui Kikai) and the nuclear fraction was isolated after cross linking with 1% formaldehyde for 10 min. Chromatin was sheared at 4–6°C for 15 min with a focused ultrasonicator (Covaris) with the following settings: duty cycle 5%, intensity 4, and cycles per burst 200. Chromatin was immunoprecipitated using antibodies against H3 (ab1791; Abcam), H3K27me3 (07-449; Millipore), H3K4me3 (ab8580; Abcam), H3K9/14ac (06-599, Millipore) and H3K27ac (ab4729, Abcam). DNA was extracted with phenol-chlorophorm (1:1), precipitated with ethanol and dissolved in TE. Libraries were prepared using the KAPA Hyper Prep Kit for Illumina (KK8502, KAPA Biosystems) and Illumina compatible adaptors (E7335, E7500, E7710, E7730, NEB). NextSeq 500 Experimental Factor: immunoprecipitate H3K27ac Experimental Factor: injury root wounding Experimental Factor: time 6 ERX3510584 E-MTAB-8265:MB3_H3K27me3_3h_s ERP116942 PRJEB34088 The effect of γ-butyrolactone (MB3) treatment on the chromatin landscape after wounding of Arabidopsis thaliana roots ERS3670857 SAMEA5882397 MB3_H3K27me3_3h_s ChIP-Seq GENOMIC ChIP Samples were taken from roots of 7 days old plants in triplicates. To apply wound stress, roots were cut into 3 mm explants and harvested at 0, 3 and 6 h after wounding. Plants were aligned on Murashige-Skoog (MS) media containing 1% sucrose and 0.6% (w/v) gelzan, overlaid with a nylon mesh (Sefar) and grown for 7 days under continuous light conditions at 22°C. All samples were treated with gamma-butyrolactone (MB3, CAS No. 778649-18-6, ab141255, Abcam) (CHEBI: 42639) 100 micromolar was applied 24 h before cutting by transferring the nylon mesh to MB3-containing MS plates. Root samples were ground to a fine powder using a multi-beads shocker (MB1200, Yasui Kikai) and the nuclear fraction was isolated after cross linking with 1% formaldehyde for 10 min. Chromatin was sheared at 4–6°C for 15 min with a focused ultrasonicator (Covaris) with the following settings: duty cycle 5%, intensity 4, and cycles per burst 200. Chromatin was immunoprecipitated using antibodies against H3 (ab1791; Abcam), H3K27me3 (07-449; Millipore), H3K4me3 (ab8580; Abcam), H3K9/14ac (06-599, Millipore) and H3K27ac (ab4729, Abcam). DNA was extracted with phenol-chlorophorm (1:1), precipitated with ethanol and dissolved in TE. Libraries were prepared using the KAPA Hyper Prep Kit for Illumina (KK8502, KAPA Biosystems) and Illumina compatible adaptors (E7335, E7500, E7710, E7730, NEB). NextSeq 500 Experimental Factor: immunoprecipitate H3K27me3 Experimental Factor: injury root wounding Experimental Factor: time 3 ERX3510585 E-MTAB-8265:MB3_H3K27me3_6h_s ERP116942 PRJEB34088 The effect of γ-butyrolactone (MB3) treatment on the chromatin landscape after wounding of Arabidopsis thaliana roots ERS3670858 SAMEA5882398 MB3_H3K27me3_6h_s ChIP-Seq GENOMIC ChIP Samples were taken from roots of 7 days old plants in triplicates. To apply wound stress, roots were cut into 3 mm explants and harvested at 0, 3 and 6 h after wounding. Plants were aligned on Murashige-Skoog (MS) media containing 1% sucrose and 0.6% (w/v) gelzan, overlaid with a nylon mesh (Sefar) and grown for 7 days under continuous light conditions at 22°C. All samples were treated with gamma-butyrolactone (MB3, CAS No. 778649-18-6, ab141255, Abcam) (CHEBI: 42639) 100 micromolar was applied 24 h before cutting by transferring the nylon mesh to MB3-containing MS plates. Root samples were ground to a fine powder using a multi-beads shocker (MB1200, Yasui Kikai) and the nuclear fraction was isolated after cross linking with 1% formaldehyde for 10 min. Chromatin was sheared at 4–6°C for 15 min with a focused ultrasonicator (Covaris) with the following settings: duty cycle 5%, intensity 4, and cycles per burst 200. Chromatin was immunoprecipitated using antibodies against H3 (ab1791; Abcam), H3K27me3 (07-449; Millipore), H3K4me3 (ab8580; Abcam), H3K9/14ac (06-599, Millipore) and H3K27ac (ab4729, Abcam). DNA was extracted with phenol-chlorophorm (1:1), precipitated with ethanol and dissolved in TE. Libraries were prepared using the KAPA Hyper Prep Kit for Illumina (KK8502, KAPA Biosystems) and Illumina compatible adaptors (E7335, E7500, E7710, E7730, NEB). NextSeq 500 Experimental Factor: immunoprecipitate H3K27me3 Experimental Factor: injury root wounding Experimental Factor: time 6 ERX3510586 E-MTAB-8265:MB3_H3K4me3_3h_s ERP116942 PRJEB34088 The effect of γ-butyrolactone (MB3) treatment on the chromatin landscape after wounding of Arabidopsis thaliana roots ERS3670859 SAMEA5882399 MB3_H3K4me3_3h_s ChIP-Seq GENOMIC ChIP Samples were taken from roots of 7 days old plants in triplicates. To apply wound stress, roots were cut into 3 mm explants and harvested at 0, 3 and 6 h after wounding. Plants were aligned on Murashige-Skoog (MS) media containing 1% sucrose and 0.6% (w/v) gelzan, overlaid with a nylon mesh (Sefar) and grown for 7 days under continuous light conditions at 22°C. All samples were treated with gamma-butyrolactone (MB3, CAS No. 778649-18-6, ab141255, Abcam) (CHEBI: 42639) 100 micromolar was applied 24 h before cutting by transferring the nylon mesh to MB3-containing MS plates. Root samples were ground to a fine powder using a multi-beads shocker (MB1200, Yasui Kikai) and the nuclear fraction was isolated after cross linking with 1% formaldehyde for 10 min. Chromatin was sheared at 4–6°C for 15 min with a focused ultrasonicator (Covaris) with the following settings: duty cycle 5%, intensity 4, and cycles per burst 200. Chromatin was immunoprecipitated using antibodies against H3 (ab1791; Abcam), H3K27me3 (07-449; Millipore), H3K4me3 (ab8580; Abcam), H3K9/14ac (06-599, Millipore) and H3K27ac (ab4729, Abcam). DNA was extracted with phenol-chlorophorm (1:1), precipitated with ethanol and dissolved in TE. Libraries were prepared using the KAPA Hyper Prep Kit for Illumina (KK8502, KAPA Biosystems) and Illumina compatible adaptors (E7335, E7500, E7710, E7730, NEB). NextSeq 500 Experimental Factor: immunoprecipitate H3K4me3 Experimental Factor: injury root wounding Experimental Factor: time 3 ERX3510587 E-MTAB-8265:MB3_H3K4me3_6h_s ERP116942 PRJEB34088 The effect of γ-butyrolactone (MB3) treatment on the chromatin landscape after wounding of Arabidopsis thaliana roots ERS3670860 SAMEA5882400 MB3_H3K4me3_6h_s ChIP-Seq GENOMIC ChIP Samples were taken from roots of 7 days old plants in triplicates. To apply wound stress, roots were cut into 3 mm explants and harvested at 0, 3 and 6 h after wounding. Plants were aligned on Murashige-Skoog (MS) media containing 1% sucrose and 0.6% (w/v) gelzan, overlaid with a nylon mesh (Sefar) and grown for 7 days under continuous light conditions at 22°C. All samples were treated with gamma-butyrolactone (MB3, CAS No. 778649-18-6, ab141255, Abcam) (CHEBI: 42639) 100 micromolar was applied 24 h before cutting by transferring the nylon mesh to MB3-containing MS plates. Root samples were ground to a fine powder using a multi-beads shocker (MB1200, Yasui Kikai) and the nuclear fraction was isolated after cross linking with 1% formaldehyde for 10 min. Chromatin was sheared at 4–6°C for 15 min with a focused ultrasonicator (Covaris) with the following settings: duty cycle 5%, intensity 4, and cycles per burst 200. Chromatin was immunoprecipitated using antibodies against H3 (ab1791; Abcam), H3K27me3 (07-449; Millipore), H3K4me3 (ab8580; Abcam), H3K9/14ac (06-599, Millipore) and H3K27ac (ab4729, Abcam). DNA was extracted with phenol-chlorophorm (1:1), precipitated with ethanol and dissolved in TE. Libraries were prepared using the KAPA Hyper Prep Kit for Illumina (KK8502, KAPA Biosystems) and Illumina compatible adaptors (E7335, E7500, E7710, E7730, NEB). NextSeq 500 Experimental Factor: immunoprecipitate H3K4me3 Experimental Factor: injury root wounding Experimental Factor: time 6 ERX3510588 E-MTAB-8265:MB3_H3K9/14ac_3h_s ERP116942 PRJEB34088 The effect of γ-butyrolactone (MB3) treatment on the chromatin landscape after wounding of Arabidopsis thaliana roots ERS3670861 SAMEA5882401 MB3_H3K9/14ac_3h_s ChIP-Seq GENOMIC ChIP Samples were taken from roots of 7 days old plants in triplicates. To apply wound stress, roots were cut into 3 mm explants and harvested at 0, 3 and 6 h after wounding. Plants were aligned on Murashige-Skoog (MS) media containing 1% sucrose and 0.6% (w/v) gelzan, overlaid with a nylon mesh (Sefar) and grown for 7 days under continuous light conditions at 22°C. All samples were treated with gamma-butyrolactone (MB3, CAS No. 778649-18-6, ab141255, Abcam) (CHEBI: 42639) 100 micromolar was applied 24 h before cutting by transferring the nylon mesh to MB3-containing MS plates. Root samples were ground to a fine powder using a multi-beads shocker (MB1200, Yasui Kikai) and the nuclear fraction was isolated after cross linking with 1% formaldehyde for 10 min. Chromatin was sheared at 4–6°C for 15 min with a focused ultrasonicator (Covaris) with the following settings: duty cycle 5%, intensity 4, and cycles per burst 200. Chromatin was immunoprecipitated using antibodies against H3 (ab1791; Abcam), H3K27me3 (07-449; Millipore), H3K4me3 (ab8580; Abcam), H3K9/14ac (06-599, Millipore) and H3K27ac (ab4729, Abcam). DNA was extracted with phenol-chlorophorm (1:1), precipitated with ethanol and dissolved in TE. Libraries were prepared using the KAPA Hyper Prep Kit for Illumina (KK8502, KAPA Biosystems) and Illumina compatible adaptors (E7335, E7500, E7710, E7730, NEB). NextSeq 500 Experimental Factor: immunoprecipitate H3K9/14ac Experimental Factor: injury root wounding Experimental Factor: time 3 ERX3510589 E-MTAB-8265:MB3_H3K9/14ac_6h_s ERP116942 PRJEB34088 The effect of γ-butyrolactone (MB3) treatment on the chromatin landscape after wounding of Arabidopsis thaliana roots ERS3670862 SAMEA5882402 MB3_H3K9/14ac_6h_s ChIP-Seq GENOMIC ChIP Samples were taken from roots of 7 days old plants in triplicates. To apply wound stress, roots were cut into 3 mm explants and harvested at 0, 3 and 6 h after wounding. Plants were aligned on Murashige-Skoog (MS) media containing 1% sucrose and 0.6% (w/v) gelzan, overlaid with a nylon mesh (Sefar) and grown for 7 days under continuous light conditions at 22°C. All samples were treated with gamma-butyrolactone (MB3, CAS No. 778649-18-6, ab141255, Abcam) (CHEBI: 42639) 100 micromolar was applied 24 h before cutting by transferring the nylon mesh to MB3-containing MS plates. Root samples were ground to a fine powder using a multi-beads shocker (MB1200, Yasui Kikai) and the nuclear fraction was isolated after cross linking with 1% formaldehyde for 10 min. Chromatin was sheared at 4–6°C for 15 min with a focused ultrasonicator (Covaris) with the following settings: duty cycle 5%, intensity 4, and cycles per burst 200. Chromatin was immunoprecipitated using antibodies against H3 (ab1791; Abcam), H3K27me3 (07-449; Millipore), H3K4me3 (ab8580; Abcam), H3K9/14ac (06-599, Millipore) and H3K27ac (ab4729, Abcam). DNA was extracted with phenol-chlorophorm (1:1), precipitated with ethanol and dissolved in TE. Libraries were prepared using the KAPA Hyper Prep Kit for Illumina (KK8502, KAPA Biosystems) and Illumina compatible adaptors (E7335, E7500, E7710, E7730, NEB). NextSeq 500 Experimental Factor: immunoprecipitate H3K9/14ac Experimental Factor: injury root wounding Experimental Factor: time 6