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Long-range single-molecule mapping of chromatin accessibility in eukaryotes
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Abstract
Mapping open chromatin regions has emerged as a widely used tool for identifying active regulatory elements in eukaryotes. However, existing approaches, limited by reliance on DNA fragmentation and short-read sequencing, cannot provide information about large-scale chromatin states or reveal coordination between the states of distal regulatory elements. We have developed a method for profiling the accessibility of individual chromatin fibers, a single-molecule long-read accessible chromatin mapping sequencing assay (SMAC-seq), enabling the simultaneous, high-resolution, single-molecule assessment of chromatin states at multikilobase length scales. Our strategy is based on combining the preferential methylation of open chromatin regions by DNA methyltransferases with low sequence specificity, in this case EcoGII, an N 6-methyladenosine (m 6 A) methyltransferase, and the ability of nanopore sequencing to directly read DNA modifications. We demonstrate that aggregate SMAC-seq signals match bulk-level accessibility measurements, observe single-molecule nucleosome and transcription factor protection footprints, and quantify the correlation between chromatin states of distal genomic elements.
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“single-molecule footprinting methods that use methyltransferases to mark accessible sites11–15 can provide quantitative measurements of these binding states across individual molecules”
From Single-molecule states link transcription factor binding to gene expression (2024) · cites this paper as [14]
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Cites
Ultrafast and memory-efficient alignment of short DNA sequences to the human genome.
Langmead, B., Trapnell, C., Pop, M., & Salzberg, S. L. (2009) · Genome Biology · doi:10.1186/gb-2009-10-3-r25 · Cited by 21,849
Trapnell, C., Roberts, A., Goff, L. A., Pertea, G. M., Kim, D., Kelley, D. R., Pimentel, H., Salzberg, S. L., Rinn, J. L., & Pachter, L. S. (2012) · Nature Protocols · doi:10.1038/nprot.2012.016 · Cited by 12,145
MEME SUITE: tools for motif discovery and searching
Bailey, T. L., Boden, M., Buske, F. A., Frith, M., Grant, C. E., Clementi, L., Ren, J., Li, W. W., & Noble, W. S. (2009) · Nucleic Acids Research · doi:10.1093/nar/gkp335 · Cited by 10,648
Comprehensive Mapping of Long-Range Interactions Reveals Folding Principles of the Human Genome
Lieberman-Aiden, E., van Berkum, N. L., Williams, L., Imakaev, M., Ragoczy, T., Telling, A., Amit, I., Lajoie, B. R., Sabo, P. J., Dorschner, M. O., et al. (2009) · Science · doi:10.1126/science.1181369 · Cited by 8,898
Buenrostro, J. D., Giresi, P. G., Zaba, L. C., Chang, H. Y., & Greenleaf, W. J. (2013) · Nature Methods · doi:10.1038/nmeth.2688 · Cited by 6,422
Self-citationBismark: a flexible aligner and methylation caller for Bisulfite-Seq applications
Krueger, F., & Andrews, S. (2011) · Bioinformatics · doi:10.1093/bioinformatics/btr167 · Cited by 5,275
FIMO: scanning for occurrences of a given motif
Grant, C. E., Bailey, T. L., & Noble, W. S. (2011) · Bioinformatics · doi:10.1093/bioinformatics/btr064 · Cited by 4,247
An improved ATAC-seq protocol reduces background and enables interrogation of frozen tissues
Corces, M. R., Trevino, A. E., Hamilton, E. G., Greenside, P. G., Sinnott-Armstrong, N. A., Vesuna, S., Satpathy, A. T., Rubin, A. J., Montine, K. S., Wu, B., et al. (2017) · Nature Methods · doi:10.1038/nmeth.4396 · Cited by 2,496
Self-citationHighly Integrated Single-Base Resolution Maps of the Epigenome in Arabidopsis
Lister, R., O’Malley, R. C., Tonti‐Filippini, J., Gregory, B. D., Berry, C. C., Millar, A. H., & Ecker, J. R. (2008) · Cell · doi:10.1016/j.cell.2008.03.029 · Cited by 2,424
Identifying ChIP-seq enrichment using MACS
Feng, J., Liu, T., Qin, B., Zhang, Y., & Liu, X. S. (2012) · Nature Protocols · doi:10.1038/nprot.2012.101 · Cited by 1,848
Genome-Wide Evolutionary Analysis of Eukaryotic DNA Methylation
Zemach, A., McDaniel, I. E., Silva, P., & Zilberman, D. (2010) · Science · doi:10.1126/science.1186366 · Cited by 1,829
An oestrogen-receptor-α-bound human chromatin interactome
Fullwood, M. J., Liu, M. H., Pan, Y. F., Liu, J., Han, X., Mohamed, Y. B., Orlov, Y. L., Velkov, S., Ho, A., Poh, H. M., et al. (2009) · Nature · doi:10.1038/nature08497 · Cited by 1,752
Determination and Inference of Eukaryotic Transcription Factor Sequence Specificity
Weirauch, M. T., Yang, A. W. H., Albu, M., Coté, A. G., Montenegro‐Montero, A., Drewe, P., Najafabadi, H. S., Lambert, S. A., Mann, I. K., Cook, K. B., et al. (2014) · Cell · doi:10.1016/j.cell.2014.08.009 · Cited by 1,749
Minimap and miniasm: fast mapping and de novo assembly for noisy long sequences
Li, H. (2016) · Bioinformatics · doi:10.1093/bioinformatics/btw152 · Cited by 1,500
Dynamic Regulation of Nucleosome Positioning in the Human Genome
Schones, D. E., Cui, K., Cuddapah, S., Roh, T., Barski, A., Wang, Z., Wei, G., & Zhao, K. (2008) · Cell · doi:10.1016/j.cell.2008.02.022 · Cited by 1,473
High-Resolution Mapping and Characterization of Open Chromatin across the Genome
Boyle, A. P., Davis, S., Shulha, H. P., Meltzer, P., Margulies, E. H., Weng, Z., Furey, T. S., & Crawford, G. E. (2008) · Cell · doi:10.1016/j.cell.2007.12.014 · Cited by 1,415
Conservation and divergence of methylation patterning in plants and animals
Feng, S., Cokus, S. J., Zhang, X., Chen, P.-Y., Bostick, M., Goll, M. G., Hetzel, J., Jain, J., Strauss, S. H., Halpern, M. E., et al. (2010) · Proceedings of the National Academy of Sciences · doi:10.1073/pnas.1002720107 · Cited by 1,285
Detecting DNA cytosine methylation using nanopore sequencing
Simpson, J. T., Workman, R. E., Zuzarte, P. C., David, M., Dursi, L. J., & Timp, W. (2017) · Nature Methods · doi:10.1038/nmeth.4184 · Cited by 1,149
HiChIP: efficient and sensitive analysis of protein-directed genome architecture
Mumbach, M. R., Rubin, A. J., Flynn, R. A., Dai, C., Khavari, P. A., Greenleaf, W. J., & Chang, H. Y. (2016) · Nature Methods · doi:10.1038/nmeth.3999 · Cited by 1,139
Self-citationThe 5′ ends of Drosophila heat shock genes in chromatin are hypersensitive to DNase I
Wu, C. C. M. (1980) · Nature · doi:10.1038/286854a0 · Cited by 1,118
ChromEMT: Visualizing 3D chromatin structure and compaction in interphase and mitotic cells
Ou, H. D., Phan, S., Deerinck, T. J., Thor, A., Ellisman, M. H., & O’Shea, C. C. (2017) · Science · doi:10.1126/science.aag0025 · Cited by 879
Super-resolution imaging reveals distinct chromatin folding for different epigenetic states
Boettiger, A. N., Bintu, B., Moffitt, J. R., Wang, S., Beliveau, B. J., Fudenberg, G., Imakaev, M., Mirny, L. A., Wu, C.-T., & Zhuang, X. (2016) · Nature · doi:10.1038/nature16496 · Cited by 871
Mapping Nucleosome Resolution Chromosome Folding in Yeast by Micro-C
Hsieh, T.-H. S., Weiner, A., Lajoie, B., Dekker, J., Friedman, N., & Rando, O. J. (2015) · Cell · doi:10.1016/j.cell.2015.05.048 · Cited by 788 · cited 1×
“Analysis of Micro-C data 34 shows that significantly coaccessible promoters interact more frequently than non-coaccessible ones at a similar distance (Supplementary Fig.”
DNA Methylation on N6-Adenine in C. elegans
Greer, E. L., Blanco, M. A., Gu, L., Sendinc, E., Liu, J., Aristizábal-Corrales, D., Hsu, C.-H., Aravind, L., He, C., & Shi, Y. (2015) · Cell · doi:10.1016/j.cell.2015.04.005 · Cited by 725
The Response to Heat Shock and Oxidative Stress in Saccharomyces cerevisiae
Morano, K. A., Grant, C. M., & Moye-Rowley, S. (2011) · Genetics · doi:10.1534/genetics.111.128033 · Cited by 674
Global mapping of protein-DNA interactions in vivo by digital genomic footprinting
Hesselberth, J. R., Chen, X., Zhang, Z., Sabo, P. J., Sandstrom, R., Reynolds, A. P., Thurman, R. E., Neph, S., Kuehn, M. S., Noble, W. S., et al. (2009) · Nature Methods · doi:10.1038/nmeth.1313 · Cited by 559
N6-Methyldeoxyadenosine Marks Active Transcription Start Sites in Chlamydomonas
Fu, Y., Luo, G., Chen, K., Deng, X., Yu, M., Han, D., Hao, Z., Liu, J., Lu, X., Doré, L. C., et al. (2015) · Cell · doi:10.1016/j.cell.2015.04.010 · Cited by 533
Mapping DNA methylation with high-throughput nanopore sequencing
Rand, A. C., Jain, M., Eizenga, J. M., Musselman-Brown, A., Olsen, H. E., Akeson, M., & Paten, B. (2017) · Nature Methods · doi:10.1038/nmeth.4189 · Cited by 507
Extensive transcriptional heterogeneity revealed by isoform profiling
Pelechano, V., Wu, W., & Steinmetz, L. M. (2013) · Nature · doi:10.1038/nature12121 · Cited by 465
Genome-wide mapping of nucleosome positioning and DNA methylation within individual DNA molecules
Kelly, T. K., Liu, Y., Lay, F. D., Liang, G., Berman, B. P., & Jones, P. A. (2012) · Genome Research · doi:10.1101/gr.143008.112 · Cited by 455
A map of nucleosome positions in yeast at base-pair resolution
Brogaard, K., Xi, L., Wang, J.-P., & Widom, J. (2012) · Nature · doi:10.1038/nature11142 · Cited by 452
McGhee, J. D. (1981) · Cell · doi:10.1016/0092-8674(81)90359-7 · Cited by 432
Amplification-free whole-genome bisulfite sequencing by post-bisulfite adaptor tagging
Miura, F., Enomoto, Y., Dairiki, R., & Ito, T. (2012) · Nucleic Acids Research · doi:10.1093/nar/gks454 · Cited by 430
The APOBEC Protein Family: United by Structure, Divergent in Function
Salter, J. D., Bennett, R. P., & Smith, H. C. (2016) · Trends in Biochemical Sciences · doi:10.1016/j.tibs.2016.05.001 · Cited by 408
Fu, Y., Sinha, M., Peterson, C. L., & Weng, Z. (2008) · PLoS Genetics · doi:10.1371/journal.pgen.1000138 · Cited by 394
Two different chromatin structures coexist in ribosomal RNA genes throughout the cell cycle
Conconi, A., Widmer, R. M., Koller, T., & Sogo, J. (1989) · Cell · doi:10.1016/0092-8674(89)90790-3 · Cited by 390
Schep, A. N., Buenrostro, J. D., Denny, S. K., Schwartz, K., Sherlock, G., & Greenleaf, W. J. (2015) · Genome Research · doi:10.1101/gr.192294.115 · Cited by 375
Self-citationGene loops juxtapose promoters and terminators in yeast
O'Sullivan, J. M., Tan‐Wong, S. M., Morillon, A., Lee, B., Coles, J., Mellor, J., & Proudfoot, N. J. (2004) · Nature Genetics · doi:10.1038/ng1411 · Cited by 357
The interaction landscape between transcription factors and the nucleosome
Zhu, F., Farnung, L., Kaasinen, E., Sahu, B., Yin, Y., Wei, B., Dodonova, S., Nitta, K. R., Morgunova, E. Y., Taipale, M., et al. (2018) · Nature · doi:10.1038/s41586-018-0549-5 · Cited by 348
French, S. L., Osheim, Y. N., Cioci, F., Nomura, M., & Beyer, A. L. (2003) · Molecular and Cellular Biology · doi:10.1128/mcb.23.5.1558-1568.2003 · Cited by 321
Genome-scale mapping of DNase I sensitivity in vivo using tiling DNA microarrays
Sabo, P. J., Kuehn, M. S., Thurman, R. E., Johnson, B., Johnson, E. M., Cao, H., Yu, M., Rosenzweig, E., Goldy, J., Haydock, A. K., et al. (2006) · Nature Methods · doi:10.1038/nmeth890 · Cited by 314
De novo Identification of DNA Modifications Enabled by Genome-Guided Nanopore Signal ProcessingPreprint
Stoiber, M. H., Quick, J., Egan, R. S., Lee, J. E., Celniker, S., Neely, R. K., Loman, N. J., Pennacchio, L. A., & Brown, J. B. (2016) · bioRxiv (Cold Spring Harbor Laboratory) · doi:10.1101/094672 · Cited by 276
DNA N-Adenine Methylation in Arabidopsis thaliana
Liang, Z., Shen, L., Cui, X., Bao, S., Geng, Y., Yu, G., Liang, F., Xie, S. B., Lu, T., Gu, X., et al. (2018) · Developmental Cell · doi:10.1016/j.devcel.2018.03.012 · Cited by 258
Genome-wide Single-Molecule Footprinting Reveals High RNA Polymerase II Turnover at Paused Promoters
Krebs, A. R., Imanci, D., Hoerner, L., Gaidatzis, D., Burger, L., & Schübeler, D. (2017) · Molecular Cell · doi:10.1016/j.molcel.2017.06.027 · Cited by 249
Gene Loops Enhance Transcriptional Directionality
Tan‐Wong, S. M., Zaugg, J. B., Camblong, J., Xu, Z., Zhang, D. W., Mischo, H. E., Ansari, A. Z., Luscombe, N. M., Steinmetz, L. M., & Proudfoot, N. J. (2012) · Science · doi:10.1126/science.1224350 · Cited by 241
Huang, J., & Moazed, D. (2003) · Genes & Development · doi:10.1101/gad.1108403 · Cited by 232
Keene, M. A., Corces, V. G., Lowenhaupt, K., & Elgin, S. C. R. (1981) · Proceedings of the National Academy of Sciences · doi:10.1073/pnas.78.1.143 · Cited by 214
High-Resolution Chromatin Dynamics during a Yeast Stress Response
Weiner, A., Hsieh, T.-H. S., Chappleboim, A., Chen, H. V., Rahat, A., Amit, I., Rando, O. J., & Friedman, N. (2015) · Molecular Cell · doi:10.1016/j.molcel.2015.02.002 · Cited by 212
Merz, K., Hondele, M., Goetze, H., Gmelch, K., Stöckl, U., & Griesenbeck, J. (2008) · Genes & Development · doi:10.1101/gad.466908 · Cited by 173
Hu, B., Petela, N. J., Kurze, A., Chan, K., Chapard, C., & Nasmyth, K. (2015) · Nucleic Acids Research · doi:10.1093/nar/gkv670 · Cited by 162
Variable chromatin structure revealed by in situ spatially correlated DNA cleavage mapping
Risca, V. I., Denny, S. K., Straight, A. F., & Greenleaf, W. J. (2016) · Nature · doi:10.1038/nature20781 · Cited by 162
Self-citationPrecise genome-wide mapping of single nucleosomes and linkers in vivo
Chereji, R. V., Ramachandran, S., Bryson, T. D., & Henikoff, S. (2018) · Genome biology · doi:10.1186/s13059-018-1398-0 · Cited by 160
High-throughput localization of functional elements by quantitative chromatin profiling
Dorschner, M. O., Hawrylycz, M., Humbert, R., Wallace, J. C., Shafer, A., Kawamoto, J., Mack, J., Hall, R., Goldy, J., Sabo, P. J., et al. (2004) · Nature Methods · doi:10.1038/nmeth721 · Cited by 133
Wang, Y., Chen, X., Sheng, Y., Liu, Y., & Gao, S. (2017) · Nucleic Acids Research · doi:10.1093/nar/gkx883 · Cited by 127
Gabrieli, T., Sharim, H., Fridman, D., Arbib, N., Michaeli, Y., & Ebenstein, Y. (2018) · Nucleic Acids Research · doi:10.1093/nar/gky411 · Cited by 123
Timinskas, A., Butkus, V., & Janulaitis, A. (1995) · Gene · doi:10.1016/0378-1119(94)00783-o · Cited by 106
Asymmetric nucleosomes flank promoters in the budding yeast genomePreprint
Ramachandran, S., Zentner, G. E., & Henikoff, S. (2014) · Genome Research · doi:10.1101/gr.182618.114 · Cited by 96
Henikoff, S., Ramachandran, S., Krassovsky, K., Bryson, T. D., Codomo, C. A., Brogaard, K., Widom, J., Wang, J.-P., & Henikoff, J. G. (2014) · eLife · doi:10.7554/elife.01861 · Cited by 88
The centromeric nucleosome of budding yeast is perfectly positioned and covers the entire centromere
Cole, H. A., Howard, B. H., & Clark, D. J. (2011) · Proceedings of the National Academy of Sciences · doi:10.1073/pnas.1104978108 · Cited by 83
Genome-wide measurement of local nucleosome array regularity and spacing by nanopore sequencing
Baldi, S., Krebs, S., Blum, H., & Becker, P. B. (2018) · Nature Structural & Molecular Biology · doi:10.1038/s41594-018-0110-0 · Cited by 74
RNA polymerase I in yeast transcribes dynamic nucleosomal rDNA
Jones, H. S., Kawauchi, J., Braglia, P., Amaro, C. A., Kent, N. A., & Proudfoot, N. J. (2007) · Nature Structural & Molecular Biology · doi:10.1038/nsmb1199 · Cited by 73
N6-methyldeoxyadenosine directs nucleosome positioning in Tetrahymena DNA
Luo, G., Hao, Z., Luo, L., Shen, M., Sparvoli, D., Zheng, Y., Zhang, Z. S., Weng, X., Chen, K., Cui, Q., et al. (2018) · Genome biology · doi:10.1186/s13059-018-1573-3 · Cited by 62
Genome-wide mapping of 5-hydroxymethyluracil in the eukaryote parasite Leishmania
Kawasaki, F., Beraldi, D., Hardisty, R. E., McInroy, G. R., van Delft, P., & Balasubramanian, S. (2017) · Genome biology · doi:10.1186/s13059-017-1150-1 · Cited by 59
Nabilsi, N. H., Deleyrolle, L. P., Darst, R. P., Riva, A., Reynolds, B. A., & Kladde, M. P. (2013) · Genome Research · doi:10.1101/gr.161737.113 · Cited by 53
The non-specific adenine DNA methyltransferase M.EcoGII
Murray, I. A., Morgan, R., Luyten, Y. A., Fomenkov, A. I., Junior, I. R. C., Dai, N., Allaw, M. B., Zhang, X., Cheng, X., & Roberts, R. J. (2017) · Nucleic Acids Research · doi:10.1093/nar/gkx1191 · Cited by 49
Goetze, H., Wittner, M., Hamperl, S., Hondele, M., Merz, K., Stöckl, U., & Griesenbeck, J. (2010) · Molecular and Cellular Biology · doi:10.1128/mcb.01512-09 · Cited by 44
Yeast HMO1: Linker Histone Reinvented
Panday, A., & Grove, A. (2016) · Microbiology and Molecular Biology Reviews · doi:10.1128/mmbr.00037-16 · Cited by 42
Staševskij, Z., Gibas, P., Gordevičius, J., Kriukienė, E., & Klimašauskas, S. (2017) · Molecular Cell · doi:10.1016/j.molcel.2016.12.012 · Cited by 34
The current status of liver transplantation.
Calne, R. Y. (1986) · PubMed · Cited by 23
Effect of Seizures on Brain Phenobarbital Concentration in Newborn Piglets
Monin, P., Clozel, M., Morselli, P. L., Dubruc, C., & Vert, P. (1987) · Epilepsia · doi:10.1111/j.1528-1157.1987.tb03644.x · Cited by 14
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Epigenetic patterns in a complete human genome
Gershman, A., Sauria, M. E. G., Guitart, X., Vollger, M. R., Hook, P. W., Hoyt, S. J., Jain, M., Shumate, A., Razaghi, R., Koren, S., et al. (2022) · Science · doi:10.1126/science.abj5089 · Cited by 297
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Lee, I., Razaghi, R., Gilpatrick, T., Molnar, M. M., Gershman, A., Sadowski, N., Sedlazeck, F. J., Hansen, K. D., Simpson, J. T., & Timp, W. (2020) · Nature Methods · doi:10.1038/s41592-020-01000-7 · Cited by 219
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Minnoye, L., Marinov, G. K., Krausgruber, T., Pan, L., Marand, A. P., Secchia, S., Greenleaf, W. J., Furlong, E. E. M., Zhao, K., Schmitz, R. J., et al. (2021) · Nature Reviews Methods Primers · doi:10.1038/s43586-020-00008-9 · Cited by 206
Self-citation
Metadata
- Authors
- Shipony, Z., Marinov, G. K., Swaffer, M. P., Sinnott-Armstrong, N. A., Skotheim, J. M., Kundaje, A., & Greenleaf, W. J.
- Affiliations
- Stanford University (US)
- Chan Zuckerberg Biohub San Francisco (US)
- Corresponding author
- Greenleaf, William J.
- ORCID
- Venue
- Nature Methods
- Published
- 2020-02-10
- Volume
- 17
- Issue
- 3
- Pages
- 319-327
- ISSN
- 1548-7091 (ISSN-L)
- 1548-7105
- PMC
- PMC7968351
- OpenAlex
- W3004849394
- Cited by
- 160
- References
- 70
- Citations by year
- 2026: 20 · 2025: 23 · 2024: 34 · 2023: 29 · 2022: 18 · 2021: 24 · 2020: 10
- FWCI
- 6.73
- Type
- journal article
- Language
- en
- Open access
- green
- doi.org
- Licence
- Locations
- Nature Methods (publishedVersion)
- bioRxiv (Cold Spring Harbor Laboratory) (acceptedVersion, cc-by-nd)
- PubMed (publishedVersion)
- PubMed Central (acceptedVersion)
- Funders
- U.S. Department of Health & Human Services | NIH | National Human Genome Research Institute (P50HG007735, 1R01HG008140-01A1, 1UM1HG009442, 1UM1HG009436, 1U01HG009431)
- Division of Intramural Research, National Institute of Allergy and Infectious Diseases (U19AI057266)
- Human Frontier Science Program (RGY006S, LT 000835/2017)
- European Molecular Biology Organization (1119-2016)
- SU | School of Medicine, Stanford University
- Topics
- Life Sciences › Biochemistry, Genetics and Molecular Biology › Molecular Biology › Genomics and Chromatin Dynamics
- Life Sciences › Biochemistry, Genetics and Molecular Biology › Molecular Biology › Epigenetics and DNA Methylation
- Life Sciences › Biochemistry, Genetics and Molecular Biology › Molecular Biology › Chromatin Remodeling and Cancer
- Keywords
- chromatin accessibility, open chromatin, single-molecule long-read sequencing, nanopore sequencing, DNA methylation, N6-methyladenosine, nucleosome positioning, transcription factor binding, distal regulatory elements
- MeSH terms
- Adenosine, Cell Line, Chromatin, Humans, Methylation, Methyltransferases, Nucleosomes, Promoter Regions, Genetic, Protein Binding, Saccharomyces cerevisiae, CpG Islands, DNA Methylation, Chromatin Immunoprecipitation, DNA Fragmentation, High-Throughput Nucleotide Sequencing
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