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Lineage Tracing in Humans Enabled by Mitochondrial Mutations and Single-Cell Genomics

Ludwig, Leif S., Lareau, Caleb A., Ulirsch, Jacob C., Christian, Elena, Muus, Christoph, Li, Lauren H., Pelka, Karin, Ge, Will, Oren, Yaara, Brack, Alison, Law, Travis, Rodman, Christopher, Chen, Jonathan H., Boland, Genevieve M., Hacohen, Nir, Rozenblatt-Rosen, Orit, Aryee, Martin J., Buenrostro, Jason D., Regev, Aviv, Sankaran, Vijay G.·2019·Cell
DOI 10.1016/j.cell.2019.01.022PMC PMC6408267
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  1. Alemany, 2018, Whole-organism clone tracing using single-cell sequencing, Nature, 556, 108, 10.1038/nature25969 · DOI
  2. Bar-Yaacov, 2013, RNA-DNA differences in human mitochondria restore ancestral form of 16S ribosomal RNA, Genome Res., 23, 1789, 10.1101/gr.161265.113 · DOI
  3. Biasco, 2016, In vivo tracking of human hematopoiesis reveals patterns of clonal dynamics during early and steady-state reconstitution phases, Cell Stem Cell, 19, 107, 10.1016/j.stem.2016.04.016 · DOI · Paper page
  4. Biezuner, 2016, A generic, cost-effective, and scalable cell lineage analysis platform, Genome Res., 26, 1588, 10.1101/gr.202903.115 · DOI
  5. Buenrostro, 2015, Single-cell chromatin accessibility reveals principles of regulatory variation, Nature, 523, 486, 10.1038/nature14590 · DOI · Paper page
  6. Buenrostro, 2018, Integrated single-cell analysis maps the continuous regulatory landscape of human hematopoietic differentiation, Cell, 173, 1535, 10.1016/j.cell.2018.03.074 · DOI · Paper page
  7. Caicedo, 2015, MitoCeption as a new tool to assess the effects of mesenchymal stem/stromal cell mitochondria on cancer cell metabolism and function, Sci. Rep., 5, 9073, 10.1038/srep09073 · DOI
  8. Chu, 2017, Ultraaccurate genome sequencing and haplotyping of single human cells, Proc. Natl. Acad. Sci. USA, 114, 12512, 10.1073/pnas.1707609114 · DOI
  9. Corces, 2017, An improved ATAC-seq protocol reduces background and enables interrogation of frozen tissues, Nat. Methods, 14, 959, 10.1038/nmeth.4396 · DOI · Paper page
  10. Dalerba, 2011, Single-cell dissection of transcriptional heterogeneity in human colon tumors, Nat. Biotechnol., 29, 1120, 10.1038/nbt.2038 · DOI
  11. Filbin, 2018, Developmental and oncogenic programs in H3K27M gliomas dissected by single-cell RNA-seq, Science, 360, 331, 10.1126/science.aao4750 · DOI
  12. Gao, 2016, PDIA6 promotes the proliferation of HeLa cells through activating the Wnt/β-catenin signaling pathway, Oncotarget, 7, 53289, 10.18632/oncotarget.10795 · DOI
  13. Griessinger, 2017, Mitochondrial transfer in the leukemia microenvironment, Trends Cancer, 3, 828, 10.1016/j.trecan.2017.10.003 · DOI
  14. Gu, 2016, Complex heatmaps reveal patterns and correlations in multidimensional genomic data, Bioinformatics, 32, 2847, 10.1093/bioinformatics/btw313 · DOI
  15. Ju, 2014, Origins and functional consequences of somatic mitochondrial DNA mutations in human cancer, eLife, 3, e02935, 10.7554/eLife.02935 · DOI · Paper page
  16. Ju, 2017, Somatic mutations reveal asymmetric cellular dynamics in the early human embryo, Nature, 543, 714, 10.1038/nature21703 · DOI
  17. Kang, 2016, Age-related accumulation of somatic mitochondrial DNA mutations in adult-derived human iPSCs, Cell Stem Cell, 18, 625, 10.1016/j.stem.2016.02.005 · DOI
  18. Kiselev, 2017, SC3: consensus clustering of single-cell RNA-seq data, Nat. Methods, 14, 483, 10.1038/nmeth.4236 · DOI · Paper page
  19. Langmead, 2012, Fast gapped-read alignment with Bowtie 2, Nat. Methods, 9, 357, 10.1038/nmeth.1923 · DOI · Paper page
  20. Law, 2014, voom: precision weights unlock linear model analysis tools for RNA-seq read counts, Genome Biol., 15, R29, 10.1186/gb-2014-15-2-r29 · DOI · Paper page
  21. Li, 2011, Improving SNP discovery by base alignment quality, Bioinformatics, 27, 1157, 10.1093/bioinformatics/btr076 · DOI
  22. Li, 2014, Somatic point mutations occurring early in development: a monozygotic twin study, J. Med. Genet., 51, 28, 10.1136/jmedgenet-2013-101712 · DOI
  23. Li, 2015, Extensive tissue-related and allele-related mtDNA heteroplasmy suggests positive selection for somatic mutations, Proc. Natl. Acad. Sci. USA, 112, 2491, 10.1073/pnas.1419651112 · DOI
  24. Macaulay, 2015, G&T-seq: parallel sequencing of single-cell genomes and transcriptomes, Nat. Methods, 12, 519, 10.1038/nmeth.3370 · DOI · Paper page
  25. Marlein, 2017, NADPH oxidase-2 derived superoxide drives mitochondrial transfer from bone marrow stromal cells to leukemic blasts, Blood, 130, 1649, 10.1182/blood-2017-03-772939 · DOI
  26. McKenna, 2016, Whole-organism lineage tracing by combinatorial and cumulative genome editing, Science, 353, aaf7907, 10.1126/science.aaf7907 · DOI · Paper page
  27. Montoro, 2018, A revised airway epithelial hierarchy includes CFTR-expressing ionocytes, Nature, 560, 319, 10.1038/s41586-018-0393-7 · DOI · Paper page
  28. Moschoi, 2016, Protective mitochondrial transfer from bone marrow stromal cells to acute myeloid leukemic cells during chemotherapy, Blood, 128, 253, 10.1182/blood-2015-07-655860 · DOI
  29. Newman, 2015, Robust enumeration of cell subsets from tissue expression profiles, Nat. Methods, 12, 453, 10.1038/nmeth.3337 · DOI · Paper page
  30. Ni, 2015, MitoRCA-seq reveals unbalanced cytocine to thymine transition in Polg mutant mice, Sci. Rep., 5, 12049, 10.1038/srep12049 · DOI
  31. Picelli, 2014, Full-length RNA-seq from single cells using Smart-seq2, Nat. Protoc., 9, 171, 10.1038/nprot.2014.006 · DOI · Paper page
  32. Raj, 2018, Simultaneous single-cell profiling of lineages and cell types in the vertebrate brain, Nat. Biotechnol., 36, 442, 10.1038/nbt.4103 · DOI
  33. Spanjaard, 2018, Simultaneous lineage tracing and cell-type identification using CRISPR-Cas9-induced genetic scars, Nat. Biotechnol., 36, 469, 10.1038/nbt.4124 · DOI · Paper page
  34. Stewart, 2015, The dynamics of mitochondrial DNA heteroplasmy: implications for human health and disease, Nat. Rev. Genet., 16, 530, 10.1038/nrg3966 · DOI
  35. Stubbington, 2016, T cell fate and clonality inference from single-cell transcriptomes, Nat. Methods, 13, 329, 10.1038/nmeth.3800 · DOI
  36. Sun, 2014, Clonal dynamics of native haematopoiesis, Nature, 514, 322, 10.1038/nature13824 · DOI · Paper page
  37. Tao, 2017, A duplex MIPs-based biological-computational cell lineage discovery platform, bioRxiv
  38. Teixeira, 2013, Stochastic homeostasis in human airway epithelium is achieved by neutral competition of basal cell progenitors, eLife, 2, e00966, 10.7554/eLife.00966 · DOI
  39. Venteicher, 2017, Decoupling genetics, lineages, and microenvironment in IDH-mutant gliomas by single-cell RNA-seq, Science, 355, eaai8478, 10.1126/science.aai8478 · DOI
  40. Wallace, 2013, Mitochondrial DNA genetics and the heteroplasmy conundrum in evolution and disease, Cold Spring Harb. Perspect. Biol., 5, a021220, 10.1101/cshperspect.a021220 · DOI
  41. Ye, 2014, Extensive pathogenicity of mitochondrial heteroplasmy in healthy human individuals, Proc. Natl. Acad. Sci. USA, 111, 10654, 10.1073/pnas.1403521111 · DOI
  42. Yu, 2016, Epigenetic memory underlies cell-autonomous heterogeneous behavior of hematopoietic stem cells, Cell, 167, 1310, 10.1016/j.cell.2016.10.045 · DOI
  43. Yuan, 2017, Comprehensive molecular characterization of mitochondrial genomes in human cancers, bioRxiv
  44. Zafar, 2017, SiFit: inferring tumor trees from single-cell sequencing data under finite-sites models, Genome Biol., 18, 178, 10.1186/s13059-017-1311-2 · DOI
  45. Zemmour, 2018, Single-cell gene expression reveals a landscape of regulatory T cell phenotypes shaped by the TCR, Nat. Immunol., 19, 291, 10.1038/s41590-018-0051-0 · DOI · Paper page
  46. Zheng, 2017, Landscape of infiltrating T cells in liver cancer revealed by single-cell sequencing, Cell, 169, 1342, 10.1016/j.cell.2017.05.035 · DOI · Paper page

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Metadata

Authors
Ludwig, L. S., Lareau, C. A., Ulirsch, J. C., Christian, E., Muus, C., Li, L. H., Pelka, K., Ge, W., Oren, Y., Brack, A., Law, T., Rodman, C., Chen, J. H., Boland, G. M., Hacohen, N., Rozenblatt-Rosen, O., Aryee, M. J., Buenrostro, J. D., Regev, A., & Sankaran, V. G.
Venue
Cell
Publisher
Elsevier BV
Published
2019-03
Volume
176
Issue
6
Pages
1325-1339.e22
ISSN
0092-8674
DOI
10.1016/j.cell.2019.01.022
PMC
PMC6408267
Cited by
567
References
22
Language
en
Licence
Funders
  • NIH (5T32 GM007226-43, R33 CA202820, R01 DK103794, R33 HL120791, R01 CA208756)
  • Broad Institute Fellows
  • Allen Institute (5T32CA207021-03)
  • German Research Foundation
  • Broad Institute SPARC
  • New York Stem Cell Foundation
  • Howard Hughes Medical Institute
  • Klarman Cell Observatory

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CoChat. (2026). Citation check: Lineage Tracing in Humans Enabled by Mitochondrial Mutations and Single-Cell Genomics. https://app.cochat.ai/papers/10.1016/j.cell.2019.01.022
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Ludwig, L. S., Lareau, C. A., Ulirsch, J. C., Christian, E., Muus, C., Li, L. H., Pelka, K., Ge, W., Oren, Y., Brack, A., Law, T., Rodman, C., Chen, J. H., Boland, G. M., Hacohen, N., Rozenblatt-Rosen, O., Aryee, M. J., Buenrostro, J. D., Regev, A., & Sankaran, V. G. (2019). Lineage Tracing in Humans Enabled by Mitochondrial Mutations and Single-Cell Genomics. Cell. https://doi.org/10.1016/j.cell.2019.01.022