Applications of Single-Cell DNA Sequencing

被引：60

作者：

Evrony, Gilad D. ^{[1
]}

Hinch, Anjali Gupta ^{[2
]}

Luo, Chongyuan ^{[3
]}

机构：

[1] NYU, Grossman Sch Med, Ctr Human Genet & Genom, 550 1St Ave, New York, NY 10016 USA

[2] Univ Oxford, Wellcome Ctr Human Genet, Oxford OX3 7BN, England

[3] Univ Calif Los Angeles, Dept Human Genet, Los Angeles, CA 90095 USA

来源：

ANNUAL REVIEW OF GENOMICS AND HUMAN GENETICS, VOL 22, 2021 | 2021年 / 22卷

基金：

英国惠康基金; 美国国家卫生研究院;

关键词：

single-cell DNA sequencing; single-cell genomics; lineage tracing; germ cells; organismal development; DNA modifications; COPY-NUMBER VARIATION; CIRCULATING TUMOR-CELLS; SOMATIC MUTATION; CHROMOSOME SEGREGATION; MEIOTIC RECOMBINATION; GENOME ARCHITECTURE; PRENATAL-DIAGNOSIS; LINEAGE ANALYSIS; HUMAN EMBRYOS; IN-SITU;

D O I：

10.1146/annurev-genom-111320-090436

中图分类号：

Q3 [遗传学];

学科分类号：

071007 ; 090102 ;

摘要：

Over the past decade, genomic analyses of single cells-the fundamental units of life-have become possible. Single-cell DNA sequencing has shed light on biological questions that were previously inaccessible across diverse fields of research, including somatic mutagenesis, organismal development, genome function, and microbiology. Single-cell DNA sequencing also promises significant future biomedical and clinical impact, spanning oncology, fertility, and beyond. While single-cell approaches that profile RNA and protein have greatly expanded our understanding of cellular diversity, many fundamental questions in biology and important biomedical applications require analysis of the DNA of single cells. Here, we review the applications and biological questions for which single-cell DNA sequencing is uniquely suited or required. We include a discussion of the fields that will be impacted by single-cell DNA sequencing as the technology continues to advance.

引用

页码：171 / 197

页数：27

共 189 条

[1]

Abate A., 2020, PREPRINT, DOI [10.1101/2020.02.26.967133, DOI 10.1101/2020.02.26.967133]

[2] Cell Lineage Tracing and Cellular Diversity in Humans [J].

Abyzov, Alexej ;

Vaccarino, Flora M. .

ANNUAL REVIEW OF GENOMICS AND HUMAN GENETICS, VOL 21, 2020, 2020, 21 :101-116

[3] Whole-organism clone tracing using single-cell sequencing [J].

Alemany, Anna ;

Florescu, Maria ;

Baron, Chloe S. ;

Peterson-Maduro, Josi ;

van Oudenaarden, Alexander .

NATURE, 2018, 556 (7699) :108-+

[4] Clock-like mutational processes in human somatic cells [J].

Alexandrov, Ludmil B. ;

Jones, Philip H. ;

Wedge, David C. ;

Sale, Julian E. ;

Campbell, Peter J. ;

Nik-Zainal, Serena ;

Stratton, Michael R. .

NATURE GENETICS, 2015, 47 (12) :1402-+

[5] A map of human genome variation from population-scale sequencing [J].

Altshuler, David ;

Durbin, Richard M. ;

Abecasis, Goncalo R. ;

Bentley, David R. ;

Chakravarti, Aravinda ;

Clark, Andrew G. ;

Collins, Francis S. ;

De la Vega, Francisco M. ;

Donnelly, Peter ;

Egholm, Michael ;

Flicek, Paul ;

Gabriel, Stacey B. ;

Gibbs, Richard A. ;

Knoppers, Bartha M. ;

Lander, Eric S. ;

Lehrach, Hans ;

Mardis, Elaine R. ;

McVean, Gil A. ;

Nickerson, DebbieA. ;

Peltonen, Leena ;

Schafer, Alan J. ;

Sherry, Stephen T. ;

Wang, Jun ;

Wilson, Richard K. ;

Gibbs, Richard A. ;

Deiros, David ;

Metzker, Mike ;

Muzny, Donna ;

Reid, Jeff ;

Wheeler, David ;

Wang, Jun ;

Li, Jingxiang ;

Jian, Min ;

Li, Guoqing ;

Li, Ruiqiang ;

Liang, Huiqing ;

Tian, Geng ;

Wang, Bo ;

Wang, Jian ;

Wang, Wei ;

Yang, Huanming ;

Zhang, Xiuqing ;

Zheng, Huisong ;

Lander, Eric S. ;

Altshuler, David L. ;

Ambrogio, Lauren ;

Bloom, Toby ;

Cibulskis, Kristian ;

Fennell, Tim J. ;

Gabriel, Stacey B. .

NATURE, 2010, 467 (7319) :1061-1073

[6] Multi-omics profiling of mouse gastrulation at single-cell resolution [J].

Argelaguet, Ricard ;

Clark, Stephen J. ;

Mohammed, Hisham ;

Stapel, L. Carine ;

Krueger, Christel ;

Kapourani, Chantriolnt-Andreas ;

Imaz-Rosshandler, Ivan ;

Lohoff, Tim ;

Xiang, Yunlong ;

Hanna, Courtney W. ;

Smallwood, Sebastien ;

Ibarra-Soria, Ximena ;

Buettner, Florian ;

Sanguinetti, Guido ;

Xie, Wei ;

Krueger, Felix ;

Gottgens, Berthold ;

Rugg-Gunn, Peter J. ;

Kelsey, Gavin ;

Dean, Wendy ;

Nichols, Jennifer ;

Stegle, Oliver ;

Marioni, John C. ;

Reik, Wolf .

NATURE, 2019, 576 (7787) :487-+

[7] Different mutational rates and mechanisms in human cells at pregastrulation and neurogenesis [J].

Bae, Taejeong ;

Tomasini, Livia ;

Mariani, Jessica ;

Zhou, Bo ;

Roychowdhury, Tanmoy ;

Franjic, Daniel ;

Pletikos, Mihovil ;

Pattni, Reenal ;

Chen, Bo-Juen ;

Venturini, Elisa ;

Riley-Gillis, Bridget ;

Sestan, Nenad ;

Urban, Alexander E. ;

Abyzov, Alexej ;

Vaccarino, Flora M. .

SCIENCE, 2018, 359 (6375) :550-+

[8] Single-cell sequencing reveals karyotype heterogeneity in murine and human malignancies [J].

Bakker, Bjorn ;

Taudt, Aaron ;

Belderbos, Mirjam E. ;

Porubsky, David ;

Spierings, Diana C. J. ;

de Jong, Tristan V. ;

Halsema, Nancy ;

Kazemier, Hinke G. ;

Hoekstra-Wakker, Karina ;

Bradley, Allan ;

de Bont, Eveline S. J. M. ;

van den Berg, Anke ;

Guryev, Victor ;

Lansdorp, Peter M. ;

Colome-Tatche, Maria ;

Foijer, Floris .

GENOME BIOLOGY, 2016, 17

[9] Unravelling cellular relationships during development and regeneration using genetic lineage tracing [J].

Baron, Chloe S. ;

van Oudenaarden, Alexander .

NATURE REVIEWS MOLECULAR CELL BIOLOGY, 2019, 20 (12) :753-765

[10] Novel insights into breast cancer copy number genetic heterogeneity revealed by single-cell genome sequencing [J].

Baslan, Timour ;

Kendall, Jude ;

Volyanskyy, Konstantin ;

McNamara, Katherine ;

Cox, Hilary ;

D'Italia, Sean ;

Ambrosio, Frank ;

Riggs, Michael ;

Rodgers, Linda ;

Leotta, Anthony ;

Song, Junyan ;

Mao, Yong ;

Wu, Jie ;

Shah, Ronak ;

Gularte-Merida, Rodrigo ;

Chadalavada, Kalyani ;

Nanjangud, Gouri ;

Varadan, Vinay ;

Gordon, Assaf ;

Curtis, Christina ;

Krasnitz, Alex ;

Dimitrova, Nevenka ;

Harris, Lyndsay ;

Wigler, Michael ;

Hicks, James .

ELIFE, 2020, 9 :1-21

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