Small RNA Sequencing across Diverse Biofluids Identifies Optimal Methods for exRNA Isolation

被引：214

作者：

Srinivasan, Srimeenakshi ^{[1
,2
]}

Yeri, Ashish ^{[3
]}

Cheah, Pike See ^{[4
,5
,6
,7
]}

Chung, Allen ^{[8
,9
]}

Danielson, Kirsty ^{[3
]}

De Hoff, Peter ^{[1
,2
]}

Filant, Justyna ^{[10
]}

Laurent, Clara D. ^{[1
,2
,3
]}

Laurent, Lucie D. ^{[1
,2
]}

Magee, Rogan ^{[11
]}

Moeller, Courtney ^{[1
,2
]}

Murthy, Venkatesh L. ^{[12
]}

Nejad, Parham ^{[13
]}

Paul, Anu ^{[13
]}

Rigoutsos, Isidore ^{[11
]}

Rodosthenous, Rodosthenis ^{[3
]}

Shah, Ravi, V ^{[3
]}

Simonson, Bridget ^{[3
]}

To, Cuong ^{[1
,2
]}

Wong, David ^{[8
,9
]}

Yan, Irene K. ^{[14
]}

Zhang, Xuan ^{[4
,5
,6
]}

Balaj, Leonora ^{[4
,5
,6
,15
]}

Breakefield, Xandra O. ^{[4
,5
,6
]}

Daaboul, George ^{[16
]}

Gandhi, Roopali ^{[13
]}

Lapidus, Jodi ^{[17
]}

Londin, Eric ^{[11
]}

Patel, Tushar ^{[14
]}

Raffai, Robert L. ^{[8
,9
]}

Sood, Anil K. ^{[10
,18
,19
]}

Alexander, Roger P. ^{[20
]}

Das, Saumya ^{[3
]}

Laurent, Louise C. ^{[1
,2
]}

机构：

[1] Univ Calif San Diego, Dept Obstet Gynecol & Reprod Sci, La Jolla, CA 92093 USA

[2] Univ Calif San Diego, Sanford Consortium Regenerat Med, La Jolla, CA 92093 USA

[3] Harvard Med Sch, Massachusetts Gen Hosp, Cardiovasc Res Ctr, Boston, MA 02115 USA

[4] Harvard Med Sch, Massachusetts Gen Hosp, Neurol Serv, Boston, MA 02115 USA

[5] Harvard Med Sch, Massachusetts Gen Hosp, Radiol Serv, Boston, MA 02115 USA

[6] Harvard Med Sch, Massachusetts Gen Hosp, Program Neurosci, Boston, MA 02115 USA

[7] Univ Putra Malaysia, Fac Med & Hlth Sci, Dept Human Anat, Seri Kembangan, Malaysia

[8] Univ Calif San Francisco, Dept Surg, San Francisco, CA 94121 USA

[9] VA Med Ctr San Francisco, San Francisco, CA 94121 USA

[10] Univ Texas MD Anderson Canc Ctr, Dept Gynecol Oncol & Reprod Med, Houston, TX 77030 USA

[11] Thomas Jefferson Univ, Sidney Kimmel Coll Med, Computat Med Ctr, Philadelphia, PA 19107 USA

[12] Univ Michigan, Frankel Cardiovasc Ctr, Dept Med, Div Cardiovasc Med, Ann Arbor, MI 48109 USA

[13] Harvard Med Sch, Brigham & Womens Hosp, Ann Romney Ctr Neurol Dis, Dept Neurol, Boston, MA 02115 USA

[14] Mayo Clin Florida, Jacksonville, FL USA

[15] Harvard Med Sch, Massachusetts Gen Hosp, Dept Neurosurg, Boston, MA 02115 USA

[16] NanoView Biosci, Boston, MA USA

[17] Oregon Hlth & Sci Univ, Portland, OR USA

[18] Univ Texas MD Anderson Canc Ctr, Ctr RNA Interference & Noncoding RNAs, Houston, TX 77030 USA

[19] Univ Texas MD Anderson Canc Ctr, Dept Canc Biol, Houston, TX 77030 USA

[20] Pacific Northwest Res Inst, 720 Broadway, Seattle, WA 98122 USA

来源：

CELL | 2019年 / 177卷 / 02期

关键词：

PLASMA; REVEALS; MICRORNAS; MITOCHONDRIAL; MUTATIONS; FRAGMENTS; EXOSOMES; MINTBASE; SUBSETS; NUCLEAR;

D O I：

10.1016/j.cell.2019.03.024

中图分类号：

Q5 [生物化学]; Q7 [分子生物学];

学科分类号：

071010 ; 081704 ;

摘要：

Poor reproducibility within and across studies arising from lack of knowledge regarding the performance of extracellular RNA (exRNA) isolation methods has hindered progress in the exRNA field. A systematic comparison of 10 exRNA isolation methods across 5 biofluids revealed marked differences in the complexity and reproducibility of the resulting small RNA-seq pro- files. The relative efficiency with which each method accessed different exRNA carrier subclasses was determined by estimating the proportions of extracellular vesicle (EV)-, ribonucleoprotein (RNP)-, and highdensity lipoprotein (HDL)-specific miRNA signatures in each profile. An interactive web-based application (miRDaR) was developed to help investigators select the optimal exRNA isolation method for their studies. miRDar provides comparative statistics for all expressed miRNAs or a selected subset of miRNAs in the desired biofluid for each exRNA isolation method and returns a ranked list of exRNA isolation methods prioritized by complexity, expression level, and repro ducibility. These results will improve reproducibility and stimulate further progret in exRNA biomarker development. r provides comparative statistics for all expressed miRNAs or a selected subset of miRNAs in the desired biofluid for each exRNA isolation method and returns a ranked list of exRNA isolation methods prioritized by complexity, expression level, and repro ducibility. These results will improve reproducibility and stimulate further progress in exRNA biomarker development.

引用

页码：446 / +

页数：33

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