Efficient and quantitative high-throughput tRNA sequencing

被引：0

作者：

Zheng, Guanqun ^{[1
]}

Qin, Yidan ^{[2
]}

Clark, Wesley C. ^{[1
]}

Dai, Qing ^{[3
]}

Yi, Chengqi ^{[1
]}

He, Chuan ^{[1
,3
,4
,5
]}

Lambowitz, Alan M. ^{[2
]}

Pan, Tao ^{[1
]}

机构：

[1] Univ Chicago, Dept Biochem & Mol Biol, Chicago, IL 60637 USA

[2] Univ Texas Austin, Inst Cellular & Mol Biol, Austin, TX 78712 USA

[3] Univ Chicago, Dept Chem, Chicago, IL 60637 USA

[4] Univ Chicago, Inst Biophys Dynam, Chicago, IL 60637 USA

[5] Univ Chicago, Howard Hughes Med Inst, Chicago, IL 60637 USA

来源：

NATURE METHODS | 2015年 / 12卷 / 09期

基金：

美国国家卫生研究院;

关键词：

ESCHERICHIA-COLI; DNA-DAMAGE; OXIDATIVE DEMETHYLATION; ALKB; REPAIR; GENES; SEQ;

D O I：

10.1038/NMETH.3478

中图分类号：

Q5 [生物化学];

学科分类号：

071010 ; 081704 ;

摘要：

Despite its biological importance, tRNA has not been adequately sequenced by standard methods because of its abundant post-transcriptional modifications and stable structure, which interfere with cDNA synthesis. We achieved efficient and quantitative tRNA sequencing in HEK293T cells by using engineered demethylases to remove base methylations and a highly processive thermostable group II intron reverse transcriptase to overcome these obstacles. Our method, DM-tRNA-seq, should be applicable to investigations of tRNA in all organisms.

引用

页码：835 / +

页数：5

共 50 条

[31] High-throughput and quantitative genome-wide messenger RNA sequencing for molecular phenotyping
John E. Collins
Neha Wali
Ian M. Sealy
James A. Morris
Richard J. White
Steven R. Leonard
David K. Jackson
Matthew C. Jones
Nathalie C. Smerdon
Jorge Zamora
Christopher M. Dooley
Samantha N. Carruthers
Jeffrey C. Barrett
Derek L. Stemple
Elisabeth M. Busch-Nentwich
BMC Genomics, 16
[32] From micrograms to picograms:: quantitative PCR reduces the material demands of high-throughput sequencing
Meyer, Matthias
Briggs, Adrian W.
Maricic, Tomislav
Hoeber, Barbara
Hoeffner, Barbara Ho
Krause, Johannes
Weihmann, Antje
Paeaebo, Svante
Hofreiter, Michael
NUCLEIC ACIDS RESEARCH, 2008, 36 (01)
[33] Large-Scale, Quantitative Protein Assays on a High-Throughput DNA Sequencing Chip
Layton, Curtis J.
McMahon, Peter L.
Greenleaf, William J.
MOLECULAR CELL, 2019, 73 (05) : 1075 - +
[34] Small molecule regulators of microRNAs identified by high-throughput screen coupled with high-throughput sequencing
Lien D. Nguyen
Zhiyun Wei
M. Catarina Silva
Sergio Barberán-Soler
Jiarui Zhang
Rosalia Rabinovsky
Christina R. Muratore
Jonathan M. S. Stricker
Colin Hortman
Tracy L. Young-Pearse
Stephen J. Haggarty
Anna M. Krichevsky
Nature Communications, 14 (1)
[35] Small molecule regulators of microRNAs identified by high-throughput screen coupled with high-throughput sequencing
Nguyen, Lien D.
Wei, Zhiyun
Silva, M. Catarina
Barberan-Soler, Sergio
Zhang, Jiarui
Rabinovsky, Rosalia
Muratore, Christina R.
Stricker, Jonathan M. S.
Hortman, Colin
Young-Pearse, Tracy L.
Haggarty, Stephen J.
Krichevsky, Anna M.
NATURE COMMUNICATIONS, 2023, 14 (01)
[36] Standards for Sequencing Viral Genomes in the Era of High-Throughput Sequencing
Ladner, Jason T.
Beitzel, Brett
Chain, Patrick S. G.
Davenport, Matthew G.
Donaldson, Eric F.
Frieman, Matthew
Kugelman, Jeffrey R.
Kuhn, Jens H.
O'Rear, Jules
Sabeti, Pardis C.
Wentworth, David E.
Wiley, Michael R.
Yu, Guo-Yun
Sozhamannan, Shanmuga
Bradburne, Christopher
Palacios, Gustavo
MBIO, 2014, 5 (03): : 1 - 5
[37] Genomics - from Neanderthals to high-throughput sequencing
Matthew John Wakefield
Genome Biology, 7
[38] High-throughput sequencing: a failure mode analysis
Yang, GS
Stott, JM
Smailus, D
Barber, SA
Balasundaram, M
Marra, MA
Holt, RA
BMC GENOMICS, 2005, 6 (1)
[39] High-Throughput Sequencing of a South American Amerindian
Ribeiro-dos-Santos, Andre M.
Santana de Souza, Jorge Estefano
Almeida, Renan
Alencar, Dayse O.
Barbosa, Maria Silvanira
Gusmao, Leonor
Silva, Wilson A., Jr.
de Souza, Sandro J.
Silva, Artur
Ribeiro-dos-Santos, Andrea
Darnet, Sylvain
Santos, Sidney
PLOS ONE, 2013, 8 (12):
[40] Tools for mapping high-throughput sequencing data
Fonseca, Nuno A.
Rung, Johan
Brazma, Alvis
Marioni, John C.
BIOINFORMATICS, 2012, 28 (24) : 3169 - 3177

← 1 2 3 4 5 →