三代测序PacBio在转录组研究中的应用

被引：21

作者：

钟伟民 ^{[1
]}

张兴坦 ^{[1
]}

赵茜 ^{[2
]}

马东娜 ^{[2
]}

唐海宝 ^{[1
]}

机构：

[1] 福建农林大学基因组与生物技术研究中心/福建农林大学生命科学学院

[2] 闽台作物有害生物生态防控国家重点实验室福建农林大学应用生态研究所

来源：

福建农林大学学报(自然科学版) | 2018年 / 47卷 / 05期

基金：

国家重点研发计划;

关键词：

PacBio测序; PacBio应用; PacBio流程;

D O I：

暂无

中图分类号：

Q811.4 [生物信息论];

学科分类号：

090609 [兽医生物信息学];

摘要：

本文介绍了PacBio测序在转录组学研究中的一些应用及PacBio测序数据分析常用的方法流程,根据PacBio测序的发展综述了PacBio测序经常遇到的一些问题及相应解决方案,并就PacBio测序技术所面临的挑战和未来的发展进行讨论.

引用

页码：524 / 529

页数：6

共 13 条

[1]

A survey of the complex transcriptome from the highly polyploid sugarcane genome using full-length isoform sequencing and de novo assembly from short read sequencing.[J].Nam V. Hoang;Agnelo Furtado;Patrick J. Mason;Annelie Marquardt;Lakshmi Kasirajan;Prathima P. Thirugnanasambandam;Frederik C. Botha;Robert J. Henry.BMC Genomics.2017, 1

[2]

Comprehensive profiling of rhizome-associated alternative splicing and alternative polyadenylation in moso bamboo (Phyllostachys edulis) [J].

Wang, Taotao ;

Wang, Huiyuan ;

Cai, Dawei ;

Gao, Yubang ;

Zhang, Hangxiao ;

Wang, Yongsheng ;

Lin, Chentao ;

Ma, Liuyin ;

Gu, Lianfeng .

PLANT JOURNAL, 2017, 91 (04) :684-699

[3]

PacBio full-length transcriptome profiling of insect mitochondrial gene expression [J].

Gao, Shan ;

Ren, Yipeng ;

Sun, Yu ;

Wu, Zhenfeng ;

Ruan, Jishou ;

He, Bingjun ;

Zhang, Tao ;

Yu, Xin ;

Tian, Xiaoxuan ;

Bu, Wenjun .

RNA BIOLOGY, 2016, 13 (09) :820-825

[4]

Full-length transcriptome sequences and splice variants obtained by a combination of sequencing platforms applied to different root tissues of Salvia miltiorrhiza and tanshinone biosynthesis [J].

Xu, Zhichao ;

Peters, Reuben J. ;

Weirather, Jason ;

Luo, Hongmei ;

Liao, Baosheng ;

Zhang, Xin ;

Zhu, Yingjie ;

Ji, Aijia ;

Zhang, Bing ;

Hu, Songnian ;

Au, Kin Fai ;

Song, Jingyuan ;

Chen, Shilin .

PLANT JOURNAL, 2015, 82 (06) :951-961

[5]

Cartography of neurexin alternative splicing mapped by single-molecule long-read mRNA sequencing [J].

Treutlein, Barbara ;

Gokce, Ozgun ;

Quake, Stephen R. ;

Suedhof, Thomas C. .

PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA, 2014, 111 (13) :E1291-E1299

[6]

Alternative splicing of transcription factors in plant responses to low temperature stress: mechanisms and functions [J].

Seo, Pil Joon ;

Park, Mi-Jeong ;

Park, Chung-Mo .

PLANTA, 2013, 237 (06) :1415-1424

[7]

Dynamic regulation of HIV-1 mRNA populations analyzed by single-molecule enrichment and long-read sequencing [J].

Ocwieja, Karen E. ;

Sherrill-Mix, Scott ;

Mukherjee, Rithun ;

Custers-Allen, Rebecca ;

David, Patricia ;

Brown, Michael ;

Wang, Susana ;

Link, Darren R. ;

Olson, Jeff ;

Travers, Kevin ;

Schadt, Eric ;

Bushman, Frederic D. .

NUCLEIC ACIDS RESEARCH, 2012, 40 (20) :10345-10355

[8]

Direct sequencing of Arabidopsis thaliana RNA reveals patterns of cleavage and polyadenylation [J].

Sherstnev, Alexander ;

Duc, Celine ;

Cole, Christian ;

Zacharaki, Vasiliki ;

Hornyik, Csaba ;

Ozsolak, Fatih ;

Milos, Patrice M. ;

Barton, Geoffrey J. ;

Simpson, Gordon G. .

NATURE STRUCTURAL & MOLECULAR BIOLOGY, 2012, 19 (08) :845-852

[9]

Alternative Splicing: A Potential Source of Functional Innovation in the Eukaryotic Genome.[J].Lu Chen;Jaime M. Tovar-Corona;Araxi O. Urrutia;Ben-Yang Liao.International Journal of Evolutionary Biology.2012,

[10]

Functional consequences of developmentally regulated alternative splicing [J].

Kalsotra, Auinash ;

Cooper, Thomas A. .

NATURE REVIEWS GENETICS, 2011, 12 (10) :715-729

← 1 2 →