A highly multiplexed and sensitive RNA-seq protocol for simultaneous analysis of host and pathogen transcriptomes

被引：0
|
作者：
Roi Avraham
Nathan Haseley
Amy Fan
Zohar Bloom-Ackermann
Jonathan Livny
Deborah T Hung
机构：
[1] Broad Institute of MIT and Harvard,Department of Medicine
[2] Brigham and Women's Hospital,Department of Molecular Biology
[3] Harvard Medical School,Department of Microbiology and Immunobiology
[4] Massachusetts General Hospital,undefined
[5] Center for Computational and Integrative Biology,undefined
[6] Massachusetts General Hospital,undefined
[7] Harvard Medical School,undefined
[8] Present address: Department of Biological Regulation,undefined
[9] Weizmann Institute of Science,undefined
[10] Rehovot,undefined
[11] Israel.,undefined
来源：
Nature Protocols | 2016年 / 11卷
关键词：
D O I：
暂无
中图分类号：
学科分类号：
摘要：
This protocol enables simultaneous analysis of host and bacterial transcripts by RNA-seq. It includes procedures for efficient host and bacterial cell lysis, barcoding of samples and analysis of both mammalian and microbial reads from mixed host–pathogen RNA-seq data.
引用
收藏
页码：1477 / 1491
页数：14
相关论文
共 50 条
  • [11] Host–pathogen duels revealed by dual RNA-seq in vivo
    Darren J. Burgess
    Nature Reviews Genetics, 2017, 18 : 143 - 143
  • [12] Resolving host-pathogen interactions by dual RNA-seq
    Westermann, Alexander J.
    Barquist, Lars
    Vogel, Joerg
    PLOS PATHOGENS, 2017, 13 (02)
  • [13] Dual RNA-seq of Nontypeable Haemophilus influenzae and Host Cell Transcriptomes Reveals Novel Insights into Host-Pathogen Cross Talk
    Baddal, Buket
    Muzzi, Alessandro
    Censini, Stefano
    Calogero, Raffaele A.
    Torricelli, Giulia
    Guidotti, Silvia
    Taddei, Anna R.
    Covacci, Antonello
    Pizza, Mariagrazia
    Rappuoli, Rino
    Soriani, Marco
    Pezzicolia, Alfredo
    MBIO, 2015, 6 (06):
  • [14] The application of RNA-seq to the comprehensive analysis of plant mitochondrial transcriptomes
    James D. Stone
    Helena Storchova
    Molecular Genetics and Genomics, 2015, 290 : 1 - 9
  • [15] The application of RNA-seq to the comprehensive analysis of plant mitochondrial transcriptomes
    Stone, James D.
    Storchova, Helena
    MOLECULAR GENETICS AND GENOMICS, 2015, 290 (01) : 1 - 9
  • [16] Dual RNA-seq unveils noncoding RNA functions in host–pathogen interactions
    Alexander J. Westermann
    Konrad U. Förstner
    Fabian Amman
    Lars Barquist
    Yanjie Chao
    Leon N. Schulte
    Lydia Müller
    Richard Reinhardt
    Peter F. Stadler
    Jörg Vogel
    Nature, 2016, 529 : 496 - 501
  • [17] RapMap: a rapid, sensitive and accurate tool for mapping RNA-seq reads to transcriptomes
    Srivastava, Avi
    Sarkar, Hirak
    Gupta, Nitish
    Patro, Rob
    BIOINFORMATICS, 2016, 32 (12) : 192 - 200
  • [18] Mapping and quantifying mammalian transcriptomes by RNA-Seq
    Mortazavi, Ali
    Williams, Brian A.
    McCue, Kenneth
    Schaeffer, Lorian
    Wold, Barbara
    NATURE METHODS, 2008, 5 (07) : 621 - 628
  • [19] Studying bacterial transcriptomes using RNA-seq
    Croucher, Nicholas J.
    Thomson, Nicholas R.
    CURRENT OPINION IN MICROBIOLOGY, 2010, 13 (05) : 619 - 624
  • [20] Mapping and quantifying mammalian transcriptomes by RNA-Seq
    Ali Mortazavi
    Brian A Williams
    Kenneth McCue
    Lorian Schaeffer
    Barbara Wold
    Nature Methods, 2008, 5 : 621 - 628
12345