Tissue-Specific Transcriptome Profiling in Arabidopsis Roots

Erin E Sparks; Philip N Benfey

doi:10.1007/978-1-4939-7003-2_8

Tissue-Specific Transcriptome Profiling in Arabidopsis Roots

Methods Mol Biol. 2017:1610:107-122. doi: 10.1007/978-1-4939-7003-2_8.

Authors

Erin E Sparks¹, Philip N Benfey²

Affiliations

¹ Department of Biology and Howard Hughes Medical Institute, Duke University, Durham, NC, USA.
² Department of Biology and Howard Hughes Medical Institute, Duke University, 130 Science Drive Room 137, Duke Box 90338, Durham, NC, 27708, USA. philip.benfey@duke.edu.

PMID: 28439860
DOI: 10.1007/978-1-4939-7003-2_8

Abstract

Spatiotemporal transcriptome profiles from specific tissues are critical for understanding plant development and responses to the environment. One approach to isolate specific tissues is fluorescence-activated cell sorting (FACS). In this chapter, we outline methods for the FACS isolation of root protoplasts followed by transcriptome profiling using RNA sequencing.

Keywords: Fluorescence-activated cell sorting; Protoplast; RNAseq; Roots; Transcriptomics.

Publication types

Research Support, U.S. Gov't, Non-P.H.S.
Research Support, N.I.H., Extramural
Research Support, Non-U.S. Gov't

MeSH terms

Arabidopsis / genetics*
Flow Cytometry
Gene Expression Profiling
Gene Expression Regulation, Plant / genetics
Plant Roots / genetics*
Protoplasts / metabolism

Abstract

Publication types

MeSH terms

Grants and funding