Tissue-specific transcriptome profiling of the Arabidopsis inflorescence stem reveals local cellular signatures

• Verfasst von: Shi, Dongbo [VerfasserIn]
• Verfasst von: Jouannet, Virginie [VerfasserIn]
• Verfasst von: Agustí, Javier [VerfasserIn]
• Verfasst von: Kaul, Verena [VerfasserIn]
• Verfasst von: Levitsky, Victor [VerfasserIn]
• Verfasst von: Sanchez, Pablo [VerfasserIn]
• Verfasst von: Mironova, Victoria V [VerfasserIn]
• Verfasst von: Greb, Thomas [VerfasserIn]
• Titel: Tissue-specific transcriptome profiling of the Arabidopsis inflorescence stem reveals local cellular signatures
• Verf.angabe: Dongbo Shi, Virginie Jouannet, Javier Agustí, Verena Kaul, Victor Levitsky, Pablo Sanchez, Victoria V. Mironova, and Thomas Greb
• Jahr: 2021
• Jahr des Originals: 2020
• Umfang: 4 S.
• Teil: volume:33
• Teil: year:2021
• Teil: number:2
• Teil: month:02
• Teil: pages:200-223
• Teil: extent:4
• Fussnoten: Published: 02 December 2020 ; Gesehen am 06.05.2021
• Titel Quelle: Enthalten in: The plant cell
• Ort Quelle: Rockville, Md. : Soc., 1989
• Jahr Quelle: 2021
• Band/Heft Quelle: 33(2021), 2 vom: Feb., Seite 200-223
• ISSN Quelle: 1532-298X
• DOI: doi:10.1093/plcell/koaa019
• Datenträger: Online-Ressource
• Sprache: eng
• Bibliogr. Hinweis: Forschungsdaten: Shi, Dongbo: Transcriptome profiling of inflorescence stem tissues from Arabidopsis thaliana series 1
• K10plus-PPN: 1757254005

Abstract

Genome-wide gene expression maps with a high spatial resolution have substantially accelerated plant molecular science. However, the number of characterized tissues and growth stages is still small due to the limited accessibility of most tissues for protoplast isolation. Here, we provide gene expression profiles of the mature inflorescence stem of Arabidopsis thaliana covering a comprehensive set of distinct tissues. By combining fluorescence-activated nucleus sorting and laser-capture microdissection with next-generation RNA sequencing, we characterized the transcriptomes of xylem vessels, fibers, the proximal and distal cambium, phloem, phloem cap, pith, starch sheath, and epidermis cells. Our analyses classified more than 15,000 genes as being differentially expressed among different stem tissues and revealed known and novel tissue-specific cellular signatures. By determining overrepresented transcription factor binding regions in the promoters of differentially expressed genes, we identified candidate tissue-specific transcriptional regulators. Our datasets predict the expression profiles of an exceptional number of genes and allow hypotheses to be generated about the spatial organization of physiological processes. Moreover, we demonstrate that information about gene expression in a broad range of mature plant tissues can be established at high spatial resolution by nuclear mRNA profiling. Tissue-specific gene expression values can be accessed online at https://arabidopsis-stem.cos.uni-heidelberg.de/.