Identification of tomato miRNAs responsive to root colonization by endophytic Pochonia chlamydosporia

Applied Microbiology and Biotechnology
Isabella PentimoneAurelio Ciancio

Abstract

The molecular mechanisms active during the endophytic phase of the fungus Pochonia chlamydosporia are still poorly understood. In particular, few data are available on the links between the endophyte and the root response, as modulated by noncoding small RNAs. In this study, we describe the microRNAs (miRNAs) that are differentially expressed (DE) in the roots of tomato, colonized by P. chlamydosporia. A genome-wide NGS expression profiling of small RNAs in roots, either colonized or not by the fungus, showed 26 miRNAs upregulated in inoculated roots. Their predicted target genes are involved in the plant information processing system, which recognizes, percepts, and transmits signals, with higher representations in processes such as apoptosis and plant defense regulation. RNAseq data showed that predicted miRNA target genes were downregulated in tomato roots after 4, 7, 10, and 21 days post P. chlamydosporia inoculation. The differential expression of four miRNAs was further validated using qPCR analysis. The P. chlamydosporia endophytic lifestyle in tomato roots included an intricate network of miRNAs and targets. Data provide a first platform of DE tomato miRNAs after P. chlamydosporia colonization. They indicated that sever...Continue Reading

References

Dec 30, 1998·Plant Molecular Biology·P L Rodriguez
Feb 16, 2002·Methods : a Companion to Methods in Enzymology·K J Livak, T D Schmittgen
Mar 1, 2003·Science·Utpal NathEnrico Coen
Jul 20, 2004·The Plant Cell·Byung-Chun YooWilliam J Lucas
Feb 11, 2005·The Plant Journal : for Cell and Molecular Biology·Julie M StoneJustin J Stiers
Nov 30, 2005·Nucleic Acids Research·Caifu ChenKarl J Guegler
Mar 3, 2006·Genes & Development·Marco Antonio Valencia-SanchezRoy Parker
Oct 13, 2007·Plant Methods·Erika Varkonyi-GasicRoger P Hellens
Apr 12, 2008·BMC Genomics·Senthil SubramanianOliver Yu
Jun 3, 2008·Nature Methods·Ali MortazaviBarbara Wold
Nov 7, 2008·Molecular Plant-microbe Interactions : MPMI·Tarek HeweziThomas J Baum
Jun 13, 2009·Annual Review of Plant Biology·Virginia Ruiz-Ferrer, Olivier Voinnet
Dec 17, 2009·Proceedings of the National Academy of Sciences of the United States of America·Anwesha NagThomas Jack
May 4, 2010·Nucleic Acids Research·Zhou DuZhen Su
Nov 26, 2010·The New Phytologist·Meredith T Hanlon, Catharina Coenen
May 31, 2011·Nucleic Acids Research·Xinbin Dai, Patrick Xuechun Zhao
Feb 7, 2012·Proceedings of the National Academy of Sciences of the United States of America·Feng LiBarbara Baker
Mar 13, 2012·The Plant Cell·Padubidri V ShivaprasadDavid C Baulcombe
Jun 5, 2012·Nature·UNKNOWN Tomato Genome Consortium
Jul 4, 2012·Plant Signaling & Behavior·Tarek Hewezi, Thomas J Baum
Aug 28, 2012·Annual Review of Phytopathology·Meritxell Antolín-LloveraMartin Parniske
Sep 21, 2013·Frontiers in Plant Science·Pablo Peláez, Federico Sanchez
Nov 28, 2013·Nucleic Acids Research·Ana Kozomara, Sam Griffiths-Jones
Dec 20, 2013·RNA Biology·Jennifer Gebetsberger, Norbert Polacek
Feb 18, 2014·Fungal Genetics and Biology : FG & B·Eduardo LarribaLuis Vicente Lopez-Llorca
Mar 29, 2014·Journal of Integrative Plant Biology·Li Yang, Hai Huang
Aug 5, 2014·Annual Review of Phytopathology·Arne WeibergHailing Jin
Oct 21, 2014·PLoS Pathogens·Shouqiang OuyangKatherine A Borkovich
Oct 30, 2014·Nucleic Acids Research·UNKNOWN RNAcentral ConsortiumKim D Pruitt

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Citations

Aug 29, 2019·Frontiers in Plant Science·Zahra GhahremaniF Javier Sorribas
Aug 9, 2019·Applied Microbiology and Biotechnology·Isabella PentimoneAurelio Ciancio
Apr 28, 2021·Plant Science : an International Journal of Experimental Plant Biology·Haimin ChenZongsuo Liang
Jun 14, 2021·Journal of Plant Physiology·Ena ŠečićMaria Jose Ladera-Carmona

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Datasets Mentioned

BETA
SRP066831

Methods Mentioned

BETA
RNAseq
light microscopy
PCR
reverse-transcription PCR

Software Mentioned

StarScan
sRNAbench
MXpro QPCR
AgriGO
psRNAtarget
sRNAbenchDE
sRNAbench tool

Related Concepts

Related Feeds

Apoptosis

Apoptosis is a specific process that leads to programmed cell death through the activation of an evolutionary conserved intracellular pathway leading to pathognomic cellular changes distinct from cellular necrosis