Diverse and tissue-enriched small RNAs in the plant pathogenic fungus, Magnaporthe oryzae

BMC Genomics
Cristiano C NunesRalph A Dean

Abstract

Emerging knowledge of the impact of small RNAs as important cellular regulators has prompted an explosion of small transcriptome sequencing projects. Although significant progress has been made towards small RNA discovery and biogenesis in higher eukaryotes and other model organisms, knowledge in simple eukaryotes such as filamentous fungi remains limited. Here, we used 454 pyrosequencing to present a detailed analysis of the small RNA transcriptome (~ 15 - 40 nucleotides in length) from mycelia and appressoria tissues of the rice blast fungal pathogen, Magnaporthe oryzae. Small RNAs mapped to numerous nuclear and mitochondrial genomic features including repetitive elements, tRNA loci, rRNAs, protein coding genes, snRNAs and intergenic regions. For most elements, small RNAs mapped primarily to the sense strand with the exception of repetitive elements to which small RNAs mapped in the sense and antisense orientation in near equal proportions. Inspection of the small RNAs revealed a preference for U and suppression of C at position 1, particularly for antisense mapping small RNAs. In the mycelia library, small RNAs of the size 18 - 23 nt were enriched for intergenic regions and repetitive elements. Small RNAs mapping to LTR retr...Continue Reading

References

May 3, 2001·Molecular Plant-microbe Interactions : MPMI·S KangB Valent
Aug 29, 2002·The EMBO Journal·Andrew HamiltonDavid Baulcombe
Sep 16, 2003·Molecular Plant-microbe Interactions : MPMI·Naoki KadotaniShigeyuki Mayama
Oct 7, 2003·Annual Review of Microbiology·Nicholas J Talbot
Jan 1, 1997·Annual Review of Phytopathology·R A Dean
Jun 3, 2004·Genome Research·Gavin E CrooksSteven E Brenner
Apr 23, 2005·Nature·Ralph A DeanBruce W Birren
May 13, 2005·Plant Physiology·Chatchawan JantasuriyaratGuo-Liang Wang
Jun 28, 2005·Fungal Genetics and Biology : FG & B·Isabelle FudalMarc-Henri Lebrun
Aug 2, 2005·Nature·Marcel MarguliesJonathan M Rothberg
Jan 3, 2006·Molecular Cell·Andrei AlexandrovEric M Phizicky
May 30, 2006·Fungal Genetics and Biology : FG & B·N M DonofrioR A Dean
Aug 29, 2006·Nature Structural & Molecular Biology·Nuo Yang, Haig H Kazazian
Mar 14, 2007·Nature Genetics·Junhyun JeonYong-Hwan Lee
May 11, 2007·Annual Review of Phytopathology·Daniel J Ebbole
Sep 25, 2007·Methods : a Companion to Methods in Enzymology·Cheng LuPamela J Green
Dec 18, 2007·Nucleic Acids Research·Henry J HaiserMarie A Elliot
Apr 9, 2008·Nature Biotechnology·Marc R FriedländerNikolaus Rajewsky
Apr 12, 2008·BMC Genomics·Hideya KawajiYoshihide Hayashizaki
Apr 12, 2008·Science·Megha GhildiyalPhillip D Zamore
Jan 1, 1991·Annual Review of Phytopathology·B Valent, F G Chumley
Sep 20, 2008·Insect Biochemistry and Molecular Biology·Shinpei KawaokaToru Shimada
Oct 29, 2008·Current Opinion in Microbiology·Hitoshi Nakayashiki, Quoc Bao Nguyen
Jan 17, 2009·Nature Reviews. Genetics·Megha Ghildiyal, Phillip D Zamore
Jan 24, 2009·Nature Reviews. Molecular Cell Biology·V Narry KimMikiko C Siomi
Mar 4, 2009·Nucleic Acids Research·H Alexander EbhardtRichard P Fahlman
Apr 1, 2009·The Journal of Cell Biology·Satoshi YamasakiPaul Anderson
Apr 1, 2009·The Journal of Cell Biology·Debrah M Thompson, Roy Parker
Jun 27, 2009·Molecular Microbiology·Kristine B Arnvig, Douglas B Young
Sep 12, 2009·Science·Ines A DrinnenbergDavid P Bartel
Nov 26, 2009·FEBS Letters·Anita K HopperDavid R Engelke
Nov 26, 2009·Genes & Development·Yong Sun LeeAnindya Dutta
Jan 19, 2010·Seminars in Cell & Developmental Biology·Mikiko C SiomiHaruhiko Siomi

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Citations

Aug 21, 2013·Applied Microbiology and Biotechnology·Nadia Chacko, Xiaorong Lin
Nov 1, 2013·Chromosome Research : an International Journal on the Molecular, Supramolecular and Evolutionary Aspects of Chromosome Biology·R Blake BillmyreJoseph Heitman
Oct 8, 2013·Trends in Microbiology·Takao Kasuga, Mark Gijzen
Jul 10, 2012·Nature Structural & Molecular Biology·Liande LiYi Liu
Jan 30, 2013·PLoS Pathogens·Francisco E NicolásRosa M Ruiz-Vázquez
Jul 28, 2013·International Journal of Molecular Sciences·Francisco E Nicolás, Rosa M Ruiz-Vázquez
Aug 5, 2014·Annual Review of Phytopathology·Arne WeibergHailing Jin
Jul 4, 2012·Annual Review of Microbiology·Shwu-Shin ChangYi Liu
Apr 5, 2012·Molecular Plant Pathology·Ralph DeanGary D Foster
May 16, 2013·Molecular Microbiology·Nohemi Carreras-VillaseñorAlfredo Herrera-Estrella
Mar 30, 2016·Seminars in Cell & Developmental Biology·Ane Sesma
Sep 24, 2015·BMC Genomics·Nicholas A MuethScot H Hulbert
Jul 1, 2015·Current Opinion in Plant Biology·Arne Weiberg, Hailing Jin
Aug 31, 2012·Mobile Genetic Elements·Stephen WhissonChristina Dixelius
Oct 21, 2016·Frontiers in Microbiology·Juan HuangXiaoming Zhang
Jul 5, 2016·DNA Research : an International Journal for Rapid Publication of Reports on Genes and Genomes·Runmao LinAiping Zheng
Oct 18, 2016·Molecular Plant Pathology·Akanksha Dubey, Junhyun Jeon
Apr 22, 2017·RNA Biology·Waqar IslamLiande Wang
May 16, 2017·Molecular Plant-microbe Interactions : MPMI·Vidhyavathi RamanNicole M Donofrio
Apr 14, 2017·BMC Genomics·Patrícia Aline Gröhs FerrarezeCharley Christian Staats
Jan 9, 2018·Nucleic Acids Research·Quyet NguyenHitoshi Nakayashiki
Dec 12, 2017·Genome Biology and Evolution·Anna MuszewskaKrzysztof Ginalski
Feb 13, 2016·Microbiology and Molecular Biology Reviews : MMBR·Monika SchmollAlfredo Herrera-Estrella
Jan 24, 2019·Functional & Integrative Genomics·Summi DuttaKunal Mukhopadhyay
Sep 30, 2015·G3 : Genes - Genomes - Genetics·Laura H OkagakiRalph A Dean
Feb 7, 2020·Molecular Plant Pathology·Mengying Wang, Ralph A Dean
Jan 4, 2017·Non-coding RNA·Wei-Lin XuLing-Ling Zheng

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Datasets Mentioned

BETA
GSE2716
GSE1945

Methods Mentioned

BETA
chemical treatments
454 sequencing
PCR
electrophoresis

Software Mentioned

sRNA
CPA
Epicentre
miRDeep
WebLogo
MPSS
FGENESH
BLASTN
SAGE

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