The application of RNA-seq to the comprehensive analysis of plant mitochondrial transcriptomes

Kód výsledku v IS VaVaI

<a href="https://www.isvavai.cz/riv?ss=detail&h=RIV%2F67985939%3A_____%2F15%3A00451029" target="_blank" >RIV/67985939:_____/15:00451029 - isvavai.cz</a>

Nalezeny alternativní kódy

RIV/61389030:_____/15:00446185

Výsledek na webu

<a href="http://dx.doi.org/10.1007/s00438-014-0905-6" target="_blank" >http://dx.doi.org/10.1007/s00438-014-0905-6</a>

DOI - Digital Object Identifier

<a href="http://dx.doi.org/10.1007/s00438-014-0905-6" target="_blank" >10.1007/s00438-014-0905-6</a>

Jazyk výsledku

angličtina

Název v původním jazyce

The application of RNA-seq to the comprehensive analysis of plant mitochondrial transcriptomes

Popis výsledku v původním jazyce

We review current studies of plant mitochondrial transcriptomes performed by RNA-seq, highlighting methodological challenges unique to plant mitochondria. We propose ways to improve read mapping accuracy and sensitivity such as modifying a reference genome at RNA editing sites, using splicing- and ambiguity-competent aligners, and masking chloroplast- or nucleus-derived sequences. We also outline modified RNA-seq methods permitting more accurate detection and quantification of partially edited sites andthe identification of transcription start sites on a genome-wide scale. The application of RNA-seq goes beyond genome-wide determination of transcript levels and RNA maturation events, and emerges as an elegant resource for the comprehensive identification of editing, splicing, and transcription start sites. Thus, improved RNA-seq methods customized for plant mitochondria hold tremendous potential for advancing our understanding of plant mitochondrial evolution and cyto-nuclear interact

Název v anglickém jazyce

The application of RNA-seq to the comprehensive analysis of plant mitochondrial transcriptomes

Popis výsledku anglicky

We review current studies of plant mitochondrial transcriptomes performed by RNA-seq, highlighting methodological challenges unique to plant mitochondria. We propose ways to improve read mapping accuracy and sensitivity such as modifying a reference genome at RNA editing sites, using splicing- and ambiguity-competent aligners, and masking chloroplast- or nucleus-derived sequences. We also outline modified RNA-seq methods permitting more accurate detection and quantification of partially edited sites andthe identification of transcription start sites on a genome-wide scale. The application of RNA-seq goes beyond genome-wide determination of transcript levels and RNA maturation events, and emerges as an elegant resource for the comprehensive identification of editing, splicing, and transcription start sites. Thus, improved RNA-seq methods customized for plant mitochondria hold tremendous potential for advancing our understanding of plant mitochondrial evolution and cyto-nuclear interact

Druh

J_x - Nezařazeno - Článek v odborném periodiku (Jimp, Jsc a Jost)

CEP obor

EF - Botanika

OECD FORD obor

—

Projekt

<a href="/cs/project/GAP506%2F12%2F1359" target="_blank" >GAP506/12/1359: Regulace kvetení u rodu Chenopodium studovaná pomocí transkriptomiky</a><br>

Návaznosti

I - Institucionalni podpora na dlouhodoby koncepcni rozvoj vyzkumne organizace

Rok uplatnění

2015

Kód důvěrnosti údajů

S - Úplné a pravdivé údaje o projektu nepodléhají ochraně podle zvláštních právních předpisů

Název periodika

Molecular Genetics and Genomics

ISSN

1617-4615

e-ISSN

—

Svazek periodika

290

Číslo periodika v rámci svazku

1

Stát vydavatele periodika

DE - Spolková republika Německo

Počet stran výsledku

9

Strana od-do

1-9

Kód UT WoS článku

000348923900001

EID výsledku v databázi Scopus

—