The genome and transcriptome of perennial ryegrass mitochondria

BMC Genomics

Research Article

Bruno Studer¹  Frank Panitz²  Christian Bendixen²  Stephen L Byrne³  Jacqueline D Farrell³  Ian Max Møller³  Torben Asp³  Md Shofiqul Islam³ 

[1] Department of Environmental Systems Science, Forage Crop Genetics, ETH Zurich, CH 8092, Zurich, Switzerland;Department of Molecular Biology and Genetics, Science and Technology, Aarhus University, Blichers Allé 20, DK 8830, Tjele, Denmark;Department of Molecular Biology and Genetics, Science and Technology, Aarhus University, Forsøgsvej 1, DK 4200, Slagelse, Denmark;

关键词: De novo;    Mitochondrial gene expression;    Mitochondrial genome;    Next-generation sequencing;    Lolium perenne;   

DOI  :  10.1186/1471-2164-14-202

 received in 2012-10-24, accepted in 2013-03-05,  发布年份 2013

来源: Springer

【 摘 要 】

BackgroundPerennial ryegrass (Lolium perenne L.) is one of the most important forage and turf grass species of temperate regions worldwide. Its mitochondrial genome is inherited maternally and contains genes that can influence traits of agricultural importance. Moreover, the DNA sequence of mitochondrial genomes has been established and compared for a large number of species in order to characterize evolutionary relationships. Therefore, it is crucial to understand the organization of the mitochondrial genome and how it varies between and within species. Here, we report the first de novo assembly and annotation of the complete mitochondrial genome from perennial ryegrass.ResultsIntact mitochondria from perennial ryegrass leaves were isolated and used for mtDNA extraction. The mitochondrial genome was sequenced to a 167-fold coverage using the Roche 454 GS-FLX Titanium platform, and assembled into a circular master molecule of 678,580 bp. A total of 34 proteins, 14 tRNAs and 3 rRNAs are encoded by the mitochondrial genome, giving a total gene space of 48,723 bp (7.2%). Moreover, we identified 149 open reading frames larger than 300 bp and covering 67,410 bp (9.93%), 250 SSRs, 29 tandem repeats, 5 pairs of large repeats, and 96 pairs of short inverted repeats. The genes encoding subunits of the respiratory complexes – nad1 to nad9, cob, cox1 to cox3 and atp1 to atp9 – all showed high expression levels both in absolute numbers and after normalization.ConclusionsThe circular master molecule of the mitochondrial genome from perennial ryegrass presented here constitutes an important tool for future attempts to compare mitochondrial genomes within and between grass species. Our results also demonstrate that mitochondria of perennial ryegrass contain genes crucial for energy production that are well conserved in the mitochondrial genome of monocotyledonous species. The expression analysis gave us first insights into the transcriptome of these mitochondrial genes in perennial ryegrass.

【 授权许可】

Unknown   
© Islam et al.; licensee BioMed Central Ltd. 2013. This article is published under license to BioMed Central Ltd. This is an Open Access article distributed under the terms of the Creative Commons Attribution License (http://creativecommons.org/licenses/by/2.0), which permits unrestricted use, distribution, and reproduction in any medium, provided the original work is properly cited.