Combined Analysis of the Chloroplast Genome and Transcriptome of the Antarctic Vascular Plant Deschampsia antarctica Desv

Plastome Sequence Determination and Comparative Analysis for Members of the Lolium - Festuca Grass Species Complex

(2013) Melanie L. Hand et al.   G3-Genes Genomes Genetics

RNA processing and decay in plastids

(2013) Arnaud Germain et al.   Wiley Interdisciplinary Reviews-RNA

Analysis of codon usage patterns of the chloroplast genomes in the Poaceae family

(2012) Yuerong Zhang et al.   AUSTRALIAN JOURNAL OF BOTANY

Differential gene and transcript expression analysis of RNA-seq experiments with TopHat and Cufflinks

(2012) Cole Trapnell et al.   Nature Protocols

Transcriptome sequencing of the Antarctic vascular plant Deschampsia antarctica Desv. under abiotic stress

(2012) Jungeun Lee et al.   PLANTA

MEGA5: Molecular Evolutionary Genetics Analysis Using Maximum Likelihood, Evolutionary Distance, and Maximum Parsimony Methods

(2011) K. Tamura et al.   MOLECULAR BIOLOGY AND EVOLUTION

The phylogeny of the BEP clade in grasses revisited: Evidence from the whole-genome sequences of chloroplasts

(2011) Zhi-Qiang Wu et al.   MOLECULAR PHYLOGENETICS AND EVOLUTION

Protein-mediated protection as the predominant mechanism for defining processed mRNA termini in land plant chloroplasts

(2011) Petya Zhelyazkova et al.   NUCLEIC ACIDS RESEARCH

Short non-coding RNA fragments accumulating in chloroplasts: footprints of RNA binding proteins?

(2011) Hannes Ruwe et al.   NUCLEIC ACIDS RESEARCH

An efficient procedure for plant organellar genome assembly, based on whole genome data from the 454 GS FLX sequencing platform

(2011) Tongwu Zhang et al.   Plant Methods

The evolution of the plastid chromosome in land plants: gene content, gene order, gene function

(2011) Susann Wicke et al.   PLANT MOLECULAR BIOLOGY

High-Throughput Sequencing of Three Lemnoideae (Duckweeds) Chloroplast Genomes from Total DNA

(2011) Wenqin Wang et al.   PLoS One

Chloroplast RNA Metabolism

(2010) David B. Stern et al.   Annual Review of Plant Biology

The Sequence Alignment/Map format and SAMtools

(2009) H. Li et al.   BIOINFORMATICS

Jalview Version 2--a multiple sequence alignment editor and analysis workbench

(2009) A. M. Waterhouse et al.   BIOINFORMATICS

The PREP suite: predictive RNA editors for plant mitochondrial genes, chloroplast genes and user-defined alignments

(2009) J. P. Mower   NUCLEIC ACIDS RESEARCH

Ultrafast and memory-efficient alignment of short DNA sequences to the human genome

(2009) Ben Langmead et al.   GENOME BIOLOGY