Contradiction between Plastid Gene Transcription and Function Due to Complex Posttranscriptional Splicing: An Exemplary Study of ycf15 Function and Evolution in Angiosperms

The Primary Transcriptome of Barley Chloroplasts: Numerous Noncoding RNAs and the Dominating Role of the Plastid-Encoded RNA Polymerase

(2012) P. Zhelyazkova et al.   PLANT CELL

An Improved Chloroplast DNA Extraction Procedure for Whole Plastid Genome Sequencing

(2012) Chao Shi et al.   PLoS One

Horizontal transfer of chloroplast genomes between plant species

(2012) S. Stegemann et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

Cyanophora paradoxa Genome Elucidates Origin of Photosynthesis in Algae and Plants

(2012) D. C. Price et al.   SCIENCE

Deep sequencing of the Camellia sinensis transcriptome revealed candidate genes for major metabolic pathways of tea-specific compounds

(2011) Cheng-Ying Shi et al.   BMC GENOMICS

Complete chloroplast genome sequence of Magnolia kwangsiensis (Magnoliaceae): implication for DNA barcoding and population genetics

(2011) Dai-Yong Kuang et al.   GENOME

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

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

Messenger RNA degradation is initiated at the 5' end and follows sequence- and condition-dependent modes in chloroplasts

(2011) M. L. Salvador et al.   NUCLEIC ACIDS RESEARCH

The chloroplast genome of Anomochloa marantoidea (Anomochlooideae; Poaceae) comprises a mixture of grass-like and unique features

(2010) Leah M. Morris et al.   AMERICAN JOURNAL OF BOTANY

Chloroplast RNA Metabolism

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

SolexaQA: At-a-glance quality assessment of Illumina second-generation sequencing data

(2010) Murray P Cox et al.   BMC BIOINFORMATICS

Complete Plastid Genome Sequences of Three Rosids (Castanea, Prunus, Theobroma): Evidence for At Least Two Independent Transfers of rpl22 to the Nucleus

(2010) R. K. Jansen et al.   MOLECULAR BIOLOGY AND EVOLUTION

Extreme Reconfiguration of Plastid Genomes in the Angiosperm Family Geraniaceae: Rearrangements, Repeats, and Codon Usage

(2010) M. M. Guisinger et al.   MOLECULAR BIOLOGY AND EVOLUTION

Large-scale detection and analysis of RNA editing in grape mtDNA by RNA deep-sequencing

(2010) Ernesto Picardi et al.   NUCLEIC ACIDS RESEARCH

The Complete Chloroplast Genome Sequence of Date Palm (Phoenix dactylifera L.)

(2010) Meng Yang et al.   PLoS One

PASS: a program to align short sequences

(2009) D. Campagna et al.   BIOINFORMATICS

TopHat: discovering splice junctions with RNA-Seq

(2009) Cole Trapnell et al.   BIOINFORMATICS

The Sequence Alignment/Map format and SAMtools

(2009) H. Li et al.   BIOINFORMATICS

Complete Chloroplast Genome Sequence of a Major Allogamous Forage Species, Perennial Ryegrass (Lolium perenne L.)

(2009) K. Diekmann et al.   DNA RESEARCH

Site-specific binding of a PPR protein defines and stabilizes 5′ and 3′ mRNA termini in chloroplasts

(2009) Jeannette Pfalz et al.   EMBO JOURNAL

Circos: An information aesthetic for comparative genomics

(2009) M. Krzywinski et al.   GENOME RESEARCH

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

(2009) Ben Langmead et al.   GENOME BIOLOGY

Complex chloroplast RNA metabolism: just debugging the genetic programme?

(2008) Uwe G Maier et al.   BMC BIOLOGY