The complete chloroplast genome of the Jerusalem artichoke (Helianthus tuberosus L.) and an adaptive evolutionary analysis of the ycf2 gene

EasyCodeML: A visual tool for analysis of selection using CodeML

(2019) Fangluan Gao et al.   Ecology and Evolution

Per-Nucleus Crossover Covariation and Implications for Evolution

(2019) Shunxin Wang et al.   CELL

Evolution of plastid genomes of Holcoglossum (Orchidaceae) with recent radiation

(2019) Zhang-Hai Li et al.   BMC EVOLUTIONARY BIOLOGY

Chloroplast genome analyses and genomic resource development for epilithic sister genera Oresitrophe and Mukdenia (Saxifragaceae), using genome skimming data

(2018) Luxian Liu et al.   BMC GENOMICS

HomBlocks: A multiple-alignment construction pipeline for organelle phylogenomics based on locally collinear block searching

(2018) Guiqi Bi et al.   GENOMICS

Description of two three-gendered nematode species in the new genus Auanema (Rhabditina) that are models for reproductive mode evolution

(2017) Natsumi Kanzaki et al.   Scientific Reports

tRNAscan-SE On-line: integrating search and context for analysis of transfer RNA genes

(2016) Todd M. Lowe et al.   NUCLEIC ACIDS RESEARCH

Complete Chloroplast Genome of Nicotiana otophora and its Comparison with Related Species

(2016) Sajjad Asaf et al.   Frontiers in Plant Science

Comparative Analysis of the Complete Chloroplast Genomes of Five Quercus Species

(2016) Yanci Yang et al.   Frontiers in Plant Science

The complete chloroplast genome sequence of Aster spathulifolius (Asteraceae); genomic features and relationship with Asteraceae

(2015) Kyoung Su Choi et al.   GENE

Bioethanol production from the dry powder of Jerusalem artichoke tubers by recombinant Saccharomyces cerevisiae in simultaneous saccharification and fermentation

(2015) Yi-Zhou Wang et al.   JOURNAL OF INDUSTRIAL MICROBIOLOGY & BIOTECHNOLOGY

The Complete Chloroplast Genome of Capsicum annuum var. glabriusculum Using Illumina Sequencing

(2015) Sebastin Raveendar et al.   MOLECULES

Complete Chloroplast Genome of the Multifunctional Crop Globe Artichoke and Comparison with Other Asteraceae

(2015) Pasquale L. Curci et al.   PLoS One

RAxML version 8: a tool for phylogenetic analysis and post-analysis of large phylogenies

(2014) Alexandros Stamatakis   BIOINFORMATICS

Complete Chloroplast Genome Sequence of Poisonous and Medicinal Plant Datura stramonium: Organizations and Implications for Genetic Engineering

(2014) Yang Yang et al.   PLoS One

Review: the Antarctic Chlamydomonas raudensis: an emerging model for cold adaptation of photosynthesis

(2013) Jenna M. Dolhi et al.   EXTREMOPHILES

PAMLX: A Graphical User Interface for PAML

(2013) B. Xu et al.   MOLECULAR BIOLOGY AND EVOLUTION

Chloroplast genome analysis of Australian eucalypts – Eucalyptus, Corymbia, Angophora, Allosyncarpia and Stockwellia (Myrtaceae)

(2013) Michael J. Bayly et al.   MOLECULAR PHYLOGENETICS AND EVOLUTION

Genome skimming reveals the origin of the Jerusalem Artichoke tuber crop species: neither from Jerusalem nor an artichoke

(2013) Dan G. Bock et al.   NEW PHYTOLOGIST

OrganellarGenomeDRAW—a suite of tools for generating physical maps of plastid and mitochondrial genomes and visualizing expression data sets

(2013) Marc Lohse et al.   NUCLEIC ACIDS RESEARCH

The Complete Chloroplast Genome Sequence of the Medicinal Plant Salvia miltiorrhiza

(2013) Jun Qian et al.   PLoS One

Identification of Optimum Sequencing Depth Especially for De Novo Genome Assembly of Small Genomes Using Next Generation Sequencing Data

(2013) Aarti Desai et al.   PLoS One

SPAdes: A New Genome Assembly Algorithm and Its Applications to Single-Cell Sequencing

(2012) Anton Bankevich et al.   JOURNAL OF COMPUTATIONAL BIOLOGY

jModelTest 2: more models, new heuristics and parallel computing

(2012) Diego Darriba et al.   NATURE METHODS

An Improved Chloroplast DNA Extraction Procedure for Whole Plastid Genome Sequencing

(2012) Chao Shi et al.   PLoS One

Complete Chloroplast Genome Sequence of a Major Invasive Species, Crofton Weed (Ageratina adenophora)

(2012) Xiaojun Nie et al.   PLoS One

MrBayes 3.2: Efficient Bayesian Phylogenetic Inference and Model Choice Across a Large Model Space

(2012) Fredrik Ronquist et al.   SYSTEMATIC BIOLOGY

Toward almost closed genomes with GapFiller

(2012) Marten Boetzer et al.   GENOME BIOLOGY

SOAPdenovo2: an empirically improved memory-efficient short-read de novo assembler

(2012) Ruibang Luo et al.   GigaScience

The Complete Chloroplast Genome of 17 Individuals of Pest Species Jacobaea vulgaris: SNPs, Microsatellites and Barcoding Markers for Population and Phylogenetic Studies

(2011) L. Doorduin et al.   DNA RESEARCH

A simplified spectrophotometric method for the determination of inulin in Jerusalem artichoke (Helianthus tuberosus L.) tubers

(2011) Araya Saengkanuk et al.   EUROPEAN FOOD RESEARCH AND TECHNOLOGY

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

(2011) Susann Wicke et al.   PLANT MOLECULAR BIOLOGY

Molecular evolution and phylogeny of the angiosperm ycf2 gene

(2010) Jin-Ling HUANG et al.   Journal of Systematics and Evolution

De novo fragment assembly with short mate-paired reads: Does the read length matter?

(2008) M. J. Chaisson et al.   GENOME RESEARCH