Phylogenetic relationships of Aurantioideae (Rutaceae) based on RAD-Seq

Genomic analyses of primitive, wild and cultivated citrus provide insights into asexual reproduction

(2017) Xia Wang et al.   NATURE GENETICS

Towards a molecular taxonomic key of the Aurantioideae subfamily using chloroplastic SNP diagnostic markers of the main clades genotyped by competitive allele-specific PCR

(2016) Amel Oueslati et al.   BMC GENETICS

RAD-Seq analysis of typical and minor Citrus accessions, including Bhutanese varieties

(2016) Tshering Penjor et al.   BREEDING SCIENCE

MEGA7: Molecular Evolutionary Genetics Analysis Version 7.0 for Bigger Datasets

(2016) Sudhir Kumar et al.   MOLECULAR BIOLOGY AND EVOLUTION

Harnessing the power of RADseq for ecological and evolutionary genomics

(2016) Kimberly R. Andrews et al.   NATURE REVIEWS GENETICS

The Origin of Oranges: A Multi-locus Phylogeny of Rutaceae Subfamily Aurantioideae

(2016) Thomas Schwartz et al.   SYSTEMATIC BOTANY

A Phylogenetic Analysis of 34 Chloroplast Genomes Elucidates the Relationships between Wild and Domestic Species within the GenusCitrus

(2015) Jose Carbonell-Caballero et al.   MOLECULAR BIOLOGY AND EVOLUTION

High-throughput linkage mapping of Australian white cypress pine (Callitris glaucophylla) and map transferability to related species

(2015) Shota Sakaguchi et al.   Tree Genetics & Genomes

Nuclear Species-Diagnostic SNP Markers Mined from 454 Amplicon Sequencing Reveal Admixture Genomic Structure of Modern Citrus Varieties

(2015) Franck Curk et al.   PLoS One

PyRAD: assembly of de novo RADseq loci for phylogenetic analyses

(2014) Deren A. R. Eaton   BIOINFORMATICS

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

(2014) Alexandros Stamatakis   BIOINFORMATICS

Next generation haplotyping to decipher nuclear genomic interspecific admixture in Citrusspecies: analysis of chromosome 2

(2014) Franck Curk et al.   BMC GENETICS

Characterization of limes (Citrus aurantifolia) grown in Bhutan and Indonesia using high-throughput sequencing

(2014) Tshering Penjor et al.   Scientific Reports

Stacks: an analysis tool set for population genomics

(2013) Julian Catchen et al.   MOLECULAR ECOLOGY

Phylogenetic Relationships of Citrus and Its Relatives Based on matK Gene Sequences

(2013) Tshering Penjor et al.   PLoS One

A nuclear phylogenetic analysis: SNPs, indels and SSRs deliver new insights into the relationships in the ‘true citrus fruit trees’ group (Citrinae, Rutaceae) and the origin of cultivated species

(2012) Andres Garcia-Lor et al.   ANNALS OF BOTANY

The draft genome of sweet orange (Citrus sinensis)

(2012) Qiang Xu et al.   NATURE GENETICS

Fast gapped-read alignment with Bowtie 2

(2012) Ben Langmead et al.   NATURE METHODS

Double Digest RADseq: An Inexpensive Method for De Novo SNP Discovery and Genotyping in Model and Non-Model Species

(2012) Brant K. Peterson et al.   PLoS One

Stacks : Building and Genotyping Loci De Novo From Short-Read Sequences

(2011) Julian M. Catchen et al.   G3-Genes Genomes Genetics

Phylogenetic relationships of Citrus and its relatives based on rbcL gene sequences

(2010) Tshering Penjor et al.   Tree Genetics & Genomes

New universal mitochondrial PCR markers reveal new information on maternal citrus phylogeny

(2010) Yann Froelicher et al.   Tree Genetics & Genomes

A molecular phylogeny of the orange subfamily(Rutaceae: Aurantioideae) using nine cpDNA sequences

(2009) Randall J. Bayer et al.   AMERICAN JOURNAL OF BOTANY

Phylogenetic relationships of the Aurantioideae (Rutaceae) based on the nuclear ribosomal DNA ITS region and three noncoding chloroplast DNA regions, atpB-rbcL spacer, rps16, and trnL-trnF

(2009) Cynthia M. Morton   ORGANISMS DIVERSITY & EVOLUTION

Rapid SNP Discovery and Genetic Mapping Using Sequenced RAD Markers

(2008) Nathan A. Baird et al.   PLoS One