High-throughput targeted genotyping using next-generation sequencing applied in Coffea canephora breeding

Genotyping-by-sequencing provides the first well-resolved phylogeny for coffee ( Coffea ) and insights into the evolution of caffeine content in its species

(2017) Perla Hamon et al.   MOLECULAR PHYLOGENETICS AND EVOLUTION

A mixed model to multiple harvest-location trials applied to genomic prediction in Coffea canephora

(2017) Luís Felipe Ventorim Ferrão et al.   Tree Genetics & Genomes

Identification by the DArTseq method of the genetic origin of the Coffea canephora cultivated in Vietnam and Mexico

(2016) Andrea Garavito et al.   BMC PLANT BIOLOGY

MEGA7: Molecular Evolutionary Genetics Analysis Version 7.0 for Bigger Datasets

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

Chemical partitioning and antioxidant capacity of green coffee (Coffea arabica and Coffea canephora) of different geographical origin

(2016) Oxana Babova et al.   PHYTOCHEMISTRY

Natural Allelic Variations in Highly Polyploidy Saccharum Complex

(2016) Jian Song et al.   Frontiers in Plant Science

Developing Single Nucleotide Polymorphism (SNP) Markers for the Identification of Coffee Germplasm

(2016) Lin Zhou et al.   Tropical Plant Biology

Genome-wide association study for flowering time, maturity dates and plant height in early maturing soybean (Glycine max) germplasm

(2015) Jiaoping Zhang et al.   BMC GENOMICS

New EST–SSR markers of Coffea arabica: transferability and application to studies of molecular characterization and genetic mapping

(2015) Luís Felipe V. Ferrão et al.   MOLECULAR BREEDING

ClustVis: a web tool for visualizing clustering of multivariate data using Principal Component Analysis and heatmap

(2015) Tauno Metsalu et al.   NUCLEIC ACIDS RESEARCH

MOSAIK: A Hash-Based Algorithm for Accurate Next-Generation Sequencing Short-Read Mapping

(2014) Wan-Ping Lee et al.   PLoS One

The coffee genome provides insight into the convergent evolution of caffeine biosynthesis

(2014) F. Denoeud et al.   SCIENCE

GENES - a software package for analysis in experimental statistics and quantitative genetics - doi: 10.4025/actasciagron.v35i3.21251

(2013) Cosme Damião Cruz   Acta scientiarum. Agronomy.

A genetic map of an interspecific diploid pseudo testcross population of coffee

(2013) Germán Ariel López Gartner et al.   EUPHYTICA

Genetic Diversity Revealed by Single Nucleotide Polymorphism Markers in a Worldwide Germplasm Collection of Durum Wheat

(2013) Jing Ren et al.   INTERNATIONAL JOURNAL OF MOLECULAR SCIENCES

Whole-exome targeted sequencing of the uncharacterized pine genome

(2013) Leandro G. Neves et al.   PLANT JOURNAL

A High-Density Gene Map of Loblolly Pine ( Pinus taeda L.) Based on Exome Sequence Capture Genotyping

(2013) Leandro Gomide Neves et al.   G3-Genes Genomes Genetics

Review on the development of genotyping methods for assessing farm animal diversity

(2013) Wanjie Yang et al.   Journal of Animal Science and Biotechnology

Global analysis of Coffea canephora Pierre ex Froehner (Rubiaceae) from the Guineo-Congolese region reveals impacts from climatic refuges and migration effects

(2012) Philippe Cubry et al.   GENETIC RESOURCES AND CROP EVOLUTION

Differentially expressed genes and proteins upon drought acclimation in tolerant and sensitive genotypes of Coffea canephora

(2012) P. Marraccini et al.   JOURNAL OF EXPERIMENTAL BOTANY

Comparative study of different molecular markers for classifying and establishing genetic relationships in Coffea canephora

(2012) Luís Felipe V. Ferrão et al.   PLANT SYSTEMATICS AND EVOLUTION

The variant call format and VCFtools

(2011) P. Danecek et al.   BIOINFORMATICS

Population Structure and Genetic Diversity in a Rice Core Collection (Oryza sativa L.) Investigated with SSR Markers

(2011) Peng Zhang et al.   PLoS One

High-density genetic mapping for coffee leaf rust resistance

(2011) Valdir Diola et al.   Tree Genetics & Genomes

STRUCTURE HARVESTER: a website and program for visualizing STRUCTURE output and implementing the Evanno method

(2011) Dent A. Earl et al.   Conservation Genetics Resources

From SNPs to functional polymorphism: The insight into biotechnology applications

(2010) Pei-Yu Liao et al.   BIOCHEMICAL ENGINEERING JOURNAL

Sequenciamento de DNA de nova geração e suas aplicações na genômica de plantas

(2010) Mayra Costa da Cruz Gallo de Carvalho et al.   CIENCIA RURAL

Inheritance of coffee leaf rust resistance and identification of AFLP markers linked to the resistance gene

(2010) Giovani Greigh de Brito et al.   EUPHYTICA

Data quality control in genetic case-control association studies

(2010) Carl A Anderson et al.   Nature Protocols

Current genetic differentiation of Coffea canephora Pierre ex A. Froehn in the Guineo-Congolian African zone: cumulative impact of ancient climatic changes and recent human activities

(2009) Céline Gomez et al.   BMC EVOLUTIONARY BIOLOGY

Genetic differentiation of wild and cultivated populations: diversity of Coffea canephora Pierre in Uganda

(2009) P. Musoli et al.   GENOME

Circos: An information aesthetic for comparative genomics

(2009) M. Krzywinski et al.   GENOME RESEARCH

Solution hybrid selection with ultra-long oligonucleotides for massively parallel targeted sequencing

(2009) Andreas Gnirke et al.   NATURE BIOTECHNOLOGY

Marcadores SNP: conceitos básicos, aplicações no manejo e no melhoramento animal e perspectivas para o futuro

(2009) Alexandre Rodrigues Caetano   REVISTA BRASILEIRA DE ZOOTECNIA-BRAZILIAN JOURNAL OF ANIMAL SCIENCE

Detection of SNPs in bovine immune-response genes that may mediate resistance to the cattle tick Rhipicephalus (Boophilus) microplus

(2008) A. R. R. Abatepaulo et al.   ANIMAL GENETICS

Diversity in coffee assessed with SSR markers: structure of the genus Coffea and perspectives for breeding

(2008) Philippe Cubry et al.   GENOME

Impact of genetics in childhood asthma

(2008) Leonardo A. Pinto et al.   Jornal de Pediatria