4.7 Article

Whole-genome resequencing of Coffea arabica L. (Rubiaceae) genotypes identify SNP and unravels distinct groups showing a strong geographical pattern

相关参考文献

注意:仅列出部分参考文献,下载原文获取全部文献信息。
Article Multidisciplinary Sciences

Genetic diversity of native and cultivated Ugandan Robusta coffee (Coffea canephora Pierre ex A. Froehner): Climate influences, breeding potential and diversity conservation

Catherine Kiwuka et al.

Summary: The study utilized 19 microsatellite markers to assess the genetic diversity of native wild coffee populations in Uganda and found differences from other known genetic groups. It also revealed that the majority of coffee planted in the region is of Congolese origin.

PLOS ONE (2021)

Article Biodiversity Conservation

Selecting a core set of nuclear SNP markers for molecular characterization of Arabica coffee (Coffea arabica L.) genetic resources

Dapeng Zhang et al.

Summary: The study screened 672 candidate SNPs using Nano-Fluidic Array genotyping and selected a panel of 96 SNPs for genotyping Coffea arabica based on call rate, Minor Allele Frequency, and Linkage Disequilibrium. This validated panel is suitable for coffee germplasm conservation, crop improvement, varietal identification, seed and nursery accreditation, and coffee bean authentication.

CONSERVATION GENETICS RESOURCES (2021)

Article Multidisciplinary Sciences

The potential for income improvement and biodiversity conservation via specialty coffee in Ethiopia

Pascale Schuit et al.

Summary: The study demonstrates that participating in the specialty coffee market can increase income for coffee farmers, but with certain conditions. The high prices of specialty coffee can boost forest coffee production and promote forest conservation.
Article Agronomy

Genetic diversity among commercial arabica coffee (Coffea arabica L.) varieties in Ethiopia using simple sequence repeat markers

Tadesse Benti et al.

Summary: The study assessed the genetic diversity among Ethiopian commercial arabica coffee varieties and found a high level of genetic diversity with distant genetic relatedness among the varieties. Divergent varieties with complementing traits could be crossed to develop productive hybrid coffee varieties.

JOURNAL OF CROP IMPROVEMENT (2021)

Article Biochemistry & Molecular Biology

Resequencing 93 accessions of coffee unveils independent and parallel selection during Coffea species divergence

Lifang Huang et al.

PLANT MOLECULAR BIOLOGY (2020)

Article Agronomy

Genetic diversity of coffee (Coffea spp.) in Mexico evaluated by using DArTseq and SNP markers

J. L. Spinoso-Castillo et al.

GENETIC RESOURCES AND CROP EVOLUTION (2020)

Article Biochemical Research Methods

Chloroplast Genome Sequence Variations and Development of Polymorphic Markers in Coffea arabica

Yeshitila Mekbib et al.

PLANT MOLECULAR BIOLOGY REPORTER (2020)

Article Agronomy

The effect of bienniality on genomic prediction of yield in arabica coffee

Humberto Fanelli Carvalho et al.

EUPHYTICA (2020)

Article Multidisciplinary Sciences

Whole genome sequence analysis of rice genotypes with contrasting response to salinity stress

Prasanta K. Subudhi et al.

SCIENTIFIC REPORTS (2020)

Article Biochemistry & Molecular Biology

Genomic Analyses Yield Markers for Identifying Agronomically Important Genes in Potato

Yangping Li et al.

MOLECULAR PLANT (2018)

Article Biotechnology & Applied Microbiology

Use of a draft genome of coffee (Coffea arabica) to identify SNPs associated with caffeine content

Hue T. M. Tran et al.

PLANT BIOTECHNOLOGY JOURNAL (2018)

Article Forestry

SNP in the Coffea arabica genome associated with coffee quality

Hue T. M. Tran et al.

TREE GENETICS & GENOMES (2018)

Article Plant Sciences

Resilience potential of the Ethiopian coffee sector under climate change

Justin Moat et al.

NATURE PLANTS (2017)

Article Agriculture, Multidisciplinary

Conserving wild Arabica coffee: Emerging threats and opportunities

Raf Aerts et al.

AGRICULTURE ECOSYSTEMS & ENVIRONMENT (2017)

Review Agriculture, Multidisciplinary

Advances in genomics for the improvement of quality in coffee

Hue T. M. Tran et al.

JOURNAL OF THE SCIENCE OF FOOD AND AGRICULTURE (2016)

Article Plant Sciences

Genome-wide SNP identification and QTL mapping for black rot resistance in cabbage

Jonghoon Lee et al.

BMC PLANT BIOLOGY (2015)

Article Biochemical Research Methods

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

Alexandros Stamatakis

BIOINFORMATICS (2014)

Article Plant Sciences

Deep resequencing reveals allelic variation in Sesamum indicum

Linhai Wang et al.

BMC PLANT BIOLOGY (2014)

Article Plant Sciences

Next-generation genebanking: plant genetic resources management and utilization in the sequencing era

Rob van Treuren et al.

PLANT GENETIC RESOURCES-CHARACTERIZATION AND UTILIZATION (2014)

Review Mathematical & Computational Biology

Unraveling genomic variation from next generation sequencing data

Georgios A. Pavlopoulos et al.

BIODATA MINING (2013)

Article Biotechnology & Applied Microbiology

Genome-wide DNA polymorphisms in elite indica rice inbreds discovered by whole-genome sequencing

Gopala K. Subbaiyan et al.

PLANT BIOTECHNOLOGY JOURNAL (2012)

Article Biochemical Research Methods

Fast and accurate long-read alignment with Burrows-Wheeler transform

Heng Li et al.

BIOINFORMATICS (2010)

Article Biochemistry & Molecular Biology

The Genome Analysis Toolkit: A MapReduce framework for analyzing next-generation DNA sequencing data

Aaron McKenna et al.

GENOME RESEARCH (2010)

Article Biochemical Research Methods

The Sequence Alignment/Map format and SAMtools

Heng Li et al.

BIOINFORMATICS (2009)

Review Plant Sciences

Markers and mapping revisited: finding your gene

Neil Jones et al.

NEW PHYTOLOGIST (2009)

Review Agronomy

Current status of coffee (Coffea arabica L.) genetic resources in Ethiopia:: implications for conservation

Jean-Pierre Labouisse et al.

GENETIC RESOURCES AND CROP EVOLUTION (2008)

Article Ecology

The economic value of coffee (Coffea arabica) genetic resources

Lars Hein et al.

ECOLOGICAL ECONOMICS (2006)

Review Genetics & Heredity

Phylogenomics and the reconstruction of the tree of life

F Delsuc et al.

NATURE REVIEWS GENETICS (2005)