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

Genome ◽  
2008 ◽  
Vol 51 (1) ◽  
pp. 50-63 ◽  
Author(s):  
Philippe Cubry ◽  
Pascal Musoli ◽  
Hyacinte Legnaté ◽  
David Pot ◽  
Fabien de Bellis ◽  
...  
Keyword(s):  
Genetic Diversity ◽  
Molecular Markers ◽  
Microsatellite Markers ◽  
Wild Species ◽  
Comparative Mapping ◽  
Coffea Arabica ◽  
Bac Libraries ◽  
Cultivated Species ◽  
Coffee Species ◽  
Coffea Arabica L

The present study shows transferability of microsatellite markers developed in the two cultivated coffee species ( Coffea arabica L. and C. canephora Pierre ex Froehn.) to 15 species representing the previously identified main groups of the genus Coffea. Evaluation of the genetic diversity and available resources within Coffea and development of molecular markers transferable across species are important steps for breeding of the two cultivated species. We worked on 15 species with 60 microsatellite markers developed using different strategies (SSR-enriched libraries, BAC libraries, gene sequences). We focused our analysis on 4 species used for commercial or breeding purposes. Our results establish the high transferability of microsatellite markers within Coffea. We show the large amount of diversity available within wild species for breeding applications. Finally we discuss the consequences for future comparative mapping studies and breeding of the two cultivated species.

scholarly journals Genetic Diversity of Coffea arabica

2020 ◽  
Author(s):  
Juliano Lino Ferreira ◽  
Eveline Teixeira Caixeta ◽  
Fernanda Fatima Caniato ◽  
Tesfahun Setotaw ◽  
Gustavo César Sant’Ana ◽  
...  
Keyword(s):  
Genetic Diversity ◽  
Coffea Arabica ◽  
Agronomic Traits ◽  
Economic Value ◽  
Global Market ◽  
Economic Implications ◽  
New Varieties ◽  
Diversity Studies ◽  
Coffee Species ◽  
Coffea Arabica L

Coffea arabica L. is a native coffee species probably originated in Abyssinia, now Ethiopia. The genetic diversity of C. arabica has economic implications directly related to profits by breeding for developing new varieties to a global market. The economic value of C. arabica genetic resources are estimated at US$ 420 million, considered a 10% discount rate. Understanding the extent of traits variability and genetic diversity is essential to guide crosses between genotypes, targeting the development of new varieties with high economic value. This chapter will present the C. arabica economic importance, primarily to Brazil, the most significant world producer; we will outline the origin and dispersion of arabica coffee and briefly show the leading germplasm banks. We will also point out contribution of genetic diversity studies based on morphological, agronomic traits, and molecular markers supporting the development of new varieties. Finally, we present an outline for the future.

scholarly journals Unveiling a unique genetic diversity of cultivated Coffea arabica L. in its main domestication center: Yemen

2021 ◽  
Author(s):  
C. Montagnon ◽  
A. Mahyoub ◽  
W. Solano ◽  
F. Sheibani
Keyword(s):  
Genetic Diversity ◽  
Genetic Distance ◽  
Coffea Arabica ◽  
Genetic Improvement ◽  
The World ◽  
Genetic Clusters ◽  
Domestication Process ◽  
Almost All ◽  
Coffea Arabica L ◽  
Cup Quality

AbstractWhilst it is established that almost all cultivated coffee (Coffea arabica L.) varieties originated in Yemen after some coffee seeds were introduced into Yemen from neighboring Ethiopia, the actual coffee genetic diversity in Yemen and its significance to the coffee world had never been explored. We observed five genetic clusters. The first cluster, which we named the Ethiopian-Only (EO) cluster, was made up exclusively of the Ethiopian accessions. This cluster was clearly separated from the Yemen and cultivated varieties clusters, hence confirming the genetic distance between wild Ethiopian accessions and coffee cultivated varieties around the world. The second cluster, which we named the SL-17 cluster, was a small cluster of cultivated worldwide varieties and included no Yemen samples. Two other clusters were made up of worldwide varieties and Yemen samples. We named these the Yemen Typica-Bourbon cluster and the Yemen SL-34 cluster. Finally, we observed one cluster that was unique to Yemen and was not related to any known cultivated varieties and not even to any known Ethiopian accession: we name this cluster the New-Yemen cluster. We discuss the consequences of these findings and their potential to pave the way for further comprehensive genetic improvement projects for the identification of major resilience/adaptation and cup quality genes that have been shaped through the domestication process of C. arabica.

scholarly journals Assessment of genetic diversity in Indian Barnyard millet (Echinochloa spp. complex) using morphological and molecular markers

2016 ◽  
Vol 8 (3) ◽  
pp. 1643-1648 ◽  
Author(s):  
M. P. Moharil ◽  
Dipti Gawai ◽  
N. Dikshit ◽  
M.S. Dudhare ◽  
P. V. Jadhav
Keyword(s):  
Genetic Diversity ◽  
Molecular Markers ◽  
Genetic Improvement ◽  
Molecular Diversity ◽  
Genetic Relationships ◽  
Barnyard Millet ◽  
Clear Cut ◽  
Cultivated Species ◽  
High Degree

In the present study, morphological and molecular markers (RAPD primers) were used to analyze the genetic diversity and genetic relationships among 21 accessions of Echinochloa spp. complex comprising the wild and cultivated species collected from Melghat and adjoining regions of Vidarbha, Maharashtra. The availability of diverse genetic resources is a prerequisite for genetic improvement of any crop including barnyard millet. A high degree of molecular diversity among the landraces was detected. Among the 21 genotypes, two major groups (A and B) were formed, at 67.28 % similarity, which clearly encompasses 15 accessions of E. frumentacea and 6 accessions of E. colona. Higher similarity was observed in accessions of E. frumentacea. The accessions IC 597322 and IC 597323 also IC 597302 and IC 597304 showed more than 94% similarity among themselves. The classification of genetic diversity has enabled clear-cut grouping of barnyard millet accessions into two morphological races (E. frumentacea and E. colona).

Schistosome genetic diversity: the implications of population structure as detected with microsatellite markers

Parasitology ◽  
2002 ◽  
Vol 125 (7) ◽  
pp. S51-S59 ◽  
Author(s):  
J. CURTIS ◽  
R. E. SORENSEN ◽  
D. J. MINCHELLA
Keyword(s):  
Genetic Diversity ◽  
Population Structure ◽  
Genetic Variation ◽  
Molecular Markers ◽  
Microsatellite Markers ◽  
Natural Populations ◽  
Mitochondrial Marker ◽  
Tropical Regions ◽  
Blood Flukes

Blood flukes in the genus Schistosoma are important human parasites in tropical regions. A substantial amount of genetic diversity has been described in populations of these parasites using molecular markers. We first consider the extent of genetic variation found in Schistosoma mansoni and some factors that may be contributing to this variation. Recently, though, attempts have been made to analyze not only the genetic diversity but how that diversity is partitioned within natural populations of schistosomes. Studies with non-allelic molecular markers (e.g. RAPDs and mtVNTRs) have indicated that schistosome populations exhibit varying levels of gene flow among component subpopulations. The recent characterization of microsatellite markers for S. mansoni provided an opportunity to study schistosome population structure within a population of schistosomes from a single Brazilian village using allelic markers. Whereas the detection of population structure depends strongly on the type of analysis with a mitochondrial marker, analyses with a set of seven microsatellite loci consistently revealed moderate genetic differentiation when village boroughs were used to define parasite subpopulations and greater subdivision when human hosts defined subpopulations. Finally, we discuss the implications that such strong population structure might have on schistosome epidemiology.

Isolation and characterization of nine microsatellite markers from Coffea arabica L., showing wide cross-species amplifications

2003 ◽  
Vol 3 (4) ◽  
pp. 647-650 ◽  
Author(s):  
A. Baruah ◽  
V. Naik ◽  
P. S. Hendre ◽  
R. Rajkumar ◽  
P. Rajendrakumar ◽  
...  
Keyword(s):  
Microsatellite Markers ◽  
Coffea Arabica ◽  
Wide Cross ◽  
Isolation And Characterization ◽  
Coffea Arabica L

scholarly journals Assessment of coffee (coffea arabica L.) genetic erosion and genetic resources management in Ethiopia

2020 ◽  
Vol 7 (3) ◽  
pp. 223-229
Author(s):  
Afework Legesse
Keyword(s):  
Climate Change ◽  
Genetic Diversity ◽  
Coffea Arabica ◽  
Genetic Erosion ◽  
Evolutionary Potential ◽  
Arabica Coffee ◽  
Resources Management ◽  
Genetic Resources Management ◽  
Coffee Yield ◽  
Coffea Arabica L

Coffee is an important source of annual income and employment contributing significantly to the economies of many developing countries. Ethiopia is the center of origin and diversity of Coffea arabica L., there is immense genetic variability that offers great potential for improvement of the crop. The objective of this paper is to assess the status of Coffee genetic diversity, identify major factors that cause coffee genetic erosion and status of coffee genetics resources management in Ethiopia.  The presences of high genetic diversity in wild Coffea arabica in Ethiopia were reported by different authors. However, the genetic diversity of coffea arabica L. are being lost rapidly due to several factors such as human population pressures leading to conversion of land to agriculture, deforestation and land degradation; low coffee prices leading to abandoning of coffee trees in forests and gardens and shifting cultivation to other more remunerative crops; and climate change. Additionally, narrow genetic basis of commercially used Arabica coffee cultivars and increased incidence of pests and diseases associated with climate change is leading to significant crop losses, threatening livelihoods in many coffee growing countries. Therefore, Conserving the wild Arabica coffee gene pool and its evolutionary potential present in Ethiopia is critically important for maintaining coffee yield, disease resistance, drought tolerant, quality and other important traits in future breeding program

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