scholarly journals Genetic Diversity Among Ethiopian Coffee (Coffea Arabica L.) Collections Available In Indian Gene Bank Using Sequence Related Amplified Polymorphism Markers

2014 ◽  
Vol 70 (1) ◽  
pp. 29-40 ◽  
Author(s):  
Manoj Kumar Mishra ◽  
Sandhyarani Nishani ◽  
Madhura Gowda ◽  
Dandamudi Padmajyothi ◽  
Narayana Suresh ◽  
...  
Keyword(s):  
Genetic Diversity ◽  
Coffea Arabica ◽  
Clustering Algorithm ◽  
Germplasm Conservation ◽  
Gene Bank ◽  
Resolving Power ◽  
Srap Marker ◽  
Improvement Program ◽  
Arabica Coffee ◽  
Rare Alleles

Abstract The South-Western highlands of Ethiopia are considered to be the centre of origin and diversity of the arabica coffee, Coffea arabica. More than 80 accessions of arabica coffee collected from Ethiopia are available in Indian gene bank. However, the genetic diversity of these accessions is not studied in detail. In the present study, genetic diversity analysis of 48 accessions collected from eight provinces of Ethiopia was carried out using Sequence-related amplified Polymorphism (SRAP) marker. Among the thirty two SRAP primer combinations tested, 14 primer pairs were polymorphic and generated 203 distinct fragments. The number of fragments ranged from 7 to 21 with a mean of 14.5 fragments per primer combination. Of the total 203 amplified fragments, 182 (89.65%) were polymorphic and the percent of polymorphism ranged from 53.84% to a maximum of 100% using different primers. The average resolving power (Rp) and average polymorphism information content (PIC) of the 14 SRAP primer combinations was 14.31 and 0.648 respectively. A total of 13 rare alleles were obtained from SRAP assays, of which six rare alleles were obtained from the accessions collected from Shoa province. The UPGMA clustering algorithm from SRAP analysis grouped the 48 coffee accessions into two major clusters. The accessions collected from particular province clustered together which could be attributed to the substantial gene flow between adjacent population and the influence of geographical origin on genetic diversity. The study demonstrated the existence of substantial genetic variation in Ethiopian germplasm which could be utilized in coffee germplasm conservation and improvement program.

scholarly journals Organoleptic, Sensory and Biochemical Traits of Arabica Coffee and their Arabusta Hybrids

2021 ◽  
Author(s):  
Kahiu Ngugi ◽  
Jane Jerono Cheserek ◽  
Chrispine Ogutu Omondi
Keyword(s):  
Experimental Data ◽  
Genetic Diversity ◽  
Genetic Variation ◽  
Coffea Arabica ◽  
Small Scale ◽  
Arabica Coffee ◽  
Biochemical Compounds ◽  
Small Scale Farmers ◽  
Organoleptic Traits ◽  
Cup Quality

Coffee as a cash crop, reduces food insecurity by providing regular incomes and is a major foreign exchange earner in more than fifty tropical countries where it is grown either as Arabica (Coffea arabica) or Robust (Coffea canepora). In Kenya which grow some Robusta but mostly Arabica coffee, the production has been declining, mainly because world coffee prices have plummeted to about 5 USD for a 650Kg of un-hulled beans per acre. The only way world prices are likely to increase and benefit the small-scale farmers, is by improving the cup quality and enabling these countries to sell their coffee in specialty markets. This review, underscores the importance of analyzing and estimating organoleptic, sensory and biochemical compounds diversity in Arabica coffee, since these are the factors that determine cup quality. In an attempt to do so, the chapter presents experimental data that analyzed various sensory and organoleptic traits of Arabica coffee and their Arabusta hybrids that proves that tremendous genetic diversity exists in coffee genotypes grown in Kenya and it is possible to utilize this genetic variation to improve cup quality.

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

scholarly journals Molecular identification and genetic relationships among coffee species (Coffea L.) inferred from ISSR and SRAP marker analyses

2011 ◽  
Vol 63 (3) ◽  
pp. 667-679 ◽  
Author(s):  
Kumar Mishra ◽  
Sandhyarani Nishani ◽  
J Jayarama
Keyword(s):  
Genetic Diversity ◽  
Genetic Similarity ◽  
Genetic Relationships ◽  
Resolving Power ◽  
Diversity Analysis ◽  
Srap Marker ◽  
Genetic Diversity Analysis ◽  
Species Specific ◽  
Coffee Species ◽  
Issr Primers

The identification and genetic relationships of 23 coffee species and one coffee-related species Canthium diccocum were studied using ISSR and SRAP markers. The average polymorphism information content of SRAP primers (0.81) was lower than ISSR primers (0.86), whereas the average resolving power of the SRAP primers (9.74) is higher than the ISSR primers (8.64). The genetic similarity among the species ranged from 0.30 to 0.89 using ISSR and 0.11 to 0.90 using SRAP marker systems. Based on marker analysis, all twenty three coffee species were clustered into two major groups. Both the markers amplified species-specific fragments and are useful in genetic diversity analysis of coffee.

scholarly journals 217 Capturing genetic diversity – an assessment of the nation’s gene bank in securing Duroc pigs

2019 ◽  
Vol 97 (Supplement_3) ◽  
pp. 46-46
Author(s):  
Carrie S Wilson ◽  
Gary A Rohrer ◽  
Douglas W Newcom ◽  
Harvey D Blackburn
Keyword(s):  
Genetic Diversity ◽  
Quality Control ◽  
Allele Frequency ◽  
Gene Bank ◽  
The Other ◽  
Polymorphic Markers ◽  
Call Rate ◽  
Rare Alleles ◽  
Two Populations

Abstract Benchmarking the completeness of gene bank collections (GBC) vs in-situ populations is an indicator of how well collections can represent a breed. To that end, we compared Durocs in the gene bank (69 animals) vs in-situ population (175 animals) using molecular markers. The in-situ pigs were from 10 states and 42 breeders (provided by National Swine Registry and USMARC) while the GBC pigs were from 14 states and 39 breeders. In-situ and GBC pigs were genotyped using the Illumina PorcineSNP60v1 and GGP-HD SNP arrays, respectively. Using both arrays, the SNP mapped to autosomal chromosomes were imputed using AlphaImpute software resulting in a combination of 71,515 SNP. Analyses were done using SNP & Variation Suite v8.8.1. After quality control deletions for call rate, sample rate, and monomorphic markers, 32,215 SNP remained and 4 in-situ animals were excluded. In-situ and GBC estimates of heterozygosity were similar (HO ~ 0.32 and HE ~ 0.32). The in-situ and GBC populations had 459 and 1,228 monomorphic markers, respectively, that were polymorphic in the other population. The in-situ pigs had more rare alleles, defined as an allele frequency < 0.01, than the GBC pigs (1,790 vs 1,154). Both populations had a similar number of highly polymorphic markers, defined as an allele frequency 0.3 to 0.5, with 12,703 for the in-situ and 12,603 for the GBC pigs. Wright’s FST between the two populations was 0.0065, suggesting no difference between the two populations. Principle components 1 and 2 explained 22 and 12% of the variation, respectively, with no distinction between the in-situ and GBC populations. Benchmarking the in-situ and GBC populations indicated 98.1% of sampled in-situ alleles were captured in the collection. This evaluation indicates that gene banks can capture a breed’s genetic diversity and have the germplasm available for utilization by industry and research communities.

scholarly journals Genetic Diversity of Landraces and Improved Varieties of Rice (Oryza sativa L.) in Taiwan

Rice ◽  
2020 ◽  
Vol 13 (1) ◽  
Author(s):  
Ai-ling Hour ◽  
Wei-hsun Hsieh ◽  
Su-huang Chang ◽  
Yong-pei Wu ◽  
Han-shiuan Chin ◽  
...  
Keyword(s):  
Genetic Diversity ◽  
Genetic Variation ◽  
Indigenous Peoples ◽  
Oryza Sativa L ◽  
Crop Improvement ◽  
Genetic Erosion ◽  
Germplasm Conservation ◽  
Gene Pools ◽  
Improved Varieties ◽  
Breeding Goals

Abstract Background Rice, the most important crop in Asia, has been cultivated in Taiwan for more than 5000 years. The landraces preserved by indigenous peoples and brought by immigrants from China hundreds of years ago exhibit large variation in morphology, implying that they comprise rich genetic resources. Breeding goals according to the preferences of farmers, consumers and government policies also alter gene pools and genetic diversity of improved varieties. To unveil how genetic diversity is affected by natural, farmers’, and breeders’ selections is crucial for germplasm conservation and crop improvement. Results A diversity panel of 148 rice accessions, including 47 cultivars and 59 landraces from Taiwan and 42 accessions from other countries, were genotyped by using 75 molecular markers that revealed an average of 12.7 alleles per locus with mean polymorphism information content of 0.72. These accessions could be grouped into five subpopulations corresponding to wild rice, japonica landraces, indica landraces, indica cultivars, and japonica cultivars. The genetic diversity within subpopulations was: wild rices > landraces > cultivars; and indica rice > japonica rice. Despite having less variation among cultivars, japonica landraces had greater genetic variation than indica landraces because the majority of Taiwanese japonica landraces preserved by indigenous peoples were classified as tropical japonica. Two major clusters of indica landraces were formed by phylogenetic analysis, in accordance with immigration from two origins. Genetic erosion had occurred in later japonica varieties due to a narrow selection of germplasm being incorporated into breeding programs for premium grain quality. Genetic differentiation between early and late cultivars was significant in japonica (FST = 0.3751) but not in indica (FST = 0.0045), indicating effects of different breeding goals on modern germplasm. Indigenous landraces with unique intermediate and admixed genetic backgrounds were untapped, representing valuable resources for rice breeding. Conclusions The genetic diversity of improved rice varieties has been substantially shaped by breeding goals, leading to differentiation between indica and japonica cultivars. Taiwanese landraces with different origins possess various and unique genetic backgrounds. Taiwanese rice germplasm provides diverse genetic variation for association mapping to unveil useful genes and is a precious genetic reservoir for rice improvement.

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.

Sign in / Sign up

Export Citation Format

Share Document