Molecular Characterization of Cacao (Theobroma cacao) Germplasm from Jamaica Using Single Nucleotide Polymorphism (SNP) Markers

2018 ◽  
Vol 11 (3-4) ◽  
pp. 93-106 ◽  
Author(s):  
Aliza A. Lindo ◽  
Dwight E. Robinson ◽  
Paula F. Tennant ◽  
Lyndel W. Meinhardt ◽  
Dapeng Zhang
Keyword(s):  
Single Nucleotide Polymorphism ◽  
Molecular Characterization ◽  
Theobroma Cacao ◽  
Snp Markers ◽  
Nucleotide Polymorphism ◽  
Single Nucleotide

Molecular characterization of a cancer-related single nucleotide polymorphism in the pro-inflammatory interleukin-1B gene

2012 ◽  
Vol 51 (S1) ◽  
pp. E168-E175 ◽  
Author(s):  
N.E. Landvik ◽  
X. Tekpli ◽  
K.H. Anmarkrud ◽  
A. Haugen ◽  
S. Zienolddiny
Keyword(s):  
Single Nucleotide Polymorphism ◽  
Molecular Characterization ◽  
Nucleotide Polymorphism ◽  
Single Nucleotide

scholarly journals Use of Canonical Single Nucleotide Polymorphism (CanSNPs) to characterizeBacillus anthracisoutbreak strains in Zambia between 1990 and 2014

PeerJ ◽  
2018 ◽  
Vol 6 ◽  
pp. e5270 ◽  
Author(s):  
Antonio Fasanella ◽  
Luigina Serrecchia ◽  
Alexandra Chiaverini ◽  
Giuliano Garofolo ◽  
Geoffrey M. Muuka ◽  
...  
Keyword(s):  
Single Nucleotide Polymorphism ◽  
Genetic Structure ◽  
Bacillus Anthracis ◽  
Molecular Characterization ◽  
Vaccine Strain ◽  
Southern Africa ◽  
Nucleotide Polymorphism ◽  
Single Nucleotide ◽  
Ancestral Origin

Anthrax caused byBacillus anthracisis an old and neglected zoonosis that continues to raise concerns in Southern Africa. In this study, twenty (20) slides with suspected isolates ofB. anthracisfrom anthrax cases between 1990 and 2014 and two (2) from that of a vaccine strain were analysed using MLVA with 15 VNTRs and CanSNPs test. The results from the CanSNPs indicate that all anthrax outbreaks in Zambia between 1990 and 2014 were caused by the lineage A.Br.005/006 of the clade A. This indicates a common ancestral origin of theB. anthraciscirculating in the country. This data has described several environmental, wildlife, livestock and human cases that occurred in a 24 year period, from the major areas where anthrax is endemic. The molecular characterization of isolates from anthrax outbreaks in Zambia has revealed a genetic structure in agreement with previous studies from neighbouring countries. Further studies are needed to elucidate how to better manage anthrax outbreaks and define the risk maps of Zambia.

Genetic diversity and ancestry of cacao (Theobroma cacao L.) in Dominica revealed by single nucleotide polymorphism markers

Genome ◽  
2020 ◽  
Vol 63 (12) ◽  
pp. 583-595
Author(s):  
David Gopaulchan ◽  
Lambert A. Motilal ◽  
Rena K. Kalloo ◽  
Amrita Mahabir ◽  
Marissa Moses ◽  
...  
Keyword(s):  
Single Nucleotide Polymorphism ◽  
Theobroma Cacao ◽  
Gene Diversity ◽  
Germplasm Collection ◽  
Snp Markers ◽  
Regional Differentiation ◽  
Nucleotide Polymorphism ◽  
Single Nucleotide ◽  
Geographical Regions ◽  
Theobroma Cacao L

Cacao (Theobroma cacao L.), an introduced tree crop in Dominica, is important for foreign exchange earnings from fine or flavour cocoa. The genetic structure of farmed cacao in Dominica was examined to identify varieties for conservation, breeding, and propagation to improve their cocoa industry. Cacao trees (156) from 73 sites over seven geographical regions were genotyped at 192 single nucleotide polymorphism (SNP) markers. Identity, regional differentiation, phylogenetic, multi-variate, ancestry, and core collection analyses were performed. Farmed cacao germplasm had moderate gene diversity (He = 0.320 ± 0.005) from generally unique trees, but cocoa growing regions were genetically similar. Synonymous matching (16.3%) showed that some clonal material was supplied to farmers. Cacao trees were mainly mixed from Amelonado, Criollo, Iquitos, Contamana, and Marañon ancestries, with predominantly Amelonado–Criollo hybrids. Criollo ancestry, linked to fine or flavour cocoa, was found at more than 30% in 28 unique trees. Forty-five trees, containing the SNP diversity of cacao in Dominica, are recommended as a core germplasm collection. This study identifies promising trees for improving cocoa quality; provides genetic evidence that community, regional, or country-wide pooling would not compromise the exclusive fine or flavour cocoa industry; and discusses other implications towards improving the Dominican cocoa industry.

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