scholarly journals Evaluation of Simple Sequence Repeats (SSR) and Single Nucleotide Polymorphism (SNP)-based methods in olive varieties from the Northwest of Spain and potential for miniaturization

2021 ◽  
pp. 100038
Author(s):  
Joana Carvalho ◽  
Shambhavi Yadav ◽  
Alejandro Garrido-Maestu ◽  
Sarah Azinheiro ◽  
Isabel Trujillo ◽  
...  
Keyword(s):  
Single Nucleotide Polymorphism ◽  
Simple Sequence Repeats ◽  
Nucleotide Polymorphism ◽  
Single Nucleotide ◽  
Olive Varieties ◽  
Simple Sequence

scholarly journals Mining of Simple Sequence Repeats Loci, Genetic Relationship And Population Structure of Bottle Gourd (Lagenaria Siceraria (Molina) Standl.) Accessions With Different Geographical Origin Using Single Nucleotide Polymorphism (SNPs) Markers

2021 ◽  
Author(s):  
Rodrigo Iván Contreras-Soto ◽  
Ariel Salvatierra ◽  
Carlos Maldonado ◽  
Jacob Mashilo
Keyword(s):  
South Africa ◽  
Single Nucleotide Polymorphism ◽  
Population Structure ◽  
Simple Sequence Repeats ◽  
Bottle Gourd ◽  
Lagenaria Siceraria ◽  
Nucleotide Polymorphism ◽  
Single Nucleotide ◽  
Ssr Loci ◽  
Simple Sequence

Abstract Lagenaria siceraria (Molina) Standl. (2n = 2x = 22) is an important horticultural and medicinal crop grown worldwide serving for food and pharmaceutical industries. The crop exhibit extensive phenotypic and genetic variation useful for cultivar obtention targeting economic traits, however limited genomic resources are available for effective germplasm characterization into breeding and conservation strategies. This study determined the genetic relationships and population structure in a collection of different accessions of bottle gourd prevenient from Chile, Asia, and South Africa by using single nucleotide polymorphism (SNPs) markers and mining of simple sequence repeats (SSR) loci derived from genotyping-by-sequencing (GBS) data. The GBS resulted in 12,766 SNPs molecular markers classified as moderate to highly informative with mean polymorphic information content of 0.29. The mean gene diversity of 0.16, indicated low genetic differentiation of the accessions. Analysis of molecular variance revealed lower differentiation between (36%) than within (48%) bottle gourd accessions suggesting that random mating system dominates inbreeding. Population structure revealed two genetically differentiated groups comprising of South Africa accessions and an admixed group with genotypes of Asian and Chilean origin. The results of SSR loci mining from GBS data should be developed and validated before being used in diverse bottle gourd accessions. The SNPs markers developed in the present study are useful genomic resources in bottle gourd breeding programs for assessing the extent of genetic diversity for effective parental selection and breeding.

scholarly journals Genetic Diversity, Population Structure, and Parentage Analysis of Croatian Grapevine Germplasm

Genes ◽  
2020 ◽  
Vol 11 (7) ◽  
pp. 737
Author(s):  
Maja Žulj Mihaljević ◽  
Edi Maletić ◽  
Darko Preiner ◽  
Goran Zdunić ◽  
Marijan Bubola ◽  
...  
Keyword(s):  
Genetic Diversity ◽  
Single Nucleotide Polymorphism ◽  
Simple Sequence Repeat ◽  
Genetic Erosion ◽  
Parentage Analysis ◽  
Snp Markers ◽  
Sequence Repeat ◽  
Nucleotide Polymorphism ◽  
Single Nucleotide ◽  
Simple Sequence

Croatian viticulture was most extensive at the beginning of the 20th century, when about 400 varieties were in use. Autochthonous varieties are the result of spontaneous hybridization from the pre-phylloxera era and are still cultivated today on about 35 % of vineyard area, while some exist only in repositories. We present what is the most comprehensive genetic analysis of all major Croatian national repositories, with a large number of microsatellite, or simple sequence repeat (SSR) markers, and it is also the first study to apply single nucleotide polymorphism (SNP) markers. After 212 accessions were fingerprinted, 95 were classified as unique to Croatian germplasm. Genetic diversity of Croatian germplasm is rather high considering its size. SNP markers proved useful for fingerprinting but less informative and practical than SSRs. Analysis of the genetic structure showed that Croatian germplasm is predominantly part of the Balkan grape gene pool. A high number of admixed varieties and synonyms is a consequence of complex pedigrees and migrations. Parentage analysis confirmed 24 full parentages, as well as 113 half-kinships. Unexpectedly, several key genitors could not be detected within the present Croatian germplasm. The low number of reconstructed parentages (19%) points to severe genetic erosion and stresses the importance of germplasm repositories.

scholarly journals Mapping Genes Governing Flower and Seedcoat Color in Asparagus Bean (Vigna unguiculata ssp. sesquipedalis) Based on Single Nucleotide Polymorphism and Simple Sequence Repeat Markers

HortScience ◽  
2011 ◽  
Vol 46 (8) ◽  
pp. 1102-1104 ◽  
Author(s):  
Pei Xu ◽  
Tingting Hu ◽  
Yuejian Yang ◽  
Xiaohua Wu ◽  
Baogen Wang ◽  
...  
Keyword(s):  
Single Nucleotide Polymorphism ◽  
Simple Sequence Repeat ◽  
Recombinant Inbred Lines ◽  
Flower Color ◽  
Sequence Repeat ◽  
Nucleotide Polymorphism ◽  
Single Nucleotide ◽  
Asparagus Bean ◽  
Simple Sequence ◽  
T Locus

Colors of flower and seedcoat are interesting traits of asparagus bean, a cultivated subspecies of cowpea grown throughout Asia for its tender, long green pods. Little is known about the inheritance of these traits including their genome location. We report here the genetic analysis and mapping of the genes governing flower and seedcoat color in asparagus bean based on single nucleotide polymorphism (SNP) and simple sequence repeat (SSR) markers. Analysis of the F1 and F7:8 generation of recombinant inbred lines (RILs) population showed a monogenetic inheritance of both traits. Purple flower and brown seedcoat are dominant over white flower and cream seedcoat, respectively. We further show that genes governing flower color and seedcoat color are tightly linked on LG8, ≈0.4 cM apart. Synteny analysis showed that the gene controlling seedcoat color in our study is syntenic to the soybean T locus. The use of the mapping information in asparagus bean breeding is discussed.

Sign in / Sign up

Export Citation Format

Share Document