Construction of a foxtail millet linkage map and mapping of spikelet-tipped bristles 1(stb1) by using transposon display markers and simple sequence repeat markers with genome sequence information

2013 ◽  
Vol 31 (3) ◽  
pp. 675-684 ◽  
Author(s):  
Kei Sato ◽  
Yohei Mukainari ◽  
Ken Naito ◽  
Kenji Fukunaga
Keyword(s):  
Linkage Map ◽  
Genome Sequence ◽  
Simple Sequence Repeat ◽  
Foxtail Millet ◽  
Sequence Information ◽  
Sequence Repeat ◽  
Simple Sequence Repeat Markers ◽  
Transposon Display ◽  
Genome Sequence Information ◽  
Simple Sequence

Development of simple sequence repeat markers and construction of a high-density linkage map of Capsicum annuum

2013 ◽  
Vol 31 (4) ◽  
pp. 909-920 ◽  
Author(s):  
Toru Sugita ◽  
Yukari Semi ◽  
Hiromasa Sawada ◽  
Yumi Utoyama ◽  
Yuko Hosomi ◽  
...  
Keyword(s):  
Linkage Map ◽  
Capsicum Annuum ◽  
Simple Sequence Repeat ◽  
High Density ◽  
Sequence Repeat ◽  
Simple Sequence Repeat Markers ◽  
High Density Linkage Map ◽  
Simple Sequence

Genetic Linkage Map of Cassava (Manihot esculentaCrantz) Based on Rubber Tree and Cassava Simple Sequence Repeat Markers

2016 ◽  
Vol 30 (5) ◽  
pp. 552-561
Author(s):  
Supajit Sraphet ◽  
Thummanoon Ponsit ◽  
Nawarat Suksee ◽  
Duncan R Smith ◽  
Kanokporn Triwitayakorn ◽  
...  
Keyword(s):  
Linkage Map ◽  
Simple Sequence Repeat ◽  
Genetic Linkage ◽  
Genetic Linkage Map ◽  
Rubber Tree ◽  
Sequence Repeat ◽  
Simple Sequence Repeat Markers ◽  
Simple Sequence

scholarly journals Discovery, Characterization, and Linkage Mapping of Simple Sequence Repeat Markers In Hazelnut

2018 ◽  
Vol 143 (5) ◽  
pp. 347-362 ◽  
Author(s):  
Gehendra Bhattarai ◽  
Shawn A. Mehlenbacher
Keyword(s):  
Genetic Diversity ◽  
Linkage Map ◽  
Ssr Markers ◽  
Genome Sequence ◽  
Simple Sequence Repeat ◽  
Genomic Sequence ◽  
Geographic Origin ◽  
Null Alleles ◽  
Sequence Repeat ◽  
Simple Sequence

From the genome sequence of hazelnut (Corylus avellana), 192 new polymorphic simple sequence repeat (SSR) markers were developed, characterized, and used to investigate genetic diversity in 50 accessions. Next-generation sequencing allows inexpensive sequencing of plant genomes and transcriptomes, and efficient development of polymorphic SSR markers, also known as microsatellite markers, at low cost. A search of the genome sequence of ‘Jefferson’ hazelnut identified 9094 fragments with long repeat motifs of 4, 5, or 6 base pairs (bp), from which polymorphic SSR markers were developed. The repeat regions in the ‘Jefferson’ genome were used as references to which genomic sequence reads of seven additional cultivars were aligned in silico. Visual inspection for variation in repeat number among the aligned reads identified 246 as polymorphic, for which primer pairs were designed. Polymerase chain reaction (PCR) amplification followed by agarose gel separation indicated polymorphism at 195 loci, for which fluorescent forward primers were used to amplify the DNA of 50 hazelnut accessions. Amplicons were post-PCR multiplexed for capillary electrophoresis, and allele sizes were determined for 50 accessions. After eliminating three, 192 were confirmed as polymorphic, and 169 showed only one or two alleles in each of the 50 cultivars, as expected in a diploid. At these 169 SSRs, a total of 843 alleles were found, for an average of 4.99 and a range of 2 to 17 alleles per locus. The mean observed heterozygosity, expected heterozygosity, polymorphism information content, and the frequency of null alleles were 0.51, 0.53, 0.47, and 0.03, respectively. An additional 25 primer pairs produced more than two bands in some accessions with an average of 6.8 alleles. The UPGMA dendrogram revealed a wide genetic diversity and clustered the 50 accessions according to their geographic origin. Of the new SSRs, 132 loci were placed on the linkage map. These new markers will be useful for diversity and parentage studies, cultivar fingerprinting, marker-assisted selection, and aligning the linkage map with scaffolds of the genome sequence.

Genetic linkage map of Chinese native variety faba bean (Vicia fabaL.) based on simple sequence repeat markers

2013 ◽  
Vol 132 (4) ◽  
pp. 397-400 ◽  
Author(s):  
Yu Ma ◽  
Shi-ying Bao ◽  
Tao Yang ◽  
Jin-guo Hu ◽  
Jian-ping Guan ◽  
...  
Keyword(s):  
Linkage Map ◽  
Faba Bean ◽  
Simple Sequence Repeat ◽  
Genetic Linkage ◽  
Genetic Linkage Map ◽  
Sequence Repeat ◽  
Simple Sequence Repeat Markers ◽  
Simple Sequence
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