Microsatellite markers in peach [<i>Prunus persica</i> (L.) Batsch] derived from an enriched genomic and cDNA libraries

Yamamoto, Takatsugu; Mochida, Keiichi; Imai, Tsuyoshi; Shi, Yaoyao; Ogiwara, Isao; Hayashi, Tateki

doi:10.1046/j.1471-8286.2002.00242.x

Cited by 104 publications

(66 citation statements)

References 7 publications

Supporting

Mentioning

Contrasting

Unclassified

Order By: Relevance

“…duranensis, A. batizocoi, and A. hypogaea (Huang et al, 2016), as well in Picea abies and Pinus taeda (Ranade et al, 2015). SSR developments in Prunus have continued since 2000 (Yamamoto et al, 2002;Xu et al, 2004;Xie et al, 2006;Vendramin et al, 2007;Chen et al, 2014;Dettor et al, 2015;. The novel 72 EST-SSR loci will be useful in apricot breeding and especially in mapping and anchoring parental maps.…”

Section: Discussionmentioning

confidence: 99%

De novo transcriptome assembly and SSR markerdevelopment in apricot (Prunus armeniaca)

Köse¹,

Çetinsağ²,

Gürcan³

2017

Turk J Agric For

View full text Add to dashboard Cite

Apricot (Prunus armeniaca) is an important fruit crop worldwide. We have performed a de novo transcriptome assembly for 7 apricot accessions ('Stark Early Orange' (SEO), 'Hacıhaliloğlu' (HH), 'Perfection' , 'Iğdır' , 'Roxana' , 'Esen1' , and 'Esen2'), which yielded a total number of transcripts ranging from 30,363 for 'SEO' to 59,751 for 'Iğdır' . The pool of the reads produced from 7 accessions were assembled into 85,766 transcripts, with an average of 1165.69 nt. Functional annotation (Gene Ontology-GO and Kyoto Encyclopedia of Genes and Genomes-KEGG) was performed successfully for the transcripts. Simple sequence repeats (SSRs) were searched in the transcript pool and 14,722 di-, tri-tetra-, penta-, and hexanucleotide motif loci with a minimum of 5 repetitions for all motifs were identified. Primers were designed for 206 loci, and 72 of them were found to be polymorphic by amplifying diverse 24 apricot accessions, including 7 Plum Pox Virus (PPV)-resistant and 17 PPV-susceptible accessions. In order to test the amplification success of publicly available genomic SSRs (gSSRs) for diverse apricot accessions, an additional 88 published Prunus gSSRs were characterized amplifying the same 24 apricots and only 54 (62%) produced polymorphic bands. The new EST-SSRs could be a reliable source of primers for characterization and mapping studies of apricots, especially because they mostly flank easily scorable tri-and tetranucleotide repeats.

show abstract

Section: Discussionmentioning

confidence: 99%

De novo transcriptome assembly and SSR markerdevelopment in apricot (Prunus armeniaca)

Köse¹,

Çetinsağ²,

Gürcan³

2017

Turk J Agric For

View full text Add to dashboard Cite

show abstract

“…Eight genomic microsatellite markers chosen for the genetic characterization (Table 2) were originally developed by Cipriani et al (1999), Dirlewanger et al (2002), Yamamoto et al (2002) and Mnejja et al (2004). The choice was based on the fact that these markers are highly polymorphic, and because they amplified microsatellite sequences that are located in distinct linkage groups.…”

Section: Ssr Markersmentioning

confidence: 99%

DNA fingerprinting of Japanese plum (Prunus salicina) cultivars based on microsatellite markers

Klabunde

Dalbó

Nodari

2014

Crop Breed. Appl. Biotechnol.

View full text Add to dashboard Cite

show abstract

“…In previous studies, we established genomic libraries enriched for di-nucleotide repeat motifs and developed SSR markers for pear, peach, and rose Yamamoto et al, 2002aYamamoto et al, , 2002bYamamoto et al, , 2002c. The developed SSR markers were successfully utilized to construct genetic linkage maps, genetic identification, and parentage analysis in pear (Kimura et al, 2002(Kimura et al, , 2003Yamamoto et al, 2002bYamamoto et al, , 2006.…”

Section: Introductionmentioning

confidence: 99%

Development of SSR Markers in Carnation (Dianthus caryophyllus)

Kimura

Yagi

Nishitani

et al. 2009

J. Japan. Soc. Hort. Sci.

View full text Add to dashboard Cite

Thirteen SSR (simple sequence repeat) markers were successfully developed in carnation using an enriched genomic library method. All 13 primer pairs designed could successfully amplify target fragments of the expected size for the original variety 'Francesco' or 'Barbara'. Thirty-nine of 41 carnation varieties, except for mutant varieties, were successfully distinguishable using 32 putative alleles and 15 polymorphic bands produced from 13 SSR markers. 'U Conn Sim' and 'White Sim', which are bud mutants originated from 'William Sim', showed an identical genotype to 'William Sim'. Three (CB026a, CB057a, and CB060a) of 13 SSR markers were thought to be derived from multi-locus because the 3 SSR markers produced more than 3 discrete amplified fragments. The number of alleles per locus ranged from 1 (CB020a and CB041a) to 9 (CB003a), with an average value of 3.2. The values of the observed heterozygosity (H O ) and the expected heterozygosity (H E ) ranged from 0 to 0.59 (mean 0.30) and 0 to 0.68 (mean 0.34), respectively. The power of discrimination (PD) ranged from 0 (CB020a and CB041a) to 0.93 (CB026a) (mean 0.49). The parentage of 2 carnation varieties from intraspecific crosses was analyzed using 10 SSR markers, and the hybridity of the progenic varieties was confirmed. SSR markers were very effective for variety discrimination and determination of carnation parentage.

show abstract

Microsatellite markers in peach [Prunus persica (L.) Batsch] derived from an enriched genomic and cDNA libraries

Cited by 104 publications

References 7 publications

De novo transcriptome assembly and SSR markerdevelopment in apricot (Prunus armeniaca)

De novo transcriptome assembly and SSR markerdevelopment in apricot (Prunus armeniaca)

DNA fingerprinting of Japanese plum (Prunus salicina) cultivars based on microsatellite markers

Development of SSR Markers in Carnation (Dianthus caryophyllus)

Contact Info

Product

Resources

About