Characterisation of microsatellite markers from sugarcane (Saccharum sp.), a highly polyploid species

Cordeiro, Giovanni M; Taylor, G O; Henry, Robert J.

doi:10.1016/s0168-9452(00)00208-9

Cited by 229 publications

(152 citation statements)

References 33 publications

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“…SSR markers have been widely used in molecular genotyping and genetic diversity analysis of sugarcane because of their locus-specificity and polymorphic nature (Cordeiro et al, 2000;Pan et al, 2003aPan et al, , 2006Glynn et al, 2009).…”

Section: Discussionmentioning

confidence: 99%

“…With the advances of sugarcane microsatellite (SSR) DNA genotyping technology, the sugarcane breeders are now able to efficiently and accurately determine the genetic identity of sugarcane varieties and reveal any sugarcane clone misidentifications (Pan et al, 2003a,b). The International Sugarcane Microsatellite Consortium (ISMC) has designed 221 microsatellite markers based on the sugarcane genomic DNA sequences (Cordeiro et al, 2000). In 2006, Pan et al used these 221 microsatellite markers for germplasm evaluation and fingerprinting of USA cultivars.…”

Section: Introductionmentioning

confidence: 99%

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Use of simple sequence repeat markers for DNA fingerprinting and diversity analysis of sugarcane (Saccharum spp) cultivars resistant and susceptible to red rot

Hameed¹,

Pan²,

Muhammad³

et al. 2012

Genet. Mol. Res.

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ABSTRACT. Red rod is an economically important disease of sugarcane caused by the fungus Colletotrichum falcatum. We used a simple sequence repeat (SSR)-based marker system to identify and analyze genetic relationships of red rot resistant and susceptible sugarcane cultivars grown in Pakistan. Twenty-one highly polymorphic SSR markers were used for DNA fingerprinting and genetic diversity analysis of 20 sugarcane cultivars. These SSR markers were found to be highly robust; we identified 144 alleles, with 3-11 alleles per marker and a mean of 6.8. Three SSR markers were able to identify all 20 cultivars. DNAMAN ® -generated homology tree was used to analyze genetic diversity among these cultivars; all cultivars shared 58% or more similarity. We correlated polymorphism information content and resolving power values with marker effectiveness in the process of sugarcane cultivar identification. We concluded that a small number of SSR-derived DNA markers will allow breeders to identify red rot resistant and susceptible cultivars.

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Section: Discussionmentioning

confidence: 99%

Section: Introductionmentioning

confidence: 99%

Use of simple sequence repeat markers for DNA fingerprinting and diversity analysis of sugarcane (Saccharum spp) cultivars resistant and susceptible to red rot

Hameed¹,

Pan²,

Muhammad³

et al. 2012

Genet. Mol. Res.

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“…However, some bands were amplified from the F1 hybrid but not from parents. The reason could be the complex heredity background of each plant heterosis [28][29][30] . Additionally, this residual heterozygosity could account for the occasional occurrence that some true hybrids exhibited the absence of the female or www.scienceasia.org male specific-parent markers with RAPD primers.…”

Section: Discussionmentioning

confidence: 99%

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Thawaro¹,

Te-chato²

2009

ScienceAsia

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ABSTRACT:Randomly amplified polymorphic DNA (RAPD) and simple sequence repeat (SSR) were used to assess the hybrid verification and somaclonal variation of the cross 366 (D) × 72 (P) of Elaeis quineensis Jacq. DxP. DNA from mature zygotic embryo (MZE) was isolated and detected by seven primers of RAPD and eight primers of SSR. Half MZEs consisting of coleoptiles regions were cultured on Murashige and Skoog (MS) medium plus various kinds and concentrations of auxins. Variation of somaclone obtained through somatic embryogenesis was detected at the proliferation stage of the culture period. The result revealed that all random primers and the SSR primers tested could amplify parental DNA. Primer OPT06 (for RAPD) and EgCIR1772 (for SSR) provided clear DNA patterns and could be used for verifying the hybridity of the cross 366 (D) × 72 (P). The highest frequency of nodular callus formation at 87.5% was obtained on MS medium supplemented with 2.50 mg/l of 3,6-dichloro-o-anisic acid (dicamba). This was significantly different from other kinds and concentrations of auxins. Somatic embryo line at globular stage derived from each half MZE showed no variation in RAPD banding patterns with primer OPT06. It was concluded that no somaclonal variation occurred in our propagation system by RAPD marker, no major genetic changes were observed, and this augurs well for the propagation system being employed since somaclonal variation may be minimized or absent altogether.

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“…The 40 SSR primers previously mapped for sugarcane by the International Sugarcane Microsatellite Consortium (Cordeiro et al, 2000;Singh et al, 2008;Oliveira et al, 2009) were synthesized by Invitrogen Technologies Corporation (USA) and used with 5 DNA samples from each sugarcane variety. After screening the 40 SSR primers, a set of 17 SSR primers (Table 2) was selected for further analysis.…”

Section: Microsatellite Selectionmentioning

confidence: 99%

“…The marker systems that are used in studies of sugarcane include microsatellites or simple sequence repeats (SSR) (Cordeiro et al, 2000Cordeiro and Henry, 2001;Pan et al, 2003;Pinto et al, 2004). Considerable advances have been made in the area of sugarcane genetics through the use of microsatellite markers.…”

Section: Introductionmentioning

confidence: 99%

Use of differential levels of mean observed heterozygosity in microsatellite loci of commercial varieties of sugarcane (Saccharum spp)

Maranho¹,

Augusto²,

Mangolin³

et al. 2014

Genet. Mol. Res.

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ABSTRACT. In this study, we measured the genetic diversity within and among a set of 9 commercial sugarcane varieties used for alcohol and sugar production using 17 microsatellite DNA markers. The UGSM148 and UGSM59 primers were monomorphic for all 74 sugarcane samples. The estimated proportion of simple sequence repeated (SSR) polymorphic loci was 88.23%; 17 alleles were detected. The mean gene diversity of all SSR loci was 0.7279. The

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Characterisation of microsatellite markers from sugarcane (Saccharum sp.), a highly polyploid species

Cited by 229 publications

References 33 publications

Use of simple sequence repeat markers for DNA fingerprinting and diversity analysis of sugarcane (Saccharum spp) cultivars resistant and susceptible to red rot

Use of simple sequence repeat markers for DNA fingerprinting and diversity analysis of sugarcane (Saccharum spp) cultivars resistant and susceptible to red rot

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Use of differential levels of mean observed heterozygosity in microsatellite loci of commercial varieties of sugarcane (Saccharum spp)

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