Sourcing of SSR markers from related plant species.

Rossetto, Maurizio; Henry, Robert J

doi:10.1079/9780851995151.0211

Cited by 66 publications

(59 citation statements)

References 68 publications

Supporting

Mentioning

Contrasting

Order By: Relevance

“…Formation of stutter bands or multiple bands is common while amplifying SSR markers between species. This can be reduced by changing the annealing temperature (Rossetto 2001). However, change in annealing temperature did not vary the banding profile observed with P. alba in the present study.…”

Section: Discussioncontrasting

confidence: 37%

RAPD and microsatellite transferability studies in selected species of Prosopis (section Algarobia) with emphasis on Prosopis juliflora and P. pallida

Sherry

Smith

Patel

et al. 2011

J Genet

View full text Add to dashboard Cite

Section: Discussioncontrasting

confidence: 37%

RAPD and microsatellite transferability studies in selected species of Prosopis (section Algarobia) with emphasis on Prosopis juliflora and P. pallida

Sherry

Smith

Patel

et al. 2011

J Genet

View full text Add to dashboard Cite

“…In the present study, although the genomic library was enriched for low copy sequences, a small proportion of clones in this enriched library would still belong to the nontranscribed fraction of the genome. The level of transferability reported in earlier studies falls within the range of 5% in Zostera to 100% in Caryocar (Rossetto 2001;Sharma et al 2002;Decroocq et al 2003;Martinez-Gomez et al 2003;Bandopadhyay et al 2004). The transferable SSRs may be used in studies on comparative genome analysis in jute.…”

Section: Polymorphism Of Ssrsmentioning

confidence: 67%

A preliminary genetic analysis of fibre traits and the use of new genomic SSRs for genetic diversity in jute

et al. 2007

View full text Add to dashboard Cite

Jute is one of the most important fibre crops, which is second only to cotton in providing environment-friendly (biodegradable and renewable) ligno-cellulose fibre. In order to improve this largely neglected crop, we conducted a preliminary study involving the following: (i) analysis of nature and extent of the genetic variability for fibre yield and four other related traits in a set of 81 genotypes belonging to two commercially cultivated Corchorus species (45 genotypes of C. olitorius + 36 genotypes of C. capsularis), (ii) development and analysis of a set of simple sequence repeat (SSR) markers from C. olitorius, and (iii) use of a sub-set of SSRs for assessment of genetic diversity in the above set of 81 genotypes. The results suggested quantitative nature of fibre yield and other related traits, with a preponderance of dominance component in genetic variance. A sub-set of 45 SSRs derived from C. olitorius, when used for a study of DNA polymorphism and genetic diversity, showed high transferability of these C. olitorius SSRs to C. capsularis. The average number of alleles for individual SSRs was surprisingly low (3.04 for both species, 2.02 for C. capsularis and 2.51 for C. olitorius), and so was the average polymorphic information content (PIC; 0.23 and 0.24 in two species). In the dendrogram obtained using a similarity matrix, the 81 genotypes were grouped into three clusters, which largely corresponded to the two species, Cluster I belonging mainly to C. capsularis and the other two closely related clusters (clusters II and III) belonging to C. olitorius. It was also shown that a minimum of 15 SSRs could give the same information as 41 SSRs, thus making many SSRs redundant. The SSR markers developed during the present study and to be developed in future will prove useful not only for evaluation of genetic diversity, but also for molecular mapping/QTL analysis, and for comparative genome analysis of the two Corchorus species.

show abstract

“…Cross-amplification, i.e. amplification of loci from a species other than the one in which they were cloned, is generally possible only among species of the same genera, and even in this case the percentage of cross-amplification is low (Rossetto, 2001). Furthermore, cross-amplification often generates null alleles which can bias genetic analyses (Hardy et al, 2003).…”

Section: Introductionmentioning

confidence: 98%

Challenges of microsatellite isolation in fungi

Dutech

Enjalbert

Fournier³

et al. 2007

Fungal Genetics and Biology

164

163

View full text Add to dashboard Cite

Although they represent powerful genetic markers in many fields of biology, microsatellites have been isolated in few fungal species. The aim of this study was to assess whether obtaining microsatellite markers with an acceptable level of polymorphism is generally harder from fungi than in other organisms. We therefore surveyed the number, nature and polymorphism level of published microsatellite markers in fungi from the literature and from our own data on seventeen fungal microsatellite-enriched libraries, and in five other phylogroups (angiosperms, insects, fishes, birds and mammals). Fungal microsatellites indeed appeared both harder to isolate and to exhibit lower polymorphism than in other organisms. This appeared to be due, at least in part, to genomic specificities, such as scarcity and shortness of fungal microsatellite loci. A correlation was observed between mean repeat number and mean allele number in the published fungal microsatellite loci. The cross-species transferability of fungal microsatellites also appeared lower than in other phylogroups. However, microsatellites have been useful in some fungal species. Thus, the considerable advantages of these markers make their development worthwhile, and this study provides some guidelines for their isolation.

show abstract

Sourcing of SSR markers from related plant species.

Cited by 66 publications

References 68 publications

RAPD and microsatellite transferability studies in selected species of Prosopis (section Algarobia) with emphasis on Prosopis juliflora and P. pallida

RAPD and microsatellite transferability studies in selected species of Prosopis (section Algarobia) with emphasis on Prosopis juliflora and P. pallida

A preliminary genetic analysis of fibre traits and the use of new genomic SSRs for genetic diversity in jute

Challenges of microsatellite isolation in fungi

Contact Info

Product

Resources

About