Transferability, polymorphism and effectiveness for genetic mapping of the Pummelo (Citrus grandis Osbeck) EST-SSR markers

2013 ◽  
Vol 155 ◽  
pp. 85-91 ◽  
Author(s):  
Lijun Chai ◽  
Manosh Kumar Biswas ◽  
Hualin Yi ◽  
Wenwu Guo ◽  
Xiuxin Deng
Keyword(s):  
Genetic Mapping ◽  
Ssr Markers

Genetic mapping of linkage group XIX and identification of sex-linked SSR markers in a Populus tremula × Populus tremuloides cross

2011 ◽  
Vol 41 (2) ◽  
pp. 245-253 ◽  
Author(s):  
Birte Pakull ◽  
Katrin Groppe ◽  
Federica Mecucci ◽  
Muriel Gaudet ◽  
Maurizio Sabatti ◽  
...  
Keyword(s):  
Linkage Group ◽  
Genetic Mapping ◽  
Ssr Markers ◽  
Genome Sequence ◽  
Populus Tremuloides ◽  
Populus Trichocarpa ◽  
Interspecific Cross ◽  
Populus Tremula ◽  
Central Position ◽  
Populus Alba

A progeny of 130 F1 individuals of an interspecific cross between Populus tremula L. and Populus tremuloides Michx. was used for genetic mapping of linkage group XIX with SSR markers based on the Populus trichocarpa Torr. & A. Gray genome sequence. Several fully sex-linked SSR markers were identified and mapped to a central position on the male P. tremuloides map of linkage group XIX. For the SSR markers tested here, the position on the assembled P. trichocarpa genome sequence is known, allowing sex-linked markers to be assigned to the central region of scaffold/chromosome 19 of P. trichocarpa. The sex linkage of the SSR markers was validated in other P. tremula × P. tremuloides crosses and also tested in Populus alba L. and Populus nigra L.

scholarly journals SSR Markers for Analysing South American Nothofagus Species

2004 ◽  
Vol 53 (1-6) ◽  
pp. 240-243 ◽  
Author(s):  
M. M. Azpilicueta ◽  
H. Caron ◽  
C. Bodénès ◽  
L. A. Gallo
Keyword(s):  
Gene Flow ◽  
Genetic Mapping ◽  
Microsatellite Markers ◽  
Ssr Markers ◽  
Natural Populations ◽  
South American ◽  
Sample Sizes ◽  
Polymorphic Ssrs ◽  
The Cross ◽  
Qualitative Confirmation

Summary11 newly discovered microsatellites were used to identify SSR markers for characterising South American Nothofagus species. This was carried out in six species. The sample sizes used were between four and six individuals per species. The cross-genera transferability of 34 Quercus SSRs was also essayed. Out of the 11 new microsatellite markers, three proved to be polymorphic (NnBIO 11, NgBIO 13 and NgBIO 14). The qualitative confirmation of the inheritance of these markers could also be verified. Polymorphism was also observed in five of the cross-genera transferred SSRs (QrBIO7, quru-GA-0A01, quru-GA-0C11, quru-GA-0I01, quru-GA-0M07). The number of alleles per locus found range between 1 and 6 per species. The eight polymorphic SSRs identified in this study will constitute a valuable tool in the gene flow studies that are currently being carried out in natural populations of South American Nothofagus species. The confirmation of crossspecies and cross-genera transferability opens the way for the use of SSRs as bridge markers in genetic mapping.

Development of EST-derived SSR markers in pea (Pisum sativum) and their potential utility for genetic mapping and transferability

2012 ◽  
Vol 131 (1) ◽  
pp. 118-124 ◽  
Author(s):  
Raghvendra K. Mishra ◽  
Baniekal H. Gangadhar ◽  
Akula Nookaraju ◽  
Sushil Kumar ◽  
Se W. Park
Keyword(s):  
Pisum Sativum ◽  
Genetic Mapping ◽  
Ssr Markers ◽  
Potential Utility

scholarly journals Genetic mapping and BAC assignment of EST-derived SSR markers shows non-uniform distribution of genes in the barley genome

2006 ◽  
Vol 113 (2) ◽  
pp. 239-250 ◽  
Author(s):  
R. K. Varshney ◽  
I. Grosse ◽  
U. Hähnel ◽  
R. Siefken ◽  
M. Prasad ◽  
...  
Keyword(s):  
Genetic Mapping ◽  
Uniform Distribution ◽  
Ssr Markers ◽  
Barley Genome

scholarly journals New EST–SSR markers of Coffea arabica: transferability and application to studies of molecular characterization and genetic mapping

2015 ◽  
Vol 35 (1) ◽  
Author(s):  
Luís Felipe V. Ferrão ◽  
Eveline T. Caixeta ◽  
Guilherme Pena ◽  
Eunize M. Zambolim ◽  
Comes D. Cruz ◽  
...  
Keyword(s):  
Genetic Mapping ◽  
Molecular Characterization ◽  
Ssr Markers ◽  
Coffea Arabica

scholarly journals Analysis of BAC-end sequences (BESs) and development of BES-SSR markers for genetic mapping and hybrid purity assessment in pigeonpea (Cajanus spp.)

2011 ◽  
Vol 11 (1) ◽  
pp. 56 ◽  
Author(s):  
Abhishek Bohra ◽  
Anuja Dubey ◽  
Rachit K Saxena ◽  
R Varma Penmetsa ◽  
KN Poornima ◽  
...  
Keyword(s):  
Genetic Mapping ◽  
Ssr Markers ◽  
Purity Assessment ◽  
Hybrid Purity ◽  
End Sequences

scholarly journals Genomic Approaches for Understanding Virulence and Resistance in the Sunflower-Orobanche Host-Parasite Interaction

2011 ◽  
Author(s):  
Daniel M. Joel ◽  
Steven J. Knapp ◽  
Yaakov Tadmor
Keyword(s):  
Genetic Mapping ◽  
Ssr Markers ◽  
High Throughput ◽  
Dna Markers ◽  
Snp Array ◽  
Snp Markers ◽  
R Genes ◽  
Draft Sequence ◽  
Mediterranean Countries ◽  
Sunflower Genome

Oroginal Objectives: (i) identify DNA markers linked to the avirulence (Avr) locus and locate the Avr locus through genetic mapping with an inter-race Orobanche cumana population; (ii) develop high-throughput fingerprint DNA markers for genotypingO. cumana races; (iii) identify nucleotide binding domain leucine rich repeat (NB-LRR) genes encoding R proteins conferring resistance to O. cumana in sunflower; (iv) increase the resolution of the chromosomal segment harboring Or₅ and related R genes through genetic and physical mapping in previously and newly developed mapping populations of sunflower; and (v) develop high-throughput DNA markers for rapidly and efficiently identifying and transferring sunflower R genes through marker-assisted selection. Revisions made during the course of project: Following changes in O. cumana race distribution in Israel, the newly arrived virulent race H was chosen for further analysis. HA412-HO, which was primarily chosen as a susceptible sunflower cultivar, was more resistant to the new parasite populations than var. Shemesh, thus we shifted sunflower research into analyzing the resistance of HA412-HO. We exceeded the deliverables for Objectives #3-5 by securing funding for complete physical and high-density genetic mapping of the sunflower genome, in addition to producing a complete draft sequence of the sunflower genome. We discovered limited diversity between the parents of the O. cumana population developed for the mapping study. Hence, the developed DNA marker resources were insufficient to support genetic map construction. This objective was beyond the scale and scope of the funding. This objective is challenging enough to be the entire focus of follow up studies. Background to the topic: O. cumana, an obligate parasitic weed, is one of the most economically important and damaging diseases of sunflower, causes significant yield losses in susceptible genotypes, and threatens production in Israel and many other countries. Breeding for resistance has been crucial for protecting sunflower from O. cumana, and problematic because new races of the pathogen continually emerge, necessitating discovery and deployment of new R genes. The process is challenging because of the uncertainty in identifying races in a genetically diverse parasite. Major conclusions, solutions, achievements: We developed a small collection of SSR markers for genetic mapping in O. cumana and completed a diversity study to lay the ground for objective #1. Because DNA sequencing and SNPgenotyping technology dramatically advanced during the course of the study, we recommend shifting future work to SNP discovery and mapping using array-based approaches, instead of SSR markers. We completed a pilot study using a 96-SNP array, but it was not large enough to support genetic mapping in O.cumana. The development of further SNPs was beyond the scope of the grant. However, the collection of SSR markers was ideal for genetic diversity analysis, which indicated that O. cumanapopulations in Israel considerably differ frompopulations in other Mediterranean countries. We supplied physical and genetic mapping resources for identifying R-genes in sunflower responsible for resistance to O. cumana. Several thousand mapped SNP markers and a complete draft of the sunflower genome sequence are powerful tools for identifying additional candidate genes and understanding the genomic architecture of O. cumana-resistanceanddisease-resistance genes. Implications: The OrobancheSSR markers have utility in sunflower breeding and genetics programs, as well as a tool for understanding the heterogeneity of races in the field and for geographically mapping of pathotypes.The segregating populations of both Orobanche and sunflower hybrids are now available for QTL analyses.

scholarly journals Assessment of EST-SSR markers for genetic analisys on coffee

Bragantia ◽  
2009 ◽  
Vol 68 (3) ◽  
pp. 573-581 ◽  
Author(s):  
Robson Fernando Missio ◽  
Eveline Teixeira Caixeta ◽  
Eunize Maciel Zambolim ◽  
Guilherme Ferreira Pena ◽  
Ana Paula Ribeiro ◽  
...  
Keyword(s):  
Genetic Diversity ◽  
Genetic Mapping ◽  
Ssr Markers ◽  
Expressed Sequence Tags ◽  
Rust Resistance ◽  
Genome Project ◽  
Breeding Programs ◽  
Resistant Varieties ◽  
Differentiation Index ◽  
Expressed Sequence

EST-SSR markers were used to investigate the genetic diversity among and within coffee populations, to explore the possibility of their use for fingerprinting of cultivars and to assist breeding programs. Seventeen markers, developed from ESTs (Expressed Sequence Tags) from the Brazilian Coffee Genome Project, were used. All markers showed polymorphism among the genotypes assessed. The average number of allele per primer was 5.1. The highest polymorphisms were found within C. canephora (88.2%) and rust-resistant varieties (35.3%). About 29.4% of the markers differentiated C. arabica from Híbrido de Timor; it was also possible to identify those closest and farthest from C. arabica . The analysis of population-grouped genotypes revealed a 64.0% genetic diversity among and a 36.0% genetic diversity within populations. The differentiation index was 0.637. Six markers distinguished four rust-resistance varieties, showing their fingerprinting potential. These results demonstrate the usefulness of EST-SSR markers for cross orientation, in diversity and introgression studies, and in genetic mapping.

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