Molecular identification and genetic relationships among coffee species (Coffea L.) inferred from ISSR and SRAP marker analyses

Mishra, M. K.; Nishani, Sandhyarani; Jayarama, J

doi:10.2298/abs1103667m

Cited by 23 publications

(26 citation statements)

References 13 publications

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“…The ISSR markers are used in many parts of the world to measure genetic fidelity and genetic diversity in Rubiaceae (Mishra et al, 2011;Oliveira et al, 2010). The high level of polymorphism observed in this study agrees with the results of previous genotyping studies using RAPD .…”

Section: Resultssupporting

confidence: 89%

Diversity and genetic structure of jenipapo (Genipa americana L.) Brazilian accessions

Silva

Freire

Lédo

et al. 2014

Sci. agric. (Piracicaba, Braz.)

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Usually known as jenipapo, Genipa americana L. is a Rubiaceae Brazilian native species. It is an important species in the restoration of Brazilian riparian forests and is one of the most promising fruit trees for sustainable harvesting programs. In this study we provide the first data on the genetic diversity and structure of a Jenipapo Germplasm Bank using inter simple sequence repeat (ISSR) markers. We evaluated 160 accessions from wild populations, and the data generated from 12 ISSR primers were used to determine genetic variability via a model-based Bayesian procedure (Structure) and molecular variance analysis. In addition, Shannon index, genetic diversity and Jaccard coefficients were estimated. A total of 12 primers were used, which generated 123 polymorphic fragments. Four groups were formed from the analysis of the fragments, and the CR1-2 genotype was isolated, being more divergent than the other genotypes.

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Section: Resultssupporting

confidence: 89%

Diversity and genetic structure of jenipapo (Genipa americana L.) Brazilian accessions

Silva

Freire

Lédo

et al. 2014

Sci. agric. (Piracicaba, Braz.)

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“…This value appeared to be relatively high, similar to the other SRAP based studies, e.g. orchid (80.52%; Cai et al, 2011), Salvia miltiorrhiza (90%; Song et al, 2010), and coffee species (93%; Mishra et al, 2011). This result implies that SRAP markers are effi cient for analyzing polymorphism level in Alcea.…”

Section: Discussionsupporting

confidence: 85%

“…They reported SRAP as the most powerful DNA marker. This could be explained by the fact that SRAP markers preferentially detect polymorphism in coding sequences which are usually conserved among closely related species and varieties with low mutation rate (Mishra et al, 2011). In our study, 17 primer combinations could amplify 104 discrete bands of which 97 were polymorphic (93% polymorphism).…”

Section: Discussionmentioning

confidence: 69%

“…SRAP shows dominant molecular markers similar to Random Amplifi ed Polymorphism DNA (RAPD) markers, but with preferential random amplifi cation of coding regions in the genome (Li and Quiros, 2001). The technique has been successfully applied in gene tagging (Song et al, 2010;Mishra et al, 2011;Inan et al, 2012), genetic linkage, map construction and genetic diversity analysis (Li and Quiros, 2001;Ferriol et al, 2003;Guo and Luo, 2006;Ding et al, 2008). Actuality, no report has been published on genetic diversity of Alcea in the world.…”

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confidence: 99%

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Evaluation of genetic diversity in Alcea (Malvaceae) using SRAP markers

Badrkhani

Rahmani

Larti³

2014

Bot. Sci.

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Abstract:In this work, sequence-related amplifi ed polymorphism (SRAP) marker was employed to assess the genetic diversity and genetic similarity relationships among14 species of Alcea collected from northwest of Iran. Seventeen SRAP primer combinations generated 104 fragments, of which 97 (93%) were polymorphic, with an average of 5.7 polymorphic fragments per primer. Percentage of polymorphism ranged from 50% (ME2-EM6) to a maximum of 100%, and mean polymorphism information content value obtained was 0.3. The lowest genetic similarity (0.17) was observed between A. sophiae and A. fl avovirens, while the highest was found between A. digitata and A. longipedicellata (0.68). Two main clusters were detected using UPGMA, which did not correspond to geographical origin of the species. The study indicates that SRAP markers could be good candidates for assessing genetic variation in Alcea. Key words: Alcea, genetic relationship, molecular marker, polymorphism.Resumen: En este trabajo se usó el marcador de polimorfi smo de amplifi cado de secuencias relacionadas (SRAP) para evaluar la diversidad genética y las relaciones de similitud genética en 14 especies de Alcea distribuidas en el noroeste de Irán. La combinación de 17 primers de SRAP generaron 104 fragmentos, de los cuales 97 (93%) fueron polimórfi cos, con un promedio de 5.7 fragmentos polimórfi cos por primer. El promedio de polimorfi smos varió entre 50% (ME2-EM6) y 100%, y el contenido de información de polimorfi smo fue de 0.3. Las semejanzas genéticas más bajas (0.17) se observaron entre A. sophiae y A. fl avovirens mientras la más alta se encontró entre A. digitata y A. longipedicellata (0.68). Usando UPGMA se encontraron dos grupos principales sin relación al origen geográfi co de las especies. El estudio indica que el marcador SRAP podría ser un buen candidato para evaluar la variación genética en Alcea.

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“…Recently, a new class of molecular marker known as sequence related amplified polymorphism (SRAP) has been increasingly used for genetic diversity and gene mapping [20]. Recently we have reported the use of SRAP markers in coffee [21][22][23]. The SRAP is a PCR based marker system that preferentially amplifies coding sequences randomly distributed throughout the genome.…”

Section: Introductionmentioning

confidence: 99%

Field Performance and Genetic Fidelity of Micropropagated Plants of Coffea canephora (Pierre ex A. Froehner)

Bychappa¹,

Kosaraju²,

Mishra³

et al. 2017

Open Life Sciences

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Abstract:This study was conducted to compare the growth and yield of one of the commercial hybrid coffee cultivars (Coffea congensis x Coffea canephora) of robusta coffee established from somatic embryogenesis as well as conventional seedlings. Results indicated no statistically significant differences in the growth pattern or the cumulative yield between the somatic embryogenesis derived plants and the seedlings. The genetic fidelity of somatic embryogenesis derived plants and the mother plant was tested using sequence related amplified polymorphism (SRAP) markers. A total of 24 SRAP primers were employed for DNA analysis which produced a total of 153 clear, distinct and reproducible amplicons of variable size. Out of 24 SRAP primers, 9 primers produced amplification patterns which are identical between the mother plants and plants derived from somatic embryogenesis. Cluster analysis revealed more than 95% genetic similarity between the somatic embryogenesis derived plants and the mother plants indicating a high degree of genetic fidelity. The present study clearly demonstrates the usefulness of SRAP markers in genetic fidelity analysis of coffee.

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Molecular identification and genetic relationships among coffee species (Coffea L.) inferred from ISSR and SRAP marker analyses

Cited by 23 publications

References 13 publications

Diversity and genetic structure of jenipapo (Genipa americana L.) Brazilian accessions

Diversity and genetic structure of jenipapo (Genipa americana L.) Brazilian accessions

Evaluation of genetic diversity in Alcea (Malvaceae) using SRAP markers

Field Performance and Genetic Fidelity of Micropropagated Plants of Coffea canephora (Pierre ex A. Froehner)

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