Simple sequence repeat analyses of interspecific hybrids and MAALs of Oryza officinalis and Oryza sativa

Li, Gang; Hu, Wei; Qin, Rui; Jin, Huajun; Tan, Guangxuan; Zhu, Lili; He, Guangcun

doi:10.1007/s10709-007-9222-x

Cited by 12 publications

(7 citation statements)

References 41 publications

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“…This is similar to the earlier report (Panaud et al 1996) where the average cross-species amplification was 84% using 25 microsatellite loci in four rice genotypes: O. rufipogon, O. nivara, O. officinalis and O. glaberrima. Subsequently, Li et al (2008) also observed such high cross-transferability (84.60%) between the Oryza sativa and O. officinalis revealing highly conservative and good synteny between the homologous chromosomes of these two species (Tan et al 2005). Their observation along with the our present cross-species amplification rate (82%) in CC genome reassures the evolutionary closeness and conservation between the AA and CC genomes as compared to other genome type (Tan et al 2005;Li et al 2008).…”

Section: Cross-transferability Of Ssr Markers Across the Genomessupporting

confidence: 74%

“…Though SSR markers show their potentiality in studying the cross-transferability among wild relative rice and cultivated rice, a few information is available in the identification of such SSR markers where only one or few diverse genome were used (Ray et al 2016;Li et al 2008;Gao et al 2005;Brondani et al 2003). However, in this study, a total of fifteen diverse wild rice relatives with distinct genome types along with all the cultivated rice species (indica, japonica and glaberrima) were taken using a large set of SSR markers covering the entire genome for the first time.…”

Section: Cross-transferability Of Ssr Markers Across the Genomesmentioning

confidence: 99%

“…Subsequently, Li et al (2008) also observed such high cross-transferability (84.60%) between the Oryza sativa and O. officinalis revealing highly conservative and good synteny between the homologous chromosomes of these two species (Tan et al 2005). Their observation along with the our present cross-species amplification rate (82%) in CC genome reassures the evolutionary closeness and conservation between the AA and CC genomes as compared to other genome type (Tan et al 2005;Li et al 2008). However, the difference in the success of cross-species transferability may be further influenced by the types of DNA markers used which was observed by Ray et al (2016) after carrying out the cross-transferability analysis between the O. sativa and O. brachyantha and found drastic difference in crosstransferability between STS and CAPS markers (84.78%) and SSR (0.75%).…”

Section: Cross-transferability Of Ssr Markers Across the Genomesmentioning

confidence: 99%

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The potentiality of rice microsatellite markers in assessment of cross-species transferability and genetic diversity of rice and its wild relatives

et al. 2019

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The main aim of this study is to assess the potentiality of SSR markers for the identification of the cross-species transferability frequency in a large set of the diverse genome types of wild relative rice along with cultivated rice. Here, we used 18 different rice genotypes representing nine different genome types with 70 SSR markers to investigate the potentiality of cross-species transferability rate. The overall cross-species transferability of SSR markers across the 18 rice genotypes ranged from 38.9% (RM280 and RM447) to 100% (RM490, RM318, RM279, RM18877 and RM20033, RM19303) with an average of 76.58%. Also, cross-species transferability across chromosome ranged from 54.4% (chromosome 4) to 86.5% (chromosome 2) with an average of 74.35%. The polymorphism information content of the markers varied from 0.198 (RM263) to 0.868 (RM510) with a mean of 0.549 ± 0.153, showing high discriminatory power. The highest rate of cross-transferability was observed in O. rufipogon (97%), The highest rate of cross-species transferability was in O. rufipogon (97.00%), followed by O. glaberrima (94.20%), O. nivara (92.80%), Swarna (92.80%), O. longistaminata (91.40%), O. eichingeri (90%), O. barthii (88.50%), O. alta (82.80%), O. australiensis (77.10%), O. grandiglumis (74.20%), O. officinalis (74.20%), Zizania latifolia (70.00%), O. latifolia (68.50%), O. brachyantha (62.80%), Leersia perrieri (57.10%) and O. ridleyi (41.40%) with least in O. coarctata (28.50%). A total of 341 alleles from 70 loci were detected with the number of alleles per locus ranged from 2 to 12. Based on dendrogram analysis, the AA genome groups was separated as distinct group from the rest of the genome types. Similarly, principal coordinate analysis and structure analysis clearly separated the AA genome type from the rest of the genome types. Through the analysis of molecular variance, more variance (51%) was observed among the individual, whereas less (14%) was observed among the population. Thus, our findings may offer a valuable resource for studying the genetic diversity and relationship to facilitate the understanding of the complex mechanism of the origin and evolutionary processes of different Oryza species and wild relative rice.

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Section: Cross-transferability Of Ssr Markers Across the Genomessupporting

confidence: 74%

Section: Cross-transferability Of Ssr Markers Across the Genomesmentioning

confidence: 99%

Section: Cross-transferability Of Ssr Markers Across the Genomesmentioning

confidence: 99%

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The potentiality of rice microsatellite markers in assessment of cross-species transferability and genetic diversity of rice and its wild relatives

et al. 2019

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“…According to Li et al [21] , polymorphism in the SSR could also be due to changes in the SSR region itself, caused by the expansion or contraction of SSRs, or interruption.…”

Section: Polymorphism In Ssr Markersmentioning

confidence: 99%

Analysis of Sarawak Bario Rice Diversity Using Microsatellite Markers

Wong¹,

Hung²,

Bong³

et al. 2009

American J. of Agricultural and Biological Sciences

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Problem statement: There are numerous claims on varieties of Bario rice cultivars in Sarawak. Many of them might be synonyms or homonyms. This preliminary study was to differentiate Bario Rice cultivars using microsatellite molecular markers. Approach: Microsatellite marker panels distributed on all 12 chromosomes on rice genome were employed to study 8 Bario rice cultivars in Sarawak. Results: Current study indicated that the microsatellite panel were able to differentiate the 8 Bario rice cultivars. A total of 31 alleles were generated at 12 polymorphic microsatellite loci among the cultivars using the selected polymorphic SSR primer pairs with an average of 2.6 alleles per locus. Average PIC value obtained was 0.5204. An UPGMA dendrogram based on SSR polymorphism indicated high variation among the rice varieties with the coefficient ranging from 0.16 and 0.92. Genetic diversity determination using cluster analysis showed differentiation of rice cultivars into 2 major groups and several sub-groups. Conclusion: The SSR markers were useful for differentiating the genotypes and assessment of genetic relationships due to its reproducibility and to multiallelic, codominant and informative properties.

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“…The monosomic alien addition lines (MAALs) of O. officinalis-O. sativa are aneuploid plants holding 12 chromosome pairs of cultivated rice and only one chromosome of O. officinalis, and these new materials are convenient for studying relationships between the A and C genomes (Tan et al 2005;Li et al 2008). In this study, we investigated the phenomenon that the MAALs of O. officinalis (CC)-O. sativa (AA) inherited stably in the genomic and cytoplasmic environments of cultivated rice.…”

Section: Introductionmentioning

confidence: 99%

Characterization of an Alien Chromosome of Oryza officinalis Transferred the Genomic and Cytological Environment of Oryza sativa

Tang

et al. 2010

J. Plant Biol.

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Distant hybridization between rice species and their genome interactions have become the hot points of genetic research. The new formed hybrid was unstable and many of the alien chromosomes would be excluded out in the meiosis procedure. In this study, we investigated the phenomenon that the monosomic alien addition lines (MAALs) of Oryza officinalis (CC)-Oryza sativa (AA) inherited in the genomic and cytoplasmic environments of cultivated rice. In a series of backcross programs, every time the MAALs were backcrossed with the recurrent parent Hejiang19, we get a portion of the backcross progenies that were similar to the female parent MAALs in morphological characters (with rolled leaves) and chromosome constitutions (2n+1). The monosomic alien chromosome exhibited stable inheritance in the genomic and cytoplasmic environments of cultivated rice. Molecular biology and fluorescence in situ hybridization (FISH) analyses on mitotic cells showed that the alien chromosomes in MAALs were inclined to be transferred integrated into the backcross progenies with rolled leaves and no big fragments of alien chromosomes introgressing into the chromosomes of cultivated rice. By FISH analysis on the meiotic cells, we proved that the single alien chromosome performing nonstandard meiosis and behaving like a dispensable genetic factor, which would be the cytological reasons for the stable inheritance of alien chromosomes.

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Simple sequence repeat analyses of interspecific hybrids and MAALs of Oryza officinalis and Oryza sativa

Cited by 12 publications

References 41 publications

The potentiality of rice microsatellite markers in assessment of cross-species transferability and genetic diversity of rice and its wild relatives

The potentiality of rice microsatellite markers in assessment of cross-species transferability and genetic diversity of rice and its wild relatives

Analysis of Sarawak Bario Rice Diversity Using Microsatellite Markers

Characterization of an Alien Chromosome of Oryza officinalis Transferred the Genomic and Cytological Environment of Oryza sativa

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