Peel color is an important breeding objective for eggplant. Dark purple and purplish red are the most common colors in commercial eggplant cultivars. A co-dominant amplified fragment length polymorphism (AFLP) marke...Peel color is an important breeding objective for eggplant. Dark purple and purplish red are the most common colors in commercial eggplant cultivars. A co-dominant amplified fragment length polymorphism (AFLP) marker which was associated with the peel color (each in coupling phase to dark purple and purplish red) was found in studying the genetic diversity in 58 eggplant accessions (contained cultivars and wild relatives). The maker bands were sequenced and converted to SCAR marker, this polymorphism in sequence was from an inserted/deleted (indels) mutation. And DNA from 136 eggplant materials (inbred lines, F1, and wild relatives) were amplified with the designed SCAR primers as template, high correlation between the SCAR marker and peel color (dark purple and purplish red) was found. Then, bulked line analysis (BLA) combined with AFLP was further used to identify polymorphic fragments, and another six AFLP markers were tested and verified to be associated with peel color, which demonstrated that BLA was an useful method for identifying molecular markers of interested traits. In conclusion, these markers will facilitate the MAS (maker-assisted selection) of eggplant breeding for peel color.展开更多
The versatility of the PCR technique is that several kinds of primers can be explored for genome analysis depending on the purpose of study. The easy to access and low cost PCR-based markers include Random Amplified P...The versatility of the PCR technique is that several kinds of primers can be explored for genome analysis depending on the purpose of study. The easy to access and low cost PCR-based markers include Random Amplified Polymorphic DNA (RAPD). The RAPD markers are easy to develop but lack of reproducibility makes it less reliable and obstacles to their further use in authentication of traits. In addition, other PCR and non PCR based markers like Amplified Fragment Length Polymorphism (AFLP), Simple Sequence Repeat (SSR) and Restriction Fragment Length Polymorphism (RFLP) are also employed in authentication of traits with certain restrictions vis-à-vis use of radioactive materials, high cost and requirement of sequence information etc. Therefore, this problem can be overcome by converting RAPD markers to more robust sequence characterized amplified regions i.e. SCAR markers. SCARs are locus specific, co-dominant in nature and amplified by PCR using specific 15 - 30 bp DNA fragments. For developing SCAR markers, primers are designed from the nucleotide sequences of a cloned RAPD fragments linked to a trait of interest. SCAR markers are easy to develop and reliable tools for DNA fingerprinting. This mini review is an attempt to summarize efficacy of RAPD-SCAR interface in authentication of traits.展开更多
The cultivar Ganoderma lucidum Hunong 5 was obtained using cross-breeding. Hunong 5 has high commercial value due to its high polysaccharide and triterpene content, This is the first report of using a DNA pooling meth...The cultivar Ganoderma lucidum Hunong 5 was obtained using cross-breeding. Hunong 5 has high commercial value due to its high polysaccharide and triterpene content, This is the first report of using a DNA pooling method to develop a stable sequence characterized amplified region (SCAR) marker for rapid identification of the G. lucidum Hunong 5 cultivar. The SCAR marker was developed by first generating and sequencing a distinctive inter simple sequence repeat (ISSR) fragment (882 bp) from G. lucidum Hunong 5 cultivar. A stable SCAR primer pair GLH5F/GLH5R were obtained to identify the cultivar and the SCAR marker is a DNA fragment of 773 bp.展开更多
Based on previous morphological classification and RAPD analysis, we recovered and sequenced genomic DNA of a specific fragment obtained from No. 45 Trichoderma harzianum strain in RAPD amplification. A pair of specif...Based on previous morphological classification and RAPD analysis, we recovered and sequenced genomic DNA of a specific fragment obtained from No. 45 Trichoderma harzianum strain in RAPD amplification. A pair of specific primers was synthesized and the RAPD markers were successfully converted into SCAR markers. The SCAR molecular marker exhibited the specificity that could differ T. harzianum from other Trichoderma strains. This pair of molecular primers was used for specific PCR amplification of 45 Trichoderma strains, and T. harzianum strains could amplify a 779 bp DNA band while other strains had no amplification products.展开更多
Plants have been used as good bio-indicators and genetic toxicity of environmental pollution in recent years. In this study, aquatic plants Hydrilla verticillata and Ceratophyllum demersum treated with 10umol/L Cd, 5 ...Plants have been used as good bio-indicators and genetic toxicity of environmental pollution in recent years. In this study, aquatic plants Hydrilla verticillata and Ceratophyllum demersum treated with 10umol/L Cd, 5 umol/L Hg, and 20 umol/L Cu for 96 h, showed changes in chlorophyll, protein content, and in DNA profiles. The changes in DNA profiles included variation in band intensity, presence or absence of certain bands and even appearance of new bands. Genomic template stability test performed for the qualitative measurement of changes in randomly amplified polymorphic DNA (RAPD) profiles, showed significant effect at the given concentration of metals. Cloning and sequencing of bands suggested that these markers although may not be homologous to any known gene but its conversion as a sequence characterized amplified region (SCAR) marker is useful in detecting the effects of genotoxin agents.展开更多
Species containing E genome of Thinopyrum offered potential to increase the genetic variability and desirable characters for wheat improvement. However, E genome specific marker was rare. The objective of the present ...Species containing E genome of Thinopyrum offered potential to increase the genetic variability and desirable characters for wheat improvement. However, E genome specific marker was rare. The objective of the present report was to develop and identify sequenced characterized amplified region (SCAR) markers that can be used in detecting E chromosome in wheat background for breeding purpose. Total 280 random amplified polymorphic DNA (RAPD) primers were amplified for seeking of E genome specific fragments by using the genomic DNA of Thinopyrum elongatum and wheat controls as templates. As a result, six RAPD fragments specific for E genome were found and cloned, and then were converted to SCAR markers. The usability of these markers was validated using a number of E- genome-containing species and wheat as controls. These markers were subsequently located on E chromosomes using specific PCR and fluorescence in situ hybridization (FISH). SCAR markers developed in this research could be used in molecular marker assisted selection of wheat breeding with Thinopyrum ehromatin introgressions.展开更多
基金supported by the Research Fundof Higher Education of Guangdong Province,China(cgzhzd0406)Agriculture Research Foundation of Guangdong Province,China(2007A020200005-2)
文摘Peel color is an important breeding objective for eggplant. Dark purple and purplish red are the most common colors in commercial eggplant cultivars. A co-dominant amplified fragment length polymorphism (AFLP) marker which was associated with the peel color (each in coupling phase to dark purple and purplish red) was found in studying the genetic diversity in 58 eggplant accessions (contained cultivars and wild relatives). The maker bands were sequenced and converted to SCAR marker, this polymorphism in sequence was from an inserted/deleted (indels) mutation. And DNA from 136 eggplant materials (inbred lines, F1, and wild relatives) were amplified with the designed SCAR primers as template, high correlation between the SCAR marker and peel color (dark purple and purplish red) was found. Then, bulked line analysis (BLA) combined with AFLP was further used to identify polymorphic fragments, and another six AFLP markers were tested and verified to be associated with peel color, which demonstrated that BLA was an useful method for identifying molecular markers of interested traits. In conclusion, these markers will facilitate the MAS (maker-assisted selection) of eggplant breeding for peel color.
文摘The versatility of the PCR technique is that several kinds of primers can be explored for genome analysis depending on the purpose of study. The easy to access and low cost PCR-based markers include Random Amplified Polymorphic DNA (RAPD). The RAPD markers are easy to develop but lack of reproducibility makes it less reliable and obstacles to their further use in authentication of traits. In addition, other PCR and non PCR based markers like Amplified Fragment Length Polymorphism (AFLP), Simple Sequence Repeat (SSR) and Restriction Fragment Length Polymorphism (RFLP) are also employed in authentication of traits with certain restrictions vis-à-vis use of radioactive materials, high cost and requirement of sequence information etc. Therefore, this problem can be overcome by converting RAPD markers to more robust sequence characterized amplified regions i.e. SCAR markers. SCARs are locus specific, co-dominant in nature and amplified by PCR using specific 15 - 30 bp DNA fragments. For developing SCAR markers, primers are designed from the nucleotide sequences of a cloned RAPD fragments linked to a trait of interest. SCAR markers are easy to develop and reliable tools for DNA fingerprinting. This mini review is an attempt to summarize efficacy of RAPD-SCAR interface in authentication of traits.
基金financially supported by the National Natural Science Foundation of China (31401933)the Shanghai Municipal Committee of Agriculture,China (G2014070107)
文摘The cultivar Ganoderma lucidum Hunong 5 was obtained using cross-breeding. Hunong 5 has high commercial value due to its high polysaccharide and triterpene content, This is the first report of using a DNA pooling method to develop a stable sequence characterized amplified region (SCAR) marker for rapid identification of the G. lucidum Hunong 5 cultivar. The SCAR marker was developed by first generating and sequencing a distinctive inter simple sequence repeat (ISSR) fragment (882 bp) from G. lucidum Hunong 5 cultivar. A stable SCAR primer pair GLH5F/GLH5R were obtained to identify the cultivar and the SCAR marker is a DNA fragment of 773 bp.
基金Supported by Natural Science Fund of Hainan Province in 2013"DNA Barcode Research of Medical Plants in Euphorbiaceae in Hainan Province"(813190)
文摘Based on previous morphological classification and RAPD analysis, we recovered and sequenced genomic DNA of a specific fragment obtained from No. 45 Trichoderma harzianum strain in RAPD amplification. A pair of specific primers was synthesized and the RAPD markers were successfully converted into SCAR markers. The SCAR molecular marker exhibited the specificity that could differ T. harzianum from other Trichoderma strains. This pair of molecular primers was used for specific PCR amplification of 45 Trichoderma strains, and T. harzianum strains could amplify a 779 bp DNA band while other strains had no amplification products.
基金supported financially by Department of Science and Technology, New Delhi, India under the SERC-DST fasttrack scheme.
文摘Plants have been used as good bio-indicators and genetic toxicity of environmental pollution in recent years. In this study, aquatic plants Hydrilla verticillata and Ceratophyllum demersum treated with 10umol/L Cd, 5 umol/L Hg, and 20 umol/L Cu for 96 h, showed changes in chlorophyll, protein content, and in DNA profiles. The changes in DNA profiles included variation in band intensity, presence or absence of certain bands and even appearance of new bands. Genomic template stability test performed for the qualitative measurement of changes in randomly amplified polymorphic DNA (RAPD) profiles, showed significant effect at the given concentration of metals. Cloning and sequencing of bands suggested that these markers although may not be homologous to any known gene but its conversion as a sequence characterized amplified region (SCAR) marker is useful in detecting the effects of genotoxin agents.
文摘Species containing E genome of Thinopyrum offered potential to increase the genetic variability and desirable characters for wheat improvement. However, E genome specific marker was rare. The objective of the present report was to develop and identify sequenced characterized amplified region (SCAR) markers that can be used in detecting E chromosome in wheat background for breeding purpose. Total 280 random amplified polymorphic DNA (RAPD) primers were amplified for seeking of E genome specific fragments by using the genomic DNA of Thinopyrum elongatum and wheat controls as templates. As a result, six RAPD fragments specific for E genome were found and cloned, and then were converted to SCAR markers. The usability of these markers was validated using a number of E- genome-containing species and wheat as controls. These markers were subsequently located on E chromosomes using specific PCR and fluorescence in situ hybridization (FISH). SCAR markers developed in this research could be used in molecular marker assisted selection of wheat breeding with Thinopyrum ehromatin introgressions.