RAPD （Random amplified polymorphic DNA） markers were used to study genetic diversity among three Kurdish sheep breeds （the Karadi, Hamdani and Jaff） with the Awassi sheep breed. A total of 40 samples were typed us...RAPD （Random amplified polymorphic DNA） markers were used to study genetic diversity among three Kurdish sheep breeds （the Karadi, Hamdani and Jaff） with the Awassi sheep breed. A total of 40 samples were typed using twenty RAPD primers. Ten out of the twenty primers had clear bands, which used to investigate the genetic variations among breeds. One of the ten primers is monomorphism. A total of 109 bands were scored, of which 46 bands （46.56%） were polymorphic and 18 of polymorphic band were unique bands. For all breeds, Nei＇s gene diversity, Shannon index, percentage of polymorphic loci and unique bands are respectively in the range of 0.32 to 0.50, 0.44 to 0.69, 31.81 to 100, and 2 to 8. Using UPGMA （unweighted pair-group method with arithmetic average） dendrogram, the three clusters, the 1st cluster branch consisted of the Karadi sheep breed, the 2nd cluster was include both of the Jaff and Hamdani sheep breeds and the 3rd one included Awassi sheep breed. These results indicated that the Karadi sheep is most genetically distant from the Awassi sheep （0.916）. The Jaff and Hamdani sheep in the 2nd cluster indicate a close relationship between them and the results indicated that the Jaff and Hamdani sheep breeds were closer to Awassi sheep breed than to the Karadi sheep breed. The dendrograms show that there are high genetic distances among sheep breeds, and were ranged from 0.223 between Hamdani and Jaff sheep breeds to 0.916 between Karadi and Awassi sheep breeds. Based on the high degree of genetic distance among the four sheep breeds it is concluded that the four sheep breeds arc independent and isolated breeds.展开更多
[Objective] This study aimed to carry out a preliminary analysis of genetic diversity of 47 JUNCAO germplasms. [Methods] Twenty-eight iPBS （Intel Primer Binding Site Amplification） primers were firstly used for PCR ...[Objective] This study aimed to carry out a preliminary analysis of genetic diversity of 47 JUNCAO germplasms. [Methods] Twenty-eight iPBS （Intel Primer Binding Site Amplification） primers were firstly used for PCR screening on a subset of four germplasms, of which 11 gave good amplification patterns and were then used for analyzing the DNA of 47 JUNCAO germplasms. [Result] A total of 208 polymorphic DNA fragments were scored among the 47 JUNCAO germplasms from the electrophoresis patterns of the 11 selected iPBS primers. By using the NTSYSpc 2.1 software combined with UPGMA clustering analysis method, the simple matching （SM） coefficient of similarity was calculated among all accessions and ranged from 0.58 to 0.99. The 47 JUNCAO germplasms were clustered into 10 categories at a genetic similarity coefficient of 0.67. All the 47 accessions were distinguished from each other. [Conclusion] Our results showed that iPBS markers could be effectively used for genetic diversity analysis of JUNCAO germplasms. This study provides a preliminary theoretical guidance and technical support for the efficient management and utilization of JUNCAO germplasm resources.展开更多
A DNA barcode is a short segment of sequence that is able to distinguish species. A barcode must ideally contain enough variation to distinguish every individual species and be easily obtained. Fungi of Nectriaceae ar...A DNA barcode is a short segment of sequence that is able to distinguish species. A barcode must ideally contain enough variation to distinguish every individual species and be easily obtained. Fungi of Nectriaceae are economically important and show high species diversity. To establish a standard DNA barcode for this group of fungi, the genomes of Neurospora crassa and 30 other filamentous fungi were compared. The expect value was treated as a criterion to recognize homologous sequences. Four candidate markers, Hsp90, AAC, CDC48, and EF3, were tested for their feasibility as barcodes in the identification of 34 well-established species belonging to 13 genera of Nectriaceae. Two hundred and fifteen sequences were analyzed. Intraand inter-specific variations and the success rate of PCR amplification and sequencing were considered as important criteria for estimation of the candidate markers. Ultimately, the partial EF3 gene met the requirements for a good DNA barcode: No overlap was found between the intra-and inter-specific pairwise distances. The smallest inter-specific distance of EF3 gene was 3.19%, while the largest intra-specific distance was 1.79%. In addition, there was a high success rate in PCR and sequencing for this gene (96.3%). CDC48 showed sufficiently high sequence variation among species, but the PCR and sequencing success rate was 84% using a single pair of primers. Although the Hsp90 and AAC genes had higher PCR and sequencing success rates (96.3% and 97.5%, respectively), overlapping occurred between the intraand inter-specific variations, which could lead to misidentification. Therefore, we propose the EF3 gene as a possible DNA barcode for the nectriaceous fungi.展开更多
文摘RAPD （Random amplified polymorphic DNA） markers were used to study genetic diversity among three Kurdish sheep breeds （the Karadi, Hamdani and Jaff） with the Awassi sheep breed. A total of 40 samples were typed using twenty RAPD primers. Ten out of the twenty primers had clear bands, which used to investigate the genetic variations among breeds. One of the ten primers is monomorphism. A total of 109 bands were scored, of which 46 bands （46.56%） were polymorphic and 18 of polymorphic band were unique bands. For all breeds, Nei＇s gene diversity, Shannon index, percentage of polymorphic loci and unique bands are respectively in the range of 0.32 to 0.50, 0.44 to 0.69, 31.81 to 100, and 2 to 8. Using UPGMA （unweighted pair-group method with arithmetic average） dendrogram, the three clusters, the 1st cluster branch consisted of the Karadi sheep breed, the 2nd cluster was include both of the Jaff and Hamdani sheep breeds and the 3rd one included Awassi sheep breed. These results indicated that the Karadi sheep is most genetically distant from the Awassi sheep （0.916）. The Jaff and Hamdani sheep in the 2nd cluster indicate a close relationship between them and the results indicated that the Jaff and Hamdani sheep breeds were closer to Awassi sheep breed than to the Karadi sheep breed. The dendrograms show that there are high genetic distances among sheep breeds, and were ranged from 0.223 between Hamdani and Jaff sheep breeds to 0.916 between Karadi and Awassi sheep breeds. Based on the high degree of genetic distance among the four sheep breeds it is concluded that the four sheep breeds arc independent and isolated breeds.
基金Supported by R&D Program of China National Engineering Research Center o JUNCAO Technology(JCGG14010)~~
文摘[Objective] This study aimed to carry out a preliminary analysis of genetic diversity of 47 JUNCAO germplasms. [Methods] Twenty-eight iPBS （Intel Primer Binding Site Amplification） primers were firstly used for PCR screening on a subset of four germplasms, of which 11 gave good amplification patterns and were then used for analyzing the DNA of 47 JUNCAO germplasms. [Result] A total of 208 polymorphic DNA fragments were scored among the 47 JUNCAO germplasms from the electrophoresis patterns of the 11 selected iPBS primers. By using the NTSYSpc 2.1 software combined with UPGMA clustering analysis method, the simple matching （SM） coefficient of similarity was calculated among all accessions and ranged from 0.58 to 0.99. The 47 JUNCAO germplasms were clustered into 10 categories at a genetic similarity coefficient of 0.67. All the 47 accessions were distinguished from each other. [Conclusion] Our results showed that iPBS markers could be effectively used for genetic diversity analysis of JUNCAO germplasms. This study provides a preliminary theoretical guidance and technical support for the efficient management and utilization of JUNCAO germplasm resources.
基金supported by the National Natural Science Foundation of China (Grant No. 31070015)the Special Project for Fundamental Research (Grant No. 2006FY120100) from Ministry of Science and Technology of Chinathe Knowledge Innovation Program of Chinese Academy of Sciences (Grant No. KSCX2-EW-J-6)
文摘A DNA barcode is a short segment of sequence that is able to distinguish species. A barcode must ideally contain enough variation to distinguish every individual species and be easily obtained. Fungi of Nectriaceae are economically important and show high species diversity. To establish a standard DNA barcode for this group of fungi, the genomes of Neurospora crassa and 30 other filamentous fungi were compared. The expect value was treated as a criterion to recognize homologous sequences. Four candidate markers, Hsp90, AAC, CDC48, and EF3, were tested for their feasibility as barcodes in the identification of 34 well-established species belonging to 13 genera of Nectriaceae. Two hundred and fifteen sequences were analyzed. Intraand inter-specific variations and the success rate of PCR amplification and sequencing were considered as important criteria for estimation of the candidate markers. Ultimately, the partial EF3 gene met the requirements for a good DNA barcode: No overlap was found between the intra-and inter-specific pairwise distances. The smallest inter-specific distance of EF3 gene was 3.19%, while the largest intra-specific distance was 1.79%. In addition, there was a high success rate in PCR and sequencing for this gene (96.3%). CDC48 showed sufficiently high sequence variation among species, but the PCR and sequencing success rate was 84% using a single pair of primers. Although the Hsp90 and AAC genes had higher PCR and sequencing success rates (96.3% and 97.5%, respectively), overlapping occurred between the intraand inter-specific variations, which could lead to misidentification. Therefore, we propose the EF3 gene as a possible DNA barcode for the nectriaceous fungi.
