This study analyzed nueleotide sequences from the mitochondrial eytochrome oxidase submit （COI） gene region （450 bp） to investigate the genetic structure of the oriental river prawn （ Macrobrachium nipponense ） ...This study analyzed nueleotide sequences from the mitochondrial eytochrome oxidase submit （COI） gene region （450 bp） to investigate the genetic structure of the oriental river prawn （ Macrobrachium nipponense ） among nine populations from the Yangtze and Lancang Rivers. A total of 79 individuals were collected for this work. Eighty-nine nucleotides were found to be variable, resulting in 46 haplotypes. Among the nine populations, the population from Kunming shows the greatest level of variability （h = 1.000, π = 0.028）, whereas the population from Cbongqing exhibits the lowest level of variability （h = 0.700,π = 0.008）. Analysis of molecular variance suggested that of the total genetic diversity, 9.66% was attributable to inter-population diversity and the remainder （90.34%） to differences within populations. A molecular phylogenetic tree constructed using the Neighbor-joining （N J） method showed that the 46 haplotypes were assigned to two clades associated with geographic regions. These results provide basic information for the conservation and sustainable exploitation of this species.展开更多
Fifteen sequences from the mitochondrial cytochrome c oxidase subunit I gene （COI） were determined for 4 species of the genus Meretrix, with the homologous sequences ofM. petechialis obtained from the GenBank data l...Fifteen sequences from the mitochondrial cytochrome c oxidase subunit I gene （COI） were determined for 4 species of the genus Meretrix, with the homologous sequences ofM. petechialis obtained from the GenBank data library The alignment length of the sequences was 574bp after excluding ambiguous sites, including 93 parsimony informative sites. In the fragments, the percentages of A, T, C and G were 21.15%, 44.71%, 14.05% and 20.09% respectively. There were 12 haplotypes identified： 4 M. meretrix, 2 M. IamarckiL 3 M. lusoria, 1 M. lyrata and 2 M. petechialis. Furthermore, it was revealed that M.. meretrix, M. petechialis and M. lusoria shared some haplotypes. Phylogeny trees were reconstructed by Maximum-parsimony （MP） and Bayesian method using Qylina sinensis as the outgroup. Our results indicated that M. lusoria, M. petechialis and M. meretrix are closely related species. This is in accordance with the viewpoint that M. petechialis and M. lusoria should be treated as a junior synonym of M. meretrix.展开更多
[Objective] The aim was to provide molecular biological basis for the researches on the genetic resources,genetic relationship among species and phyletic evolution of S.barcoo.[Method] PCR amplification and sequencing...[Objective] The aim was to provide molecular biological basis for the researches on the genetic resources,genetic relationship among species and phyletic evolution of S.barcoo.[Method] PCR amplification and sequencing were used to study the 16S rRNA and COI gene fragments.[Result] As for 16S rRNA gene fragments,nucleotide sequences of 791 bp were obtained,and the A,T,G and C contents in this fragment were 31.6%,21.4%,20.4% and 26.7%respectively.As for the COI gene fragments,the size was 631 bp and the A,T,G And C contents were 27.7%,23.6%,29.8% and 18.9% respectively.Among these two gene fragments,the content of GC was lower than AT,and AT/GC of these two fragments was 1.13 and 1.05 respectively.[Conclusion] The genetic characteristics of gene fragments of 16S rRNA and COI of S.barcoo suggested that the variation in the same species was relatively low.The sequences of 16S rRNA gene in three samples the same,while the sequences of COI gene was also the same,indicating that these two gene of S.barcoo were conservative.展开更多
Freshwater prawns （Decapoda： Caridea： Macrobrachium） play an important role in domestic fishery resources. Culturing M. rosenbergii and M. nipponense brings great economic benefits, as the two species were widely ...Freshwater prawns （Decapoda： Caridea： Macrobrachium） play an important role in domestic fishery resources. Culturing M. rosenbergii and M. nipponense brings great economic benefits, as the two species were widely farmed in China. M. qilianensis, a native species with natural distribution limited in Gansu province, was classified into genus Macrobrachium based on external morphological characters. In order to understand the molecular genetic differences among the three species of Macrobrachium, i.e., M. rosenbergii, M. nipponense, and M. qilianensis, we analyzed sequences of mitochondrial cytochrome oxidase subunit I （COI） of them. It would provide theoretical basis of exploiting and utilizing Macrobrachium resources rationally. A total of 30 individuals （10 individuals of each species） were collected from Gansu and Zhejiang province. Samples of M. qilianensis were wild, however, that of M. rosenbergii and M. nipponense were cultured. Their mitochondrial COI gene segment sequences were obtained by using the method of PCR amplification and sequencing. After alignment, 649 bp consensus sequences of COI were obtained. One hundred and sixty-nine variable sites were detected in all 30 individuals, accounting for 26.04% of total sequence. A total of seven haplotypes were also detected. Nucleotide diversity was 0.411% within M. rosenbergii, 0.092% within M. nipponense, and 0.031% within M. qilianensis. Genetic diversity of wild M. qilianensis was much lower than that of cultured M. rosenbergii and M. nipponense. Genetic distances between different haplotypes of the three prawns ranged from 19.87% to 23.84%. It suggested that the three species were valid species, because genetic distances among them were quite great. To further determine the taxonomic status of the three prawns in family Palaemonoidae, we downloaded the corresponding COI sequences of Palaemonoidae prawns from Genbank and analyzed the phylogenetic relationships of them. Phylogenetic tree （NJ） showed that M. nipponense, M. rosenbergii and other Macrobrachium species constituted one monophyletic group. However, M. qilianensis, Exopalaemon carinicauda, and Palaemon debilis formed the other clade. Thus, results of COI sequences did not support that M. qilianensis belonged to genus Macrobrachium. The taxonomic status ofM. qilianensis should be reevaluated with more comprehensive evidences.展开更多
In order to characterize the genetic relationship of the geographic populations of Sitobion avenae （Hemiptera： Aphididae） in China, a 588 bp region of the mitochondrial cytochrome oxidase subunit I （mtDNA-COI） ge...In order to characterize the genetic relationship of the geographic populations of Sitobion avenae （Hemiptera： Aphididae） in China, a 588 bp region of the mitochondrial cytochrome oxidase subunit I （mtDNA-COI） gene was sequenced and analyzed among the different geographic populations. 269 individuals were collected from 17 localities in different wheat-growing areas in China that covered most of the range reported for this species. Within the sequence among these geographic populations, 15 polymorphic sites defined 16 distinct haplotypes, ranging in sequence divergence from 0.2% （one nucleotide） to 1.7% （10 nucleotides）. Of the 15 variable sites, 12 were transitional substitutions, 2 were transversional substitutions and 1 was transitional and transversional substitution. Phylogenetic analysis showed that all haplotypes were highly interconnected with each other, in absence of phylogeographic structing. Each of 8 haplotypes was found only at one locality, and the other haplotypes were the widespread distributed in the different localities. The higher genetic diversity was found in the northern China populations than that in the southern China populations. The low genetic differentiation （FST=-0.06945-0.69857） and high migration rate （Nm=0.21575-infinite） of Chinese populations suggest that dispersal over long distance is a major factor in the demography of S. avenae.展开更多
Fox is an important economic fur animal with a very promising prospect. The fox mitochondrial COl gene-specific primers and probes were used to opti- mize and develop a real time fluorescence PCR system for rapid dete...Fox is an important economic fur animal with a very promising prospect. The fox mitochondrial COl gene-specific primers and probes were used to opti- mize and develop a real time fluorescence PCR system for rapid detection of fox-derived components. The results showed that the real time fluorescence PCR gave a very high sensitivity, with the detection limit as low as 12 fg DNA, and it did not present any cross reaction with other common species like pig, cow, sheep, dog, soybean and maize. It could be concluded that this method can be used as an effective method for detecting the fox-derived components in food and feedstuff, and can also be applied for distinguishing the fox fur from adulterants.展开更多
[Objectives]The most common gene fragment used in animal DNA barcode technology is COI,but it is not necessarily suitable for all species.This study was conducted to screen genes suitable for the DNA barcode of sea sn...[Objectives]The most common gene fragment used in animal DNA barcode technology is COI,but it is not necessarily suitable for all species.This study was conducted to screen genes suitable for the DNA barcode of sea snakes.[Methods]All COI and cytb gene sequences on GenBank were searched and downloaded.After the comparison with Mega software,clustering trees of MrBayes system were established.[Results]Interspecies distances were greater than intraspecies distances for the two genes.The topological structures of their molecular hierarchical clustering trees were clear,and the support rates were high.[Conclusions]Therefore,it is concluded that not the DNA barcode of each species must be gene COI.Cytb is more suitable in terms of the mitochondrial gene of sea snakes.展开更多
Hyalomma dromedarii ticks are important disease vectors to camels in the UAE and worldwide. Ticks can be identified using DNA-based techniques. In addition, such techniques could be utilized to study the intraspecific...Hyalomma dromedarii ticks are important disease vectors to camels in the UAE and worldwide. Ticks can be identified using DNA-based techniques. In addition, such techniques could be utilized to study the intraspecific genetic diversity in tick populations. In this study, the genetic diversity of four H. dromedarii populations was investigated using mitochondrial cytochrome c oxidase subunit I (COI) gene and randomly amplified polymorphic DNA polymerase chain reaction (RAPD-PCR). The results showed that both of the aforementioned techniques produced similar grouping patterns. Moreover, they revealed that the four tick populations had high levels of genetic similarity. However, one population was slightly different from the three other populations. The current study demonstrated that H. dromedarii ticks in the UAE are very similar at the genetic level and that investigating more locations and screening larger numbers of ticks could reveal larger genetic differences.展开更多
DNA sequences from the mitochondrial gene cytochrome oxidase subunit I （mtDNA CO I） were used to estimate the genetic variability in two wild populations and two cultured populations of the hard shelled mussel, Myti...DNA sequences from the mitochondrial gene cytochrome oxidase subunit I （mtDNA CO I） were used to estimate the genetic variability in two wild populations and two cultured populations of the hard shelled mussel, Mytilus coruscus. Thirty haplotypes were identified in the four populations. The cultured populations exhibited a lower number of haplotypes and genetic diversity than those of the wild populations, suggesting that a small number of effective founding breeders contributed to the genetic variation of the cultured populations. No significant differentiation was observed between the cultured population and local wild population, implying that persistent gene flow occurred in these populations. This genetic survey is intended as a baseline for future genetic monitoring of M. coruseus aquaculture stocks.展开更多
Fragments of nuclear ribosomal 28S rDNA D2 divergent domain, mitochondrial 16S rDNA, and COI partial genes of 15 species in the subgenus Singhardina Mahmood from China were amplified and sequenced. Molecular phylogene...Fragments of nuclear ribosomal 28S rDNA D2 divergent domain, mitochondrial 16S rDNA, and COI partial genes of 15 species in the subgenus Singhardina Mahmood from China were amplified and sequenced. Molecular phylogenetic trees were constructed using maximum parsimony, maximum likelihood and Bayesian inference methods. Results from these methods revealed similar topologies with recognizable relationships among subclades. The phylogenetic relationship of four species groups of subgenus Singhardina Mahmood from China is discussed for the first time. The results show that Singhardina Mahmood forms a single lineage representing a monophyletic group. The Eurhadina （Singhardina） rubra species group newly proposed in this study is likely the most basal species group within Singhardina Mahmood. The E. （Singhardina） robusta species group is the sister group of the E. （Singhardina） mamata species group. Molecular evidence supports including the E. （Singhardina） vittata species group in the E. （Singhardina） punjabensis species group.展开更多
基金This project was supported partly by Key Research Programof Zhejiang(2005C12006-01,2006C12005)
文摘This study analyzed nueleotide sequences from the mitochondrial eytochrome oxidase submit （COI） gene region （450 bp） to investigate the genetic structure of the oriental river prawn （ Macrobrachium nipponense ） among nine populations from the Yangtze and Lancang Rivers. A total of 79 individuals were collected for this work. Eighty-nine nucleotides were found to be variable, resulting in 46 haplotypes. Among the nine populations, the population from Kunming shows the greatest level of variability （h = 1.000, π = 0.028）, whereas the population from Cbongqing exhibits the lowest level of variability （h = 0.700,π = 0.008）. Analysis of molecular variance suggested that of the total genetic diversity, 9.66% was attributable to inter-population diversity and the remainder （90.34%） to differences within populations. A molecular phylogenetic tree constructed using the Neighbor-joining （N J） method showed that the 46 haplotypes were assigned to two clades associated with geographic regions. These results provide basic information for the conservation and sustainable exploitation of this species.
基金supported by Jiangsu Provincial Key Laboratory of Coastal Wetland Bio-resources and Environmental Protection (JLCBE07007)~~
文摘Fifteen sequences from the mitochondrial cytochrome c oxidase subunit I gene （COI） were determined for 4 species of the genus Meretrix, with the homologous sequences ofM. petechialis obtained from the GenBank data library The alignment length of the sequences was 574bp after excluding ambiguous sites, including 93 parsimony informative sites. In the fragments, the percentages of A, T, C and G were 21.15%, 44.71%, 14.05% and 20.09% respectively. There were 12 haplotypes identified： 4 M. meretrix, 2 M. IamarckiL 3 M. lusoria, 1 M. lyrata and 2 M. petechialis. Furthermore, it was revealed that M.. meretrix, M. petechialis and M. lusoria shared some haplotypes. Phylogeny trees were reconstructed by Maximum-parsimony （MP） and Bayesian method using Qylina sinensis as the outgroup. Our results indicated that M. lusoria, M. petechialis and M. meretrix are closely related species. This is in accordance with the viewpoint that M. petechialis and M. lusoria should be treated as a junior synonym of M. meretrix.
基金Supported by Agricultural Seed Project of Shandong Province~~
文摘[Objective] The aim was to provide molecular biological basis for the researches on the genetic resources,genetic relationship among species and phyletic evolution of S.barcoo.[Method] PCR amplification and sequencing were used to study the 16S rRNA and COI gene fragments.[Result] As for 16S rRNA gene fragments,nucleotide sequences of 791 bp were obtained,and the A,T,G and C contents in this fragment were 31.6%,21.4%,20.4% and 26.7%respectively.As for the COI gene fragments,the size was 631 bp and the A,T,G And C contents were 27.7%,23.6%,29.8% and 18.9% respectively.Among these two gene fragments,the content of GC was lower than AT,and AT/GC of these two fragments was 1.13 and 1.05 respectively.[Conclusion] The genetic characteristics of gene fragments of 16S rRNA and COI of S.barcoo suggested that the variation in the same species was relatively low.The sequences of 16S rRNA gene in three samples the same,while the sequences of COI gene was also the same,indicating that these two gene of S.barcoo were conservative.
基金supported by the National Natural Science Foundation of China(30600456)Commission of Science and Technology of Shanghai(08391910300)Project of Keji Xiong Nong (2008-7-2) of Shanghai,China
文摘Freshwater prawns （Decapoda： Caridea： Macrobrachium） play an important role in domestic fishery resources. Culturing M. rosenbergii and M. nipponense brings great economic benefits, as the two species were widely farmed in China. M. qilianensis, a native species with natural distribution limited in Gansu province, was classified into genus Macrobrachium based on external morphological characters. In order to understand the molecular genetic differences among the three species of Macrobrachium, i.e., M. rosenbergii, M. nipponense, and M. qilianensis, we analyzed sequences of mitochondrial cytochrome oxidase subunit I （COI） of them. It would provide theoretical basis of exploiting and utilizing Macrobrachium resources rationally. A total of 30 individuals （10 individuals of each species） were collected from Gansu and Zhejiang province. Samples of M. qilianensis were wild, however, that of M. rosenbergii and M. nipponense were cultured. Their mitochondrial COI gene segment sequences were obtained by using the method of PCR amplification and sequencing. After alignment, 649 bp consensus sequences of COI were obtained. One hundred and sixty-nine variable sites were detected in all 30 individuals, accounting for 26.04% of total sequence. A total of seven haplotypes were also detected. Nucleotide diversity was 0.411% within M. rosenbergii, 0.092% within M. nipponense, and 0.031% within M. qilianensis. Genetic diversity of wild M. qilianensis was much lower than that of cultured M. rosenbergii and M. nipponense. Genetic distances between different haplotypes of the three prawns ranged from 19.87% to 23.84%. It suggested that the three species were valid species, because genetic distances among them were quite great. To further determine the taxonomic status of the three prawns in family Palaemonoidae, we downloaded the corresponding COI sequences of Palaemonoidae prawns from Genbank and analyzed the phylogenetic relationships of them. Phylogenetic tree （NJ） showed that M. nipponense, M. rosenbergii and other Macrobrachium species constituted one monophyletic group. However, M. qilianensis, Exopalaemon carinicauda, and Palaemon debilis formed the other clade. Thus, results of COI sequences did not support that M. qilianensis belonged to genus Macrobrachium. The taxonomic status ofM. qilianensis should be reevaluated with more comprehensive evidences.
基金supported by the National Basic Research Program of China (973 Program, 2006CB102004)the National S&T Major Project of China (2009ZX08012-007B)+1 种基金the National Natural Science Foundation of China (30971920)the Inter-University Targeted Project between Belgium and China (PIC SHANDONG)
文摘In order to characterize the genetic relationship of the geographic populations of Sitobion avenae （Hemiptera： Aphididae） in China, a 588 bp region of the mitochondrial cytochrome oxidase subunit I （mtDNA-COI） gene was sequenced and analyzed among the different geographic populations. 269 individuals were collected from 17 localities in different wheat-growing areas in China that covered most of the range reported for this species. Within the sequence among these geographic populations, 15 polymorphic sites defined 16 distinct haplotypes, ranging in sequence divergence from 0.2% （one nucleotide） to 1.7% （10 nucleotides）. Of the 15 variable sites, 12 were transitional substitutions, 2 were transversional substitutions and 1 was transitional and transversional substitution. Phylogenetic analysis showed that all haplotypes were highly interconnected with each other, in absence of phylogeographic structing. Each of 8 haplotypes was found only at one locality, and the other haplotypes were the widespread distributed in the different localities. The higher genetic diversity was found in the northern China populations than that in the southern China populations. The low genetic differentiation （FST=-0.06945-0.69857） and high migration rate （Nm=0.21575-infinite） of Chinese populations suggest that dispersal over long distance is a major factor in the demography of S. avenae.
基金Supported by Program of General Administration of Quality Supervision,Inspection and Quarantine of the People's Republic of China(2011IK011)
文摘Fox is an important economic fur animal with a very promising prospect. The fox mitochondrial COl gene-specific primers and probes were used to opti- mize and develop a real time fluorescence PCR system for rapid detection of fox-derived components. The results showed that the real time fluorescence PCR gave a very high sensitivity, with the detection limit as low as 12 fg DNA, and it did not present any cross reaction with other common species like pig, cow, sheep, dog, soybean and maize. It could be concluded that this method can be used as an effective method for detecting the fox-derived components in food and feedstuff, and can also be applied for distinguishing the fox fur from adulterants.
基金Supported by Hainan Provincial Natural Science Foundation of China,High-level Talent Project(321RC587),Classification of sea snakes in the South Sea China based on molecular Systematics,morphology and climate modelSpecial Scientific Research Trial Production Project of Sanya City(2016KS05),Identification of sea snake species and construction of DNA barcoding based on molecular systematics.
文摘[Objectives]The most common gene fragment used in animal DNA barcode technology is COI,but it is not necessarily suitable for all species.This study was conducted to screen genes suitable for the DNA barcode of sea snakes.[Methods]All COI and cytb gene sequences on GenBank were searched and downloaded.After the comparison with Mega software,clustering trees of MrBayes system were established.[Results]Interspecies distances were greater than intraspecies distances for the two genes.The topological structures of their molecular hierarchical clustering trees were clear,and the support rates were high.[Conclusions]Therefore,it is concluded that not the DNA barcode of each species must be gene COI.Cytb is more suitable in terms of the mitochondrial gene of sea snakes.
文摘Hyalomma dromedarii ticks are important disease vectors to camels in the UAE and worldwide. Ticks can be identified using DNA-based techniques. In addition, such techniques could be utilized to study the intraspecific genetic diversity in tick populations. In this study, the genetic diversity of four H. dromedarii populations was investigated using mitochondrial cytochrome c oxidase subunit I (COI) gene and randomly amplified polymorphic DNA polymerase chain reaction (RAPD-PCR). The results showed that both of the aforementioned techniques produced similar grouping patterns. Moreover, they revealed that the four tick populations had high levels of genetic similarity. However, one population was slightly different from the three other populations. The current study demonstrated that H. dromedarii ticks in the UAE are very similar at the genetic level and that investigating more locations and screening larger numbers of ticks could reveal larger genetic differences.
基金Supported by grants from the National High Technology Research and Development Program (2006AA10A410)Shanghai Leading Academic Discipline Project (Y1101)Shanghai Research Fund for the Excellent Youth Scholar (B81010615)
文摘DNA sequences from the mitochondrial gene cytochrome oxidase subunit I （mtDNA CO I） were used to estimate the genetic variability in two wild populations and two cultured populations of the hard shelled mussel, Mytilus coruscus. Thirty haplotypes were identified in the four populations. The cultured populations exhibited a lower number of haplotypes and genetic diversity than those of the wild populations, suggesting that a small number of effective founding breeders contributed to the genetic variation of the cultured populations. No significant differentiation was observed between the cultured population and local wild population, implying that persistent gene flow occurred in these populations. This genetic survey is intended as a baseline for future genetic monitoring of M. coruseus aquaculture stocks.
基金supported by"The National Natural Science Foundation of China" (No. 30770262)"The Ministry of Science and Technology of the People's Republic of China " (No. 2006FY120100)partly by "Northwest A&F University Grants for Outstanding Young Faculty Members" (No.Z111020905)
文摘Fragments of nuclear ribosomal 28S rDNA D2 divergent domain, mitochondrial 16S rDNA, and COI partial genes of 15 species in the subgenus Singhardina Mahmood from China were amplified and sequenced. Molecular phylogenetic trees were constructed using maximum parsimony, maximum likelihood and Bayesian inference methods. Results from these methods revealed similar topologies with recognizable relationships among subclades. The phylogenetic relationship of four species groups of subgenus Singhardina Mahmood from China is discussed for the first time. The results show that Singhardina Mahmood forms a single lineage representing a monophyletic group. The Eurhadina （Singhardina） rubra species group newly proposed in this study is likely the most basal species group within Singhardina Mahmood. The E. （Singhardina） robusta species group is the sister group of the E. （Singhardina） mamata species group. Molecular evidence supports including the E. （Singhardina） vittata species group in the E. （Singhardina） punjabensis species group.
