Long-PCR amplification, clone and primer-walking sequencing methods were employed in determine the complete sequence of mitochondrial genome of tokay (Gekko gecko). The genome is 16 435 bp in size, contains 13 protein...Long-PCR amplification, clone and primer-walking sequencing methods were employed in determine the complete sequence of mitochondrial genome of tokay (Gekko gecko). The genome is 16 435 bp in size, contains 13 protein-coding, 2 ribosomal and 22 transfer RNA genes. The mt genome of Gekko is similar to most of the vertebrates in gene components, order, orientation, tRNA structures, low percentage of guanine and high percentage of thymine, and skews of base GC and AT. Base A was preferred at third codon positions for protein genes is similar to amphibians and fishes rather than amnion vertebrates. The standard stop codes (TAA) present only in three protein genes, less than those of most vertebrates. Transfer RNA genes range in length from 63 to 76 nt, their planar structure present characteristic clover leaf, except for tRNA-Cys and tRNA-Ser (AGY) because of lacking the D arm.展开更多
Conogethes punctiferalis（Guenée）（Lepidoptera： Crambidae） was originally considered as one species with fruit-feeding type（FFT） and pinaceae-feeding type（PFT）, but it has subsequently been divided into tw...Conogethes punctiferalis（Guenée）（Lepidoptera： Crambidae） was originally considered as one species with fruit-feeding type（FFT） and pinaceae-feeding type（PFT）, but it has subsequently been divided into two different species of Conogethes punctiferalis and Conogethes pinicolalis. The relationship between the two species was investigated by phylogenetic reconstruction using maximum-likelihood（ML） parameter estimations. The phylogenetic tree and network were constructed based upon sequence data from concatenation of three genes of mitochondrial cytochrome c oxidase subunits I, II and cytochrome b which were derived from 118 samples of C. punctiferalis and 24 samples of C. pinicolalis. The phylogenetic tree and network showed that conspecific sequences were clustering together despite intraspecific variability. Here we report the results of a combined analysis of mitochondrial DNA sequences from three genes and morphological data representing powerful evidence that C. pinicolalisand C. punctiferalis are significantly different.展开更多
[Object] This study was conducted to explore the genetic diversity and structure of the wild Repomucenus curvicornis inhabiting Liaoning Coast, China. [Method] The mitochondrial COⅠ gene and control region（CR） were...[Object] This study was conducted to explore the genetic diversity and structure of the wild Repomucenus curvicornis inhabiting Liaoning Coast, China. [Method] The mitochondrial COⅠ gene and control region（CR） were PCR amplified from the wild R. curvicornis populations from the Liaodong Bay（n=22） and the northern Yellow Sea（n=18）, sequenced and analyzed for genetic diversity. [Result] The contents of A, T, C and G of 624 bp COⅠ gene were 24.09%, 31.04%, 25.28%, and 19.59%, and those of 460 bp CR fragment were 32.96%, 32.80%, 14.86% and 19.38%, respectively. The total number of variable sites, average number of nucleotide differences（ k）, haplotype diversity（H） and nucleotide diversity（π） based on COⅠ gene were 38, 4.67,（0.96±0.02） and（0.007 5±0.004 2）, and those based on CR fragment were 26, 3.35,（0.97 ±0.02） and（0.007 3±0.004 3）, respectively. Based on mitochondrial COⅠ gene and CR, the genetic diversity of Liaodong Bay population was lower than that of the northern Yellow Sea population. The AMOVA analysis based on CR fragments revealed almost significant genetic divergence between the Liaodong Bay and the northern Yellow Sea populations, while there was no significant genetic divergence based on COⅠ gene. The results showed that CR and COⅠ gene are effective molecular markers for detecting the genetic diversity of R. curvicornis population, while CR is more reliable than COⅠ gene in detecting the genetic structure. [Conclusion] CR is an appropriate marker for genetic analysis of marine fish population.展开更多
Crop expansion often leads to high pest pressure.These pests may have fitness trade-offs related to host use,and some host-associated genotypes may benefit and increase in frequency.However,evidence concerning the eff...Crop expansion often leads to high pest pressure.These pests may have fitness trade-offs related to host use,and some host-associated genotypes may benefit and increase in frequency.However,evidence concerning the effect of host availability on spatial distribution and frequency of mitochondrial haplotypes is scarce.We studied genetic variation of the Asian corn borer,Ostrinia furnacalis(Guenée),across a large area during 2 years(2016 and 2017).Mitochondrial sequence data were obtained from 530 individuals collected from 79 locations in Shandong Province,China.In total,155 haplotypes were found based on the combined cytochrome oxidase subunit 1(COI)and COII genes.Three haplotypes(H2,H12,and H23)were dominant,whereas most of the other haplotypes occurred in low frequency.A haplotype network showed that the 155 haplotypes can be grouped into three clusters.Haplotype clusters seemed to be randomly distributed.The frequency of H12(in Cluster 1)was positively correlated with maize crop proportion,but negatively correlated with other crops(primarily vegetables,oilseed crops,and cotton)at all spatial scales(1-,3-,and 5-km radius).Cluster 2 had haplotype H23,and this cluster was negatively correlated with semi-natural habitats.Cluster 3 had no dominant haplotype and was not affected by landscape factors.We conclude that H12 may be a maize-associated haplotype.Further study is needed to verify the possibility that the carriers of this haplotype may possess some fitness trade-offs.Our study highlights the importance of host availability in O.furnacalis haplotype distribution and frequency.展开更多
Mitochondrial disease was a clinically and genetically heterogeneous group of diseases, thus the diagnosis was very difficult to clinicians. Our objective was to analyze clinical and genetic characteristics of childre...Mitochondrial disease was a clinically and genetically heterogeneous group of diseases, thus the diagnosis was very difficult to clinicians. Our objective was to analyze clinical and genetic characteristics of children with mitochondrial disease in China. We tested 141 candidate patients who have been suspected of mitochondrial disorders by using targeted next-generation sequencing(NGS), and summarized the clinical and genetic data of gene confirmed cases from Neurology Department, Beijing Children's Hospital, Capital Medical University from October 2012 to January 2015. In our study, 40 cases of gene confirmed mitochondrial disease including eight kinds of mitochondrial disease, among which Leigh syndrome was identified to be the most common type, followed by mitochondrial encephalomyopathy, lactic acidosis, and stroke-like episodes(MELAS). The age-of-onset varies among mitochondrial disease, but early onset was common. All of 40 cases were gene confirmed, among which 25 cases(62.5%)with mitochondrial DNA(mtDNA) mutation, and 15 cases(37.5%) with nuclear DNA(nDNA) mutation. M.3243A>G(n=7)accounts for a large proportion of mtDNA mutation. The nDNA mutations include SURF1(n=7),PDHA1(n=2),and NDUFV1,NDUFAF6, SUCLA2, SUCLG1, RRM2 B, and C12orf65, respectively.展开更多
In Zeng et al.(2024),we employed mitochondrial genome sequencing to investigate the evolutionary history and cryptic diversity within the Erinaceidae family.Our phylogenetic analyses revealed widespread cryptic divers...In Zeng et al.(2024),we employed mitochondrial genome sequencing to investigate the evolutionary history and cryptic diversity within the Erinaceidae family.Our phylogenetic analyses revealed widespread cryptic diversity,particularly within the genus Hylomys of the subfamily Galericinae.This study proposed that several Hylomys subspecies likely merit full species status and identified two potentially unrecognized subspecies:Hylomys suillus ssp.1 and H.suillus ssp.2(Figures 1-3 in Zeng et al.2024).展开更多
文摘Long-PCR amplification, clone and primer-walking sequencing methods were employed in determine the complete sequence of mitochondrial genome of tokay (Gekko gecko). The genome is 16 435 bp in size, contains 13 protein-coding, 2 ribosomal and 22 transfer RNA genes. The mt genome of Gekko is similar to most of the vertebrates in gene components, order, orientation, tRNA structures, low percentage of guanine and high percentage of thymine, and skews of base GC and AT. Base A was preferred at third codon positions for protein genes is similar to amphibians and fishes rather than amnion vertebrates. The standard stop codes (TAA) present only in three protein genes, less than those of most vertebrates. Transfer RNA genes range in length from 63 to 76 nt, their planar structure present characteristic clover leaf, except for tRNA-Cys and tRNA-Ser (AGY) because of lacking the D arm.
基金supported by China Agriculture Research System(CARS-02)Beijing Municipal Sci-Tech Program(Z111100056811009)
文摘Conogethes punctiferalis（Guenée）（Lepidoptera： Crambidae） was originally considered as one species with fruit-feeding type（FFT） and pinaceae-feeding type（PFT）, but it has subsequently been divided into two different species of Conogethes punctiferalis and Conogethes pinicolalis. The relationship between the two species was investigated by phylogenetic reconstruction using maximum-likelihood（ML） parameter estimations. The phylogenetic tree and network were constructed based upon sequence data from concatenation of three genes of mitochondrial cytochrome c oxidase subunits I, II and cytochrome b which were derived from 118 samples of C. punctiferalis and 24 samples of C. pinicolalis. The phylogenetic tree and network showed that conspecific sequences were clustering together despite intraspecific variability. Here we report the results of a combined analysis of mitochondrial DNA sequences from three genes and morphological data representing powerful evidence that C. pinicolalisand C. punctiferalis are significantly different.
基金Supported by the National Key R&D Program of China(2017YFC1404400)The National Natural Science Foundation of China(31770458)
文摘[Object] This study was conducted to explore the genetic diversity and structure of the wild Repomucenus curvicornis inhabiting Liaoning Coast, China. [Method] The mitochondrial COⅠ gene and control region（CR） were PCR amplified from the wild R. curvicornis populations from the Liaodong Bay（n=22） and the northern Yellow Sea（n=18）, sequenced and analyzed for genetic diversity. [Result] The contents of A, T, C and G of 624 bp COⅠ gene were 24.09%, 31.04%, 25.28%, and 19.59%, and those of 460 bp CR fragment were 32.96%, 32.80%, 14.86% and 19.38%, respectively. The total number of variable sites, average number of nucleotide differences（ k）, haplotype diversity（H） and nucleotide diversity（π） based on COⅠ gene were 38, 4.67,（0.96±0.02） and（0.007 5±0.004 2）, and those based on CR fragment were 26, 3.35,（0.97 ±0.02） and（0.007 3±0.004 3）, respectively. Based on mitochondrial COⅠ gene and CR, the genetic diversity of Liaodong Bay population was lower than that of the northern Yellow Sea population. The AMOVA analysis based on CR fragments revealed almost significant genetic divergence between the Liaodong Bay and the northern Yellow Sea populations, while there was no significant genetic divergence based on COⅠ gene. The results showed that CR and COⅠ gene are effective molecular markers for detecting the genetic diversity of R. curvicornis population, while CR is more reliable than COⅠ gene in detecting the genetic structure. [Conclusion] CR is an appropriate marker for genetic analysis of marine fish population.
基金This study was supported by the National Key R&D Program of China(2017YFD0200400)the National Natural Science Foundation of China(31800349)+1 种基金the Key R&D Program of Shandong Province(2018GNC111019)Agricultural Science and Technology Innovation Project of Shandong Academy of Agricultural Sciences(CXGC2016A09).
文摘Crop expansion often leads to high pest pressure.These pests may have fitness trade-offs related to host use,and some host-associated genotypes may benefit and increase in frequency.However,evidence concerning the effect of host availability on spatial distribution and frequency of mitochondrial haplotypes is scarce.We studied genetic variation of the Asian corn borer,Ostrinia furnacalis(Guenée),across a large area during 2 years(2016 and 2017).Mitochondrial sequence data were obtained from 530 individuals collected from 79 locations in Shandong Province,China.In total,155 haplotypes were found based on the combined cytochrome oxidase subunit 1(COI)and COII genes.Three haplotypes(H2,H12,and H23)were dominant,whereas most of the other haplotypes occurred in low frequency.A haplotype network showed that the 155 haplotypes can be grouped into three clusters.Haplotype clusters seemed to be randomly distributed.The frequency of H12(in Cluster 1)was positively correlated with maize crop proportion,but negatively correlated with other crops(primarily vegetables,oilseed crops,and cotton)at all spatial scales(1-,3-,and 5-km radius).Cluster 2 had haplotype H23,and this cluster was negatively correlated with semi-natural habitats.Cluster 3 had no dominant haplotype and was not affected by landscape factors.We conclude that H12 may be a maize-associated haplotype.Further study is needed to verify the possibility that the carriers of this haplotype may possess some fitness trade-offs.Our study highlights the importance of host availability in O.furnacalis haplotype distribution and frequency.
文摘Mitochondrial disease was a clinically and genetically heterogeneous group of diseases, thus the diagnosis was very difficult to clinicians. Our objective was to analyze clinical and genetic characteristics of children with mitochondrial disease in China. We tested 141 candidate patients who have been suspected of mitochondrial disorders by using targeted next-generation sequencing(NGS), and summarized the clinical and genetic data of gene confirmed cases from Neurology Department, Beijing Children's Hospital, Capital Medical University from October 2012 to January 2015. In our study, 40 cases of gene confirmed mitochondrial disease including eight kinds of mitochondrial disease, among which Leigh syndrome was identified to be the most common type, followed by mitochondrial encephalomyopathy, lactic acidosis, and stroke-like episodes(MELAS). The age-of-onset varies among mitochondrial disease, but early onset was common. All of 40 cases were gene confirmed, among which 25 cases(62.5%)with mitochondrial DNA(mtDNA) mutation, and 15 cases(37.5%) with nuclear DNA(nDNA) mutation. M.3243A>G(n=7)accounts for a large proportion of mtDNA mutation. The nDNA mutations include SURF1(n=7),PDHA1(n=2),and NDUFV1,NDUFAF6, SUCLA2, SUCLG1, RRM2 B, and C12orf65, respectively.
文摘In Zeng et al.(2024),we employed mitochondrial genome sequencing to investigate the evolutionary history and cryptic diversity within the Erinaceidae family.Our phylogenetic analyses revealed widespread cryptic diversity,particularly within the genus Hylomys of the subfamily Galericinae.This study proposed that several Hylomys subspecies likely merit full species status and identified two potentially unrecognized subspecies:Hylomys suillus ssp.1 and H.suillus ssp.2(Figures 1-3 in Zeng et al.2024).
