Plant genome sequencing has dramatically increased,and some species even have multiple high-quality reference versions.Demands for clade-specific homology inference and analysis have increased in the pangenomic era.He...Plant genome sequencing has dramatically increased,and some species even have multiple high-quality reference versions.Demands for clade-specific homology inference and analysis have increased in the pangenomic era.Here we present a novel method,GeneTribe(https://chenym1.github.io/genetribe/),for homology inference among genetically similar genomes that incorporates gene collinearity and shows bet-ter performance than traditional sequence-similarity-based methods in terms of accuracy and scalability.The Triticeae tribe is a typical allopolyploid-rich clade with complex species relationships that includes many important crops,such as wheat,barley,and rye.We built Triticeae-GeneTribe(http://wheat.cau.edu.cn/TGT/),a homology database,by integrating 12 Triticeae genomes and 3 outgroup model genomes and implemented versatile analysis and visualization functions.With macrocollinearity analysis,we were able to construct a refined model illustrating the structural rearrangements of the 4A-5A-7B chromosomes in wheat as two major translocation events.With collinearity analysis at both the macro-and microscale,we illustrated the complex evolutionary history of homologs of the wheat vernalization gene Vm2,which evolved as a combined result of genome translocation,duplication,and polyploidization and gene loss events.Our work provides a useful practice for connecting emerging genome assemblies,with awareness of the extensive polyploidy in plants,and will help researchers efficiently exploit genome sequence re-sources.展开更多
Living gymnosperms comprise four major groups:cycads,Ginkgo,conifers,and gnetophytes.Relationships among/within these lineages have not been fully resolved.Next generation sequencing has made available a large number ...Living gymnosperms comprise four major groups:cycads,Ginkgo,conifers,and gnetophytes.Relationships among/within these lineages have not been fully resolved.Next generation sequencing has made available a large number of sequences,including both plastomes and single-copy nuclear genes,for reconstruction of solid phylogenetic trees.Recent advances in gymnosperm phylogenomic studies have updated our knowledge of gymnosperm systematics.Here,we review major advances of gymnosperm phylogeny over the past 10 years and propose an updated classification of extant gymnosperms.This new classification includes three classes(Cycadopsida,Ginkgoopsida,and Pinopsida),five subclasses(Cycadidae,Ginkgoidae,Cupressidae,Pinidae,and Gnetidae),eight orders(Cycadales,Ginkgoales,Araucariales,Cupressales,Pinales,Ephedrales,Gnetales,and Welwitschiales),13 families,and 86 genera.We also described six new tribes including Acmopyleae Y.Yang,Austrocedreae Y.Yang,Chamaecyparideae Y.Yang,Microcachrydeae Y.Yang,Papuacedreae Y.Yang,and Prumnopityeae Y.Yang,and made 27 new combinations in the genus Sabina.展开更多
Objective:To screen the antimicrobial potential of three ethnomedicinal plants Chassalia curviflora Thw.(C.curviflora),Cyclea peltata Hook.F.& Thomson(C.peltata) and Euphorbia hirta L(E.hirta) used in folk medicin...Objective:To screen the antimicrobial potential of three ethnomedicinal plants Chassalia curviflora Thw.(C.curviflora),Cyclea peltata Hook.F.& Thomson(C.peltata) and Euphorbia hirta L(E.hirta) used in folk medicines in Aarukani hills Kani tribe,Tamil Nadu,India against human bacterial pathogens.Methods:Antibacterial efficacy was performed by disc diffusion method against the pathogens viz.,Escherichia coli(E.coli)(ATCC 35218),Staphylococcus aureus (S.aureus)(ATCC 6538),Salmonella typhi(S.typhi)(MTCC 733),Proteus vulgaris(P.vulgaris), Proteus mirabilis(P.mirabilis) and Streptococcus pyogenes(S.pyogenes) and incubated for 24 h at 37°C.Results:The maximum degree of antibacterial activity was observed in C.peltata followed by C.curviflora.While E.hirta showed comparatively low degree of antibacterial activity.The methanolic extract of C.peltata showed the antibacterial activity against three pathogens viz.,S.pyogenes,P.vulgaris and E.coli with the inhibition zones 12 mm,10 mm and 9 mm,respectively,hexane extracts of C.peltata also showed the antibacterial activity against two selected pathogens viz.,P.vulgaris and P.mirabilis with 15 mm and 12 mm of inhibition zones.All the three different concentrations(025,0.50 & 0.75 mg/mL) of methanolic extract of C. peltata show the inhibitory effect on the three susceptible bacteria S.pyogenes,P.vulgaris and E. coli with the maximum inhibition in the highest concentration(0.75 mg/mL).The methanolic and hexane extracts of C.curviflora exhibited the antibacterial activity against only one bacterium each i.e.P.vulgaris and S.typhi with the maximum zone of inhibition 13 and 11 mm respectively. The methanolic and hexane extracts of E.hirta exhibited the antibacterial activity against only one bacterium Le.S.pyogenes with the maximum zone of inhibition 13 and 11 mm respectively. Conclusions:The present investigation revealed that the C.curviflora,C.peltata and E.hirta are potentially good source of antibacterial agents and demonstrates the importance of such plants in traditional me展开更多
The tribe Chelidonieae comprises 23 species of eight genera with an extensive distribution and a long medicinal usage history both in China and Western countries. A large number of chemical constituents have been isol...The tribe Chelidonieae comprises 23 species of eight genera with an extensive distribution and a long medicinal usage history both in China and Western countries. A large number of chemical constituents have been isolated and identified from the species in tribe Chelidonieae, such as alkaloids, organic acids, and their derivatives, aromatics, triterpenoids, sterols, essential oils, and proteins, most of which possess a variety of bioactivities, especially for the antibacterial, anti-inflammation, antitumor, analgesia, anti-oxidation, and antiparasitic activity. Meanwhile, potential toxicities have been discovered in some constituents. Therefore, the species in tribe Chelidonieae have become a rich source for new drug discovery, biologic study, and mechanism research. This paper presents comprehensive information of the chemical constituents, pharmacological and toxicological research on the plants in tribe Chelidoieae, which is a reference for the plants in this tribe for further development.展开更多
Introduction:The collodiaphyseal angle(CDA)is an angle formed between the femoral neck and femoral shaft axes.It is a vital determinant of femoral neck fracture as narrower angle is often used as a predictor of stress...Introduction:The collodiaphyseal angle(CDA)is an angle formed between the femoral neck and femoral shaft axes.It is a vital determinant of femoral neck fracture as narrower angle is often used as a predictor of stress fracture.It is also important in orthopedic treatment planning,especially hip replacement surgery.Aim:This study was carried out to evaluate the CDA values among the Bini tribe and elucidate its significance.Methodology:This study employed 200 anterior-posterior pelvic radiographs of the Bini tribe(100 males and 100 females)aged between 25 and 55 years obtained from selected radiological diagnostic centers in Benin City,Nigeria,after obtaining the Institutional Ethical Approval.They were used to evaluate the right and left CDA as an angle formed by intersection of the femoral neck and shaft axes and measured using the goniometer.Data were statistically analyzed using IBM-SPSS(version 20)with the mean,standard deviation,and range evaluated,and side and gender comparisons were done using t-test,and P<0.05 was set as statistically significant level.Results:The average CDA was 135.56°±5.75°and 131.67°±6.15°in males and females,respectively.This angle showed significant gender differences bilaterally(P<0.05).However,the bilateral differences in the CDA were not statistically significant among either male or female Binis(P>0.05).Conclusion:The CDA can be employed as a morphometric indicator of sexual differences and for other clinical applications.展开更多
基金the Major Program of the National Natural Science Foundation of China(grant no.31991210)to Q.S.and by the National Natural Science Foundation of China(grant no.31701415)to W.G.
文摘Plant genome sequencing has dramatically increased,and some species even have multiple high-quality reference versions.Demands for clade-specific homology inference and analysis have increased in the pangenomic era.Here we present a novel method,GeneTribe(https://chenym1.github.io/genetribe/),for homology inference among genetically similar genomes that incorporates gene collinearity and shows bet-ter performance than traditional sequence-similarity-based methods in terms of accuracy and scalability.The Triticeae tribe is a typical allopolyploid-rich clade with complex species relationships that includes many important crops,such as wheat,barley,and rye.We built Triticeae-GeneTribe(http://wheat.cau.edu.cn/TGT/),a homology database,by integrating 12 Triticeae genomes and 3 outgroup model genomes and implemented versatile analysis and visualization functions.With macrocollinearity analysis,we were able to construct a refined model illustrating the structural rearrangements of the 4A-5A-7B chromosomes in wheat as two major translocation events.With collinearity analysis at both the macro-and microscale,we illustrated the complex evolutionary history of homologs of the wheat vernalization gene Vm2,which evolved as a combined result of genome translocation,duplication,and polyploidization and gene loss events.Our work provides a useful practice for connecting emerging genome assemblies,with awareness of the extensive polyploidy in plants,and will help researchers efficiently exploit genome sequence re-sources.
基金supported by the National Natural Science Foundation of China(31970205,31870206)the Metasequoia funding of the Nanjing Forestry University,China。
文摘Living gymnosperms comprise four major groups:cycads,Ginkgo,conifers,and gnetophytes.Relationships among/within these lineages have not been fully resolved.Next generation sequencing has made available a large number of sequences,including both plastomes and single-copy nuclear genes,for reconstruction of solid phylogenetic trees.Recent advances in gymnosperm phylogenomic studies have updated our knowledge of gymnosperm systematics.Here,we review major advances of gymnosperm phylogeny over the past 10 years and propose an updated classification of extant gymnosperms.This new classification includes three classes(Cycadopsida,Ginkgoopsida,and Pinopsida),five subclasses(Cycadidae,Ginkgoidae,Cupressidae,Pinidae,and Gnetidae),eight orders(Cycadales,Ginkgoales,Araucariales,Cupressales,Pinales,Ephedrales,Gnetales,and Welwitschiales),13 families,and 86 genera.We also described six new tribes including Acmopyleae Y.Yang,Austrocedreae Y.Yang,Chamaecyparideae Y.Yang,Microcachrydeae Y.Yang,Papuacedreae Y.Yang,and Prumnopityeae Y.Yang,and made 27 new combinations in the genus Sabina.
文摘Objective:To screen the antimicrobial potential of three ethnomedicinal plants Chassalia curviflora Thw.(C.curviflora),Cyclea peltata Hook.F.& Thomson(C.peltata) and Euphorbia hirta L(E.hirta) used in folk medicines in Aarukani hills Kani tribe,Tamil Nadu,India against human bacterial pathogens.Methods:Antibacterial efficacy was performed by disc diffusion method against the pathogens viz.,Escherichia coli(E.coli)(ATCC 35218),Staphylococcus aureus (S.aureus)(ATCC 6538),Salmonella typhi(S.typhi)(MTCC 733),Proteus vulgaris(P.vulgaris), Proteus mirabilis(P.mirabilis) and Streptococcus pyogenes(S.pyogenes) and incubated for 24 h at 37°C.Results:The maximum degree of antibacterial activity was observed in C.peltata followed by C.curviflora.While E.hirta showed comparatively low degree of antibacterial activity.The methanolic extract of C.peltata showed the antibacterial activity against three pathogens viz.,S.pyogenes,P.vulgaris and E.coli with the inhibition zones 12 mm,10 mm and 9 mm,respectively,hexane extracts of C.peltata also showed the antibacterial activity against two selected pathogens viz.,P.vulgaris and P.mirabilis with 15 mm and 12 mm of inhibition zones.All the three different concentrations(025,0.50 & 0.75 mg/mL) of methanolic extract of C. peltata show the inhibitory effect on the three susceptible bacteria S.pyogenes,P.vulgaris and E. coli with the maximum inhibition in the highest concentration(0.75 mg/mL).The methanolic and hexane extracts of C.curviflora exhibited the antibacterial activity against only one bacterium each i.e.P.vulgaris and S.typhi with the maximum zone of inhibition 13 and 11 mm respectively. The methanolic and hexane extracts of E.hirta exhibited the antibacterial activity against only one bacterium Le.S.pyogenes with the maximum zone of inhibition 13 and 11 mm respectively. Conclusions:The present investigation revealed that the C.curviflora,C.peltata and E.hirta are potentially good source of antibacterial agents and demonstrates the importance of such plants in traditional me
基金Key Program in the Major Research Plan of the National Natural Science Foundation of China(81072995)PUMC Youth Fund(3332013079)
文摘The tribe Chelidonieae comprises 23 species of eight genera with an extensive distribution and a long medicinal usage history both in China and Western countries. A large number of chemical constituents have been isolated and identified from the species in tribe Chelidonieae, such as alkaloids, organic acids, and their derivatives, aromatics, triterpenoids, sterols, essential oils, and proteins, most of which possess a variety of bioactivities, especially for the antibacterial, anti-inflammation, antitumor, analgesia, anti-oxidation, and antiparasitic activity. Meanwhile, potential toxicities have been discovered in some constituents. Therefore, the species in tribe Chelidonieae have become a rich source for new drug discovery, biologic study, and mechanism research. This paper presents comprehensive information of the chemical constituents, pharmacological and toxicological research on the plants in tribe Chelidoieae, which is a reference for the plants in this tribe for further development.
文摘Introduction:The collodiaphyseal angle(CDA)is an angle formed between the femoral neck and femoral shaft axes.It is a vital determinant of femoral neck fracture as narrower angle is often used as a predictor of stress fracture.It is also important in orthopedic treatment planning,especially hip replacement surgery.Aim:This study was carried out to evaluate the CDA values among the Bini tribe and elucidate its significance.Methodology:This study employed 200 anterior-posterior pelvic radiographs of the Bini tribe(100 males and 100 females)aged between 25 and 55 years obtained from selected radiological diagnostic centers in Benin City,Nigeria,after obtaining the Institutional Ethical Approval.They were used to evaluate the right and left CDA as an angle formed by intersection of the femoral neck and shaft axes and measured using the goniometer.Data were statistically analyzed using IBM-SPSS(version 20)with the mean,standard deviation,and range evaluated,and side and gender comparisons were done using t-test,and P<0.05 was set as statistically significant level.Results:The average CDA was 135.56°±5.75°and 131.67°±6.15°in males and females,respectively.This angle showed significant gender differences bilaterally(P<0.05).However,the bilateral differences in the CDA were not statistically significant among either male or female Binis(P>0.05).Conclusion:The CDA can be employed as a morphometric indicator of sexual differences and for other clinical applications.
