More than 200 research papers on the molecular phylogeny and phylogenetic biogeography ofbryophytes have been published since the beginning of this millenium. These papers corroborated assumptions of a complex genetic...More than 200 research papers on the molecular phylogeny and phylogenetic biogeography ofbryophytes have been published since the beginning of this millenium. These papers corroborated assumptions of a complex genetic structure of morphologically circumscribed bryophytes, and raised reservations against many morphologically justified species concepts, especially within the mosses. However, many molecular studies allowed for corrections and modifications of morphological classification schemes. Several studies reported that the phylogenetic structure of disjunctly distributed bryophyte species reflects their geographical ranges rather than morphological disparities. Molecular data led to new appraisals of distribution ranges and allowed for the reconstruction of refugia and migration routes. Intercontinental ranges of bryophytes are often caused by dispersal rather than geographical vicariance. Many distribution patterns of disjunct bryophytes are likely formed by processes such as short distance dispersal, rare long distance dispersal events, extinction, recolonization and diversification.展开更多
The genus Diaporthe comprises pathogenic,endophytic and saprobic species with both temperate and tropical distributions.Cryptic diversification,phenotypic plasticity and extensive host associations have long complicat...The genus Diaporthe comprises pathogenic,endophytic and saprobic species with both temperate and tropical distributions.Cryptic diversification,phenotypic plasticity and extensive host associations have long complicated accurate identifications of species in this genus.The delimitation of the generic type species Diaporthe eres has been uncertain due to the lack of ex-type cultures.Species limits of D.eres and closely related species were evaluated using molecular phylogenetic analysis of eight genes including nuclear ribosomal internal transcribed spacer(ITS),partial sequences of actin(ACT),DNA-lyase(Apn2),translation elongation factor 1-α(EF1-α),beta-tubulin(TUB),calmodulin(CAL),60s ribosomal protein L37(FG1093)and histone-3(HIS).The occurrence of sequence heterogeneity of ITS within D.eres is observed,which complicates the analysis and may lead to overestimation of the species diversity.The strict criteria of Genealogical Concordance Phylogenetic Species Recognition(GCPSR)were applied to resolve species boundaries based on individual and combined analyses of other seven genes except the ITS.We accept nine distinct phylogenetic species including Diaporthe alleghaniensis,D.alnea,D.bicincta,D.celastrina,D.eres,D.helicis,D.neilliae,D.pulla and D.vaccinii.Epitypes are designated for D.alnea,D.bicincta,D.celastrina,D.eres,D.helicis and D.pulla.Modern descriptions and illustrations are provided for these species.Newly designed primers are introduced to amplify and sequence the Apn2(DNA-lyase)gene in Diaporthe.Based on phylogenetic informativeness profiles,EF1-α,Apn2 and HIS genes are recognised as the best markers for defining species in the D.eres complex.展开更多
A critical review of the evolutionary biology of Iberian and North African lizard members of the genus Podarcis(Lacertidae)based on phylogeny,phylogeography,morphometrics,behavior,ecology and physiology is presented.T...A critical review of the evolutionary biology of Iberian and North African lizard members of the genus Podarcis(Lacertidae)based on phylogeny,phylogeography,morphometrics,behavior,ecology and physiology is presented.The Iberomaghrebian region is inhabited by at least 12 different evolutionary lineages that group into a monophyl-etic clade(except Podarcis muralis).In contrast to the current taxonomy,the saxicolous‘Podarcis hispanica’is paraphyletic with respect to Podarcis bocagei and Podarcis carbonelli,two currently recognized species.Nodes in the phylogenetic tree are deep,resulting from old divergences,clearly preceding the Pleistocene.Nevertheless,more recent range changes as a result of glaciations are also evident.The most plausible evolutionary scenario for this group indicates both vicariant and dispersal events.Although parapatry between lineages is the rule,sympatry and even syntopy are frequent,but usually between ground-dwelling and saxicolous forms.Contacts between forms with similar habitat use are rare and local.Morphological distinctiveness between lineages has been demonstrated,indicating historical constraints.However,other characters have repeatedly evolved under similar environmental pressures independently of the evolutionary lineage.Strong sexual dimorphism derives from sexual selection and is attained before sexual maturity,although developmental restrictions exist.Variation between popu-lations is also important and derives from local variation in both natural(habitat,climate)and sexual(density)selective pressures.Evidence for short-term changes has already been found,particularly in insular populations.Reproductive isolation between syntopic forms and partner recognition are based on male–male competition and on visual and chemical recognition of females by conspecific males.Despite this ancient diversification,most forms maintain a degree of reproductive compatibility.Hybridisation may occur,but is limited,and there is evidence of selection against hybrids.The ecological analysis presented here does not support exploitative competition,but rather behavioral interference between forms.Ecomorph classification of lineages suggests character displacement between those with extensive range overlap.Finally,a critical assessment of the specific status of all lineages is provided and directions for further research are suggested.展开更多
The rapid development of molecular phylogenetic analysis has provided a new path to investigate the tempo of evolution.In this work,a rather complete molecular phylogeny of the East Asian gobionid fishes was construct...The rapid development of molecular phylogenetic analysis has provided a new path to investigate the tempo of evolution.In this work,a rather complete molecular phylogeny of the East Asian gobionid fishes was constructed based on mtDNA cytochrome b gene sequences.Molecular clock analysis was then applied to investigate the speciation tempo of this group.The phylogenetic analysis revealed four major groups that were in agreement with previous studies.Lineage numbers plotted over time indicate that gobionid lineages increased in an exponential mode with the equation expressed as y=87.562×e 0.1141x,where y is the number of lineages and x represents the geological time,and 0 < x ≤ 30,1≤ y ≤ 65.The speciation rate of gobionid fishes calculated by LASER program was inconstant.Peaks of speciation were identified and found approximately to be coincident with East Asian geological events,such as uplifts of the Tibetan plateau and formation of the monsoon system.展开更多
基金support from the German Research Foundation(grants HE 3584/1-4)
文摘More than 200 research papers on the molecular phylogeny and phylogenetic biogeography ofbryophytes have been published since the beginning of this millenium. These papers corroborated assumptions of a complex genetic structure of morphologically circumscribed bryophytes, and raised reservations against many morphologically justified species concepts, especially within the mosses. However, many molecular studies allowed for corrections and modifications of morphological classification schemes. Several studies reported that the phylogenetic structure of disjunctly distributed bryophyte species reflects their geographical ranges rather than morphological disparities. Molecular data led to new appraisals of distribution ranges and allowed for the reconstruction of refugia and migration routes. Intercontinental ranges of bryophytes are often caused by dispersal rather than geographical vicariance. Many distribution patterns of disjunct bryophytes are likely formed by processes such as short distance dispersal, rare long distance dispersal events, extinction, recolonization and diversification.
文摘The genus Diaporthe comprises pathogenic,endophytic and saprobic species with both temperate and tropical distributions.Cryptic diversification,phenotypic plasticity and extensive host associations have long complicated accurate identifications of species in this genus.The delimitation of the generic type species Diaporthe eres has been uncertain due to the lack of ex-type cultures.Species limits of D.eres and closely related species were evaluated using molecular phylogenetic analysis of eight genes including nuclear ribosomal internal transcribed spacer(ITS),partial sequences of actin(ACT),DNA-lyase(Apn2),translation elongation factor 1-α(EF1-α),beta-tubulin(TUB),calmodulin(CAL),60s ribosomal protein L37(FG1093)and histone-3(HIS).The occurrence of sequence heterogeneity of ITS within D.eres is observed,which complicates the analysis and may lead to overestimation of the species diversity.The strict criteria of Genealogical Concordance Phylogenetic Species Recognition(GCPSR)were applied to resolve species boundaries based on individual and combined analyses of other seven genes except the ITS.We accept nine distinct phylogenetic species including Diaporthe alleghaniensis,D.alnea,D.bicincta,D.celastrina,D.eres,D.helicis,D.neilliae,D.pulla and D.vaccinii.Epitypes are designated for D.alnea,D.bicincta,D.celastrina,D.eres,D.helicis and D.pulla.Modern descriptions and illustrations are provided for these species.Newly designed primers are introduced to amplify and sequence the Apn2(DNA-lyase)gene in Diaporthe.Based on phylogenetic informativeness profiles,EF1-α,Apn2 and HIS genes are recognised as the best markers for defining species in the D.eres complex.
文摘A critical review of the evolutionary biology of Iberian and North African lizard members of the genus Podarcis(Lacertidae)based on phylogeny,phylogeography,morphometrics,behavior,ecology and physiology is presented.The Iberomaghrebian region is inhabited by at least 12 different evolutionary lineages that group into a monophyl-etic clade(except Podarcis muralis).In contrast to the current taxonomy,the saxicolous‘Podarcis hispanica’is paraphyletic with respect to Podarcis bocagei and Podarcis carbonelli,two currently recognized species.Nodes in the phylogenetic tree are deep,resulting from old divergences,clearly preceding the Pleistocene.Nevertheless,more recent range changes as a result of glaciations are also evident.The most plausible evolutionary scenario for this group indicates both vicariant and dispersal events.Although parapatry between lineages is the rule,sympatry and even syntopy are frequent,but usually between ground-dwelling and saxicolous forms.Contacts between forms with similar habitat use are rare and local.Morphological distinctiveness between lineages has been demonstrated,indicating historical constraints.However,other characters have repeatedly evolved under similar environmental pressures independently of the evolutionary lineage.Strong sexual dimorphism derives from sexual selection and is attained before sexual maturity,although developmental restrictions exist.Variation between popu-lations is also important and derives from local variation in both natural(habitat,climate)and sexual(density)selective pressures.Evidence for short-term changes has already been found,particularly in insular populations.Reproductive isolation between syntopic forms and partner recognition are based on male–male competition and on visual and chemical recognition of females by conspecific males.Despite this ancient diversification,most forms maintain a degree of reproductive compatibility.Hybridisation may occur,but is limited,and there is evidence of selection against hybrids.The ecological analysis presented here does not support exploitative competition,but rather behavioral interference between forms.Ecomorph classification of lineages suggests character displacement between those with extensive range overlap.Finally,a critical assessment of the specific status of all lineages is provided and directions for further research are suggested.
基金supported by the National Natural Science Foundation of China (Grant No.40432003)the Cypriniformes Tree of Life (CToL) project funded by the National Science Foundation of USA (Grant No. EF-0431326)
文摘The rapid development of molecular phylogenetic analysis has provided a new path to investigate the tempo of evolution.In this work,a rather complete molecular phylogeny of the East Asian gobionid fishes was constructed based on mtDNA cytochrome b gene sequences.Molecular clock analysis was then applied to investigate the speciation tempo of this group.The phylogenetic analysis revealed four major groups that were in agreement with previous studies.Lineage numbers plotted over time indicate that gobionid lineages increased in an exponential mode with the equation expressed as y=87.562×e 0.1141x,where y is the number of lineages and x represents the geological time,and 0 < x ≤ 30,1≤ y ≤ 65.The speciation rate of gobionid fishes calculated by LASER program was inconstant.Peaks of speciation were identified and found approximately to be coincident with East Asian geological events,such as uplifts of the Tibetan plateau and formation of the monsoon system.
