The genera of Diopsidae (Insecta:Diptera)

Taxonomic characters which have been used in defining the genera of Diopsidae are discussed with special reference to the structure of the head and eyestalks. In consequence, the subdivisions of this family put forward by Hennig in 1965 are revised and extended, a new scheme of three subfamilies being proposed and a possible phylogenetic sequence of genera suggested.
A key for the identification of these subfamilies and current generic taxa is given.     

Cladistic analysis of the subfamilies within the Tubificidae (Oligochaeta)

A hypothesis of phylogenetic relationships within the family Tubificidae is presented, based on a Wagner analysis of morphological characters in the different subfamilies. Two major lincages are recognized. One, including the subfamilies Tubificinae, Telmatodrilinae and Limnodriloidinae, is supported by a synapomorphic ability to form slender spermatozeugmata in the spermathecae; the other, including Rhyacodrilinae (paraphyletic), Phallodrilinae, and the (present family) Naididae, is supported by two synapomorphics, the possession of modified penial setae and numerous coelomocytes (the latter secondarily lost in the Phallodrilinae). Some implications for the classification of the Tubificidae are discussed.     

Variance and covariance of ovipositional rates and developmental rates in the Phytoseidae (Acari: Mesostigmata): a phylogenetic consideration

Variance and covariance of ovipositional rates and developmental rates in the Phytoseiidae were analysed using comparative methods which consider phylogenetic effects. Nested analysis of variance showed that mean ovipositional rates and developmental rates of phytoseiid mites varied significantly between subfamilies, among genera within subfamilies, among subgenera within genera and among species within subgenera. For example, the mean ovipositional rate (eggs per day) was higher in the Amblyseiinae (2.04) than in the Phytoseiinae (1.39) and within the Amblyseiinae, it was higher in the genus Phytoseiulus (2.66) than in Amblyseius (1.80). Regressions using mean values of subgenera or higher taxa to account for phylogenetic effects showed significant correlation between mean ovipositional rates and developmental rates. The implications of this analysis for selecting species for future comparative analysis of phytoseiid life history variation are discussed.     

Relationships among the tiphiid wasp subfamilies (Hymenoptera)

Abstract. The phylogenetic relationships among the subfamilies of Tiphiidae are discussed, with detailed analysis of characters, and presentation of a phylogenetic tree. The tribe Diammini Turner is elevated to subfamily status. A key to the subfamilies is included, and a brief synopsis of each subfamily is given.     

A phylogenetic study of Dermestidae (Coleoptera) based on larval morphology

Abstract.  The results of a phylogenetic analysis of Dermestidae (Coleoptera) based on the morphology of immature stages are presented and implications for the classification of the family are discussed. The monophyly of (( Orphilus ) + (Dermestidae) + (Endecatomidae (Bostrichidae + Anobiidae))) is strongly supported. Dermestidae, excluding Orphilus Erichson, forms a monophyletic group. The phylogenetic position of the Orphilinae remains enigmatic. The hypothesized relationships of the remaining dermestid subfamilies are (Thorictinae (Dermestinae (Attageninae (Megatominae + Trinodinae)))). Phylogenetically informative morphological characters of larvae and pupae are illustrated and described. Character state transformations implied by the phylogenetic hypothesis are discussed. New morphological observations are provided, including the first records of the presence of gastric caeca in the larva of Dermestes L., and the first report of the number of Malpighian tubules and the number of abdominal ganglia in Dermestidae, Bostrichidae, Anobiidae, Nosodendridae and Derodontidae. The form of the mandibular base is described for the first time for Thylodriini Beal and Trinodini Beal. The fossil record and distribution of extant Dermestidae are discussed in the light of the phylogenetic hypothesis. The origin of the family is hypothesized to be in the Late Cretaceous.     

Elucidation of subfamily segregation and intramolecular coevolution of the olfactomedin-like proteins by comprehensive phylogenetic analysis and gene expression pattern assessment

The categorization of genes by structural distinctions relevant to biological characteristics is very important for understanding of gene functions and predicting functional implications of uncharacterized genes. It was absolutely necessary to deploy an effective and efficient strategy to deal with the complexity of the large olfactomedin-like (OLF) gene family sharing sequence similarity but playing diversified roles in many important biological processes, as the simple highest-hit homology analysis gave incomprehensive results and led to inappropriate annotation for some uncharacterized OLF members. In light of evolutionary information that may facilitate the classification of the OLF family and proper association of novel OLF genes with characterized homologs, we performed phylogenetic analysis on all 116 OLF proteins currently available, including two novel members cloned by our group. The OLF family segregated into seven subfamilies and members with similar domain compositions or functional properties all fell into relevant subfamilies. Furthermore, our Northern blot analysis and previous studies revealed that the typical human OLF members in each subfamily exhibited tissue-specific expression patterns, which in turn supported the segregation of the OLF subfamilies with functional divergence. Interestingly, the phylogenetic tree topology for the OLF domains alone was almost identical with that of the full-length tree representing the unique phylogenetic feature of full-length OLF proteins and their particular domain compositions. Moreover, each of the major functional domains of OLF proteins kept the same phylogenetic feature in defining similar topology of the tree. It indicates that the OLF domain and the various domains in flanking non-OLF regions have coevolved and are likely to be functionally interdependent. Expanded by a plausible gene duplication and domain couplings scenario, the OLF family comprises seven evolutionarily and functionally distinct subfamilies, in which each member shares similar structural and functional characteristics including the composition of coevolved and interdependent domains. The phylogenetically classified and preliminarily assessed subfamily framework may greatly facilitate the studying on the OLF proteins. Furthermore, it also demonstrated a feasible and reliable strategy to categorize novel genes and predict the functional implications of uncharacterized proteins based on the comprehensive phylogenetic classification of the subfamilies and their relevance to preliminary functional characteristics.     

天牛科昆虫高级分类阶元实体的进化研究

本文从生物地理学、形态学、生态学、行为学、生理学、天牛—寄主植物的相互关系、地质学、气候变迁等诸方面,探讨了天牛科高级分类阶元实体的进化证据,提出了各阶元实体进化关系的新假说。研究结果表明,沟胫天牛亚科、锯天牛亚科和天牛亚科可能于侏罗纪在冈瓦纳古陆上分化出来;花天牛亚科和幽天牛亚科于白垩纪在劳亚古陆上分化出来。各亚科的进化顺序有两种可能:(1)沟胫天牛亚科、锯天牛亚科、天牛亚科、花天牛亚科、幽天牛亚科;(2)沟胫天牛亚科、天牛亚科、锯天牛亚科;花天牛亚科、幽天牛亚科。文章最后还讨论了各亚科的系统发育关系。     

天牛科昆虫高级分类阶元实体的进化研究(英文)

本文从生物地理学、形态学、生态学、行为学、生理学、天牛—寄主植物的相互关系、地质学、气候变迁等诸方面,探讨了天牛科高级分类阶元实体的进化证据,提出了各阶元实体进化关系的新假说。研究结果表明,沟胫天牛亚科、锯天牛亚科和天牛亚科可能于侏罗纪在冈瓦纳古陆上分化出来;花天牛亚科和幽天牛亚科于白垩纪在劳亚古陆上分化出来。各亚科的进化顺序有两种可能:(1)沟胫天牛亚科、锯天牛亚科、天牛亚科、花天牛亚科、幽天牛亚科;(2)沟胫天牛亚科、天牛亚科、锯天牛亚科;花天牛亚科、幽天牛亚科。文章最后还讨论了各亚科的系统发育关系。     

Differences in the substrate specificities and active-site structures of two α-L-fucosidases (glycoside hydrolase family 29) from Bacteroides thetaiotaomicron

Recent studies suggest that α-L-fucosidases of glycoside hydrolase family 29 can be divided into two subfamilies based on substrate specificity and phylogenetic clustering. To explore the validity of this classification, we enzymatically characterized two structure-solved α-L-fucosidases representing the respective subfamilies. Differences in substrate specificities are discussed in relation to differences in active-site structures between the two enzymes.     

基于形态学证据的长足虻科系统发育研究(双翅目,短角亚目)

试图根据成虫形态学证据探讨长足虻科各亚科之间的系统关系,同时检验各个亚科的单系性.在比较形态学研究基础上,同时参考前人有关长足虻科高阶元分类的研究结果,筛选出42个来自头部、胸部(包括足和翅)、腹部、雌性和雄性外生殖器在亚科水平的分类特征,为了考察亚科的单系性,也包括亚科的自有衍征;运用支序分类的方法,首次分析并讨论了世界长足虻科17个亚科之间的系统发育关系.结果表明,长足虻科是一个严格的单系群,其支持的共同衍征为体色金绿,亚前缘脉端部与第1径脉中部愈合,前缘脉接近肩横脉处有1个缺刻,第2基室与盘室愈合,臀室短小、终止于径脉分叉点之前,雄性外生殖器明显向下或向前弯折,生殖背板具生殖孔,下生殖板与第9背板愈合.金长足虻亚科Sciapodinae腋瓣发达,中脉分叉,为最基部的支系,是最原始的亚科;而长足虻科的其他亚科构成一单系群,其共同衍征为腋瓣不明显,中脉不分叉.斜脉长足虻亚科Plagioneurinae也比较原始,是靠基部的支系,支持其单系性的特征为腹部第7～8节膜质化,生殖孔基位.异长足虻亚科Diaphorinae和锥长足虻亚科Rhaphiinae以及斯长足虻亚科Stolidosomatinae和合长足虻亚科Sympycninae分别构成姊妹群关系,斯长足虻亚科Stolidosomatinae的两个属Pseudosympycnus和Stolidosoma系统地位还有待进一步研究.此外,巴长足虻亚科Babindellinae、聚脉长足虻亚科Medeterinae和寇长足虻亚科Kowmunginae构成单系群,其共同衍征为臀脉短或不明显,无后顶鬃.研究所用标本大部分保存在中国农业大学昆虫标本馆,包括与美国史密森研究院和澳大利亚博物馆交换而来的标本,部分标本保存在比利时皇家科学院.     

Review of the Order Strepsiptera

The morphology, biology and life history of the immature stages, the free-living and the neotenic females (of the suborders Mengenillidia and Stylopidia respectively) and the free-living males of the order Strepsiptera are discussed. Strepsiptera are entomophagous parasitoids and are known to parasitize seven orders and thirty-five families of Insecta. The morphological and physiological changes they cause to the host insect are outlined. The classification of the order is revised; the geographical distribution, phylogenetic system and keys to the families, subfamilies and genera (when possible) are given. As the sexes are dimorphic, separate keys are provided for adult males and neotenic females.     

Phylogenetic relationships, character evolution, and taxonomic implications within the slipper lobsters (Crustacea: Decapoda: Scyllaridae)

The slipper lobsters belong to the family Scyllaridae which contains a total of 20 genera and 89 species distributed across four subfamilies (Arctidinae, Ibacinae, Scyllarinae, and Theninae). We have collected nucleotide sequence data from regions of five different genes (16S, 18S, COI, 28S, H3) to estimate phylogenetic relationships among 54 species from the Scyllaridae with a focus on the species rich subfamily Scyllarinae. We have included in our analyses at least one representative from all 20 genera in the Scyllaridae and 35 of the 52 species within the Scyllarinae. Our resulting phylogenetic estimate shows the subfamilies are monophyletic, except for Ibacinae, which has paraphyletic relationships among genera. Many of the genera within the Scyllarinae form non-monophyletic groups, while the genera from all other subfamilies form well supported clades. We discuss the implications of this history on the evolution of morphological characters and ecological transitions (nearshore vs. offshore) within the slipper lobsters. Finally, we identify, through ancestral state character reconstructions, key morphological features diagnostic of the major clades of diversity within the Scyllaridae and relate this character evolution to current taxonomy and classification.     

Egg bursters in the Chrysomelidae, with a review of their occurrence in the Chrysomeloidea and Curculionoidea (Coleoptera)

The literature on the occurrence of egg bursters in first instar larvae of the Chrysomeloidea and Curculionoidea is reviewed. The egg bursters and chaetotaxy of the tubercles on which they occur are described for the larvae of 221 chrysomelid species, representing fifteen of the nineteen subfamilies. The value of these as subfamily, generic and specific characters is discussed and also their use as indicators of the phylogenetic relationships among these different groups. Possible explanations are proposed for the absence of egg bursters in certain chrysomelid subfamilies.     

Molecular phylogenetics of the family Cyprinidae (Actinopterygii: Cypriniformes) as evidenced by sequence variation in the first intron of S7 ribosomal protein-coding gene: further evidence from a nuclear gene of the systematic chaos in the family

The family Cyprinidae is the largest freshwater fish group in the world, including over 200 genera and 2100 species. The phylogenetic relationships of major clades within this family are simply poorly understood, largely because of the overwhelming diversity of the group; however, several investigators have advanced different hypotheses of relationships that pre- and post-date the use of shared-derived characters as advocated through phylogenetic systematics. As expected, most previous investigations used morphological characters. Recently, mitochondrial DNA (mtDNA) sequences and combined morphological and mtDNA investigations have been used to explore and advance our understanding of species relationships and test monophyletic groupings. Limitations of these studies include limited taxon sampling and a strict reliance upon maternally inherited mtDNA variation. The present study is the first endeavor to recover the phylogenetic relationships of the 12 previously recognized monophyletic subfamilies within the Cyprinidae using newly sequenced nuclear DNA (nDNA) for over 50 species representing members of the different previously hypothesized subfamily and family groupings within the Cyprinidae and from other cypriniform families as outgroup taxa. Hypothesized phylogenetic relationships are constructed using maximum parsimony and Basyesian analyses of 1042 sites, of which 971 sites were variable and 790 were phylogenetically informative. Using other appropriate cypriniform taxa of the families Catostomidae (Myxocyprinus asiaticus), Gyrinocheilidae (Gyrinocheilus aymonieri), and Balitoridae (Nemacheilus sp. and Beaufortia kweichowensis) as outgroups, the Cyprinidae is resolved as a monophyletic group. Within the family the genera Raiamas, Barilius, Danio, and Rasbora, representing many of the tropical cyprinids, represent basal members of the family. All other species can be classified into variably supported and resolved monophyletic lineages, depending upon analysis, that are consistent with or correspond to Barbini and Leuciscini. The Barbini includes taxa traditionally aligned with the subfamily Cyprininae sensu previous morphological revisionary studies by Howes (Barbinae, Labeoninae, Cyprininae and Schizothoracinae). The Leuciscini includes six other subfamilies that are mainly divided into three separate lineages. The relationships among genera and subfamilies are discussed as well as the possible origins of major lineages.     

Searching for natural lineages within the Cerylonid Series (Coleoptera: Cucujoidea)

Phylogenetic relationships within the diverse beetle superfamily Cucujoidea are poorly known. The Cerylonid Series (C.S.) is the largest of all proposed superfamilial cucujoid groups, comprising eight families and representing most of the known cucujoid species diversity. The monophyly of the C.S., however, has never been formally tested and the higher-level relationships among and within the constituent families remain equivocal. Here we present a phylogenetic study based on 18S and 28S rDNA for 16 outgroup taxa and 61 C.S. ingroup taxa, representing seven of the eight C.S. families and 20 of 39 subfamilies. We test the monophyly of the C.S., investigate the relationships among the C.S. families, and test the monophyly of the constituent families and subfamilies. Phylogenetic reconstruction of the combined data was achieved via standard static alignment parsimony analyses, Direct Optimization using parsimony, and partitioned Bayesian analysis. All three analyses support the paraphyly of Cucujoidea with respect to Tenebrionoidea and confirm the monophyly of the C.S. The C.S. families Bothrideridae, Cerylonidae, Discolomatidae, Coccinellidae and Corylophidae are supported as monophyletic in all analyses. Only the Bayesian analysis recovers a monophyletic Latridiidae. Endomychidae is recovered as polyphyletic in all analyses. Of the 14 subfamilies with multiple terminals in this study, 11 were supported as monophyletic. The corylophid subfamily Corylophinae and the coccinellid subfamilies Chilocorinae and Scymninae are recovered as paraphyletic. A sister grouping of Anamorphinae+Corylophidae is supported in all analyses. Other taxonomic implications are discussed in light of our results.     

Heavy metal transporters in Hemiascomycete yeasts

We have compiled all known heavy metal transporters of the yeast Saccharomyces cerevisiae and identified their orthologs in four other species spanning the entire Hemiascomycete phylum. The 213 transporters belong to 27 distinct phylogenetic families distributed within the three classes: channels, secondary porters (permeases) and transport ATPases. They are present in all cellular membranes: plasma membranes, vacuoles, mitochondria, endoplasmic reticulum, nucleus, Golgi and various cytoplasmic vesicles. The major physiological heavy metals transported are: iron, manganese, zinc, copper, arsenite and cadmium. The major subfamilies that comprise the highest number of transporters are Siderophore-Iron Transporters (SIT) and CT2 (conjugated ABC transporters). They transport heavy metals (iron or cadmium, respectively) conjugated to organic chelators such as siderophores or glutathione. Both subfamilies are considerably amplified in the yeast Yarrowia lipolytica. The pattern of expansion and restriction of the subfamilies during the evolution of the different species is highly variable. The phylogenetic trees of the major transporters subfamilies distinguish homogenous clusters of transporters suggesting that possible different physiological or mechanistic functions evolved independently. We also validated the use of the Hemiascomycetes heavy metal transporters for identification of orthologs transporters in the pathogenic Basidiomycetes Cryptococcus neoformans.     

Differences in the Substrate Specificities and Active-Site Structures of Two α-L-Fucosidases (Glycoside Hydrolase Family 29) from Bacteroides thetaiotaomicron

Recent studies suggest that α-L-fucosidases of glycoside hydrolase family 29 can be divided into two subfamilies based on substrate specificity and phylogenetic clustering. To explore the validity of this classification, we enzymatically characterized two structure-solved α-L-fucosidases representing the respective subfamilies. Differences in substrate specificities are discussed in relation to differences in active-site structures between the two enzymes.     

Phylogeny of psychodid subfamilies (Diptera: Psychodidae) inferred from nuclear DNA sequences with a review of morphological evidence for relationships

Psychodidae is a diverse family of flies with approximately 3000 described species in six subfamilies, including Phlebotominae vectors of human disease. Psychodidae has been the subject of few phylogenetic investigations and development of a stable classification has been hampered by poor understanding of the morphology of larvae, pupae and adults. Specimens were collected, and we analysed DNA sequence data from two nuclear genes for one or more representatives of all subfamilies. The subfamilies with multiple representatives included were resolved as monophyletic with good support. Placement of Horaiellinae, Sycoracinae and Trichomyiinae remains unclear, whereas Bruchomyiinae is hypothesized as the sister group to (Phlebotominae + Psychodinae). Representatives of some psychodine tribes were resolved in agreement with previous hypotheses. Relationships among and within subfamilies are discussed, and morphological characters supporting these relationships are reviewed. One compelling synapomorphy of the male genitalia supporting a relationship between Phlebotominae and Psychodinae is the presence of articulated surstyli with apical retinacula. Only cerci are present and sometimes developed into clasping structures in males of other subfamilies.     

Classification of the flea families (Siphonaptera): I. Family Hystrichopsyllidae (Part 5)

Based on analysis of homologous character states and considering the molecular-biological data (Whiting et al., 2008), phylogenetic relationships of the tribes and subfamilies of the family Hystrichopsyllidae are discussed. In some cases, homologous states of the skeleton characters mark the clades revealed by the moleculargenetic analysis, but are shared by taxa from other clades. In contrast to the molecular-genetic data, morphological characters indicate the phylogenetic integrity of the family Hystrichopsyllidae. Morphological characters depict the subfamily Anomiopsyllinae as a monophyletic taxon (having synapomorphic states of the metaphragma, metasternite, and the mesosternal apodeme) closest to the subfamilies Neopsyllinae and Rhadinopsyllinae. The subfamilies Neopsyllinae, Rhadinopsyllinae, and Stenoponiinae have a non-thickened metasternite; the former two subfamilies also have in common a similar structure of articulation of the digitoid with the clasper, type of the metaphragma modification, and the presence of the sclerotized central sclerite. Homologous modifications of the metaphragma are also present in fleas of the subfamily Stenoponiinae. Close to this group are the subfamily Hystrichopsyllinae whose representatives also possess non-thickened metasternal apodemes, and the subfamily Listropsyllinae with its frontal sclerotized tubercle being a specialized modification of the frontal sclerotized fold. A specific feature shared by fleas of the subfamilies Hystrichopsyllinae and Listropsyllinae is the presence of the metasternal furca with high sharp processes and a high medial ridge. The closeness of these taxa is supported by the results of molecular-genetic analysis. The subfamilies Doratopsyllinae and Ctenophthalminae (tribes Ctenophthalmini and Carterettini) are united by the type of the attachment of the mesopleural rod to the special ridge at the upper margin of the mesopleuron. According to the molecular-genetic data, the tribe Neotyphloceratini is related to these subfamilies, even though its members have no ridge on the mesopleuron. The similarity in the structure of the furca (the presence of high dorsal processes with rounded apices and a high median ridge) and in the length ratio of the fulcrum lobes relates the subfamilies Ctenophthalminae and Dinopsyllinae.