蹄盖蕨科的亚科划分

蹄盖蕨科的建立对蕨类植物的分类起了很大的推动作用,然而,即使按秦仁昌的狭义概念,它仍然是一个极其复杂的大科。自秦仁昌把该科划分为21个属以后,属级水平上的分类问题比较清楚了,但亚科、亚属和组的划分至今仍不成功。本文主要根据该科三个染色体基数X=42、41和40,结合孢子囊群着生的位置及其它形态特征,将其划分为3个亚科：冷蕨亚科、蹄盖蕨亚科和双盖蕨亚科。     

黑龙江省蹄盖蕨科（Athyriaceae）植物的RAPD分析及其系统学意义

在形态分类研究的基础上,利用RAPD技术,对黑龙江省蹄盖蕨科植物6属9种共15个种群进行了遗传多样性分析,分析结果表明：（1）假冷蕨属应包括在蹄盖蕨属中（2）角蕨属与蹄盖蕨属,羽节蕨属与冷蕨属亲源关系较近（3）短肠蕨属为独立一属,与其它属亲源关系较远。根据黑龙江省蹄盖蕨科植物的DNA水平的研究结果,再结合其形态学特征,建议将黑龙江省蹄盖蕨科划分为3个亚科：冷蕨亚科（Cystopterioideae）包括2个属：冷蕨属（Cystopteris）和羽节蕨属（Cemnocarpium）。蹄盖蕨亚科（Athyrioideae）包括3个属：蹄盖蕨属（Athyrium）、假冷蕨属（Pseudocystopteris）和角蕨属（Cornopteris）。双盖蕨亚科（Diplazioideae）包括短肠蕨属（Alhntodia）。     

黑龙江省蹄盖蕨科(Athyriaceae)植物的RAPD分析及其系统学意义

在形态分类研究的基础上,利用RAPD技术,对黑龙江省蹄盖蕨科植物6属9种共15个种群进行了遗传多样性分析,分析结果表明：（1）假冷蕨属应包括在蹄盖蕨属中（2）角蕨属与蹄盖蕨属,羽节蕨属与冷蕨属亲源关系较近（3）短肠蕨属为独立一属,与其它属亲源关系较远。根据黑龙江省蹄盖蕨科植物的DNA水平的研究结果,再结合其形态学特征,建议将黑龙江省蹄盖蕨科划分为3个亚科：冷蕨亚科(Cystopterioideae)包括2个属：冷蕨属(Cystopteris)和羽节蕨属(Gymnocarpium)。蹄盖蕨亚科(Athyrioideae)包括3个属：蹄盖蕨属(Athyrium)、假冷蕨属(Pseudocystopteris)和角蕨属(Cornopteris)。双盖蕨亚科(Diplazioideae)包括短肠蕨属(Allantodia)。     

岩蕨科、球盖蕨科的系统位置：叶绿体DNAtrnL—F区序列证据

岩蕨科（Woodsiaceae）和球盖蕨科（Peranemaceae）历来被多数学者认为是亲缘关系密切的两个科,它们的系统位置一直存在争议,两科曾被放入三叉蕨科（Aspidiaceae）、碗蕨科（Dennstaedtiaceae）、鳞毛蕨亚科（Dryopteridoidaae）及鳞毛蕨科（Dryopteriaceae）蹄盖蕨亚科（Athyrioideae）中。根据岩蕨科1种、球盖蕨科3种、蹄盖蕨科8种、鳞毛蕨科2种及1种外类群假大羽铁角蕨（Asplenium pseudolaserpitiifolium）的cpDNA基因trnL—F区序列建立的系统树,结果显示,岩蕨科和球盖蕨科的亲缘关系较远,岩蕨科与蹄盖蕨科有密切的亲缘关系,球盖蕨科与鳞毛蕨科亲缘关系较近,岩蕨科和球盖蕨科是处于不同进化线上的植物。秦仁昌（1978）和Pichi—Sermolii（1977）的系统将二者分别作为独立的科是合适的。     

岩蕨科、球盖蕨科的系统位置：叶绿体DNAtrnL-F区序列证据

岩蕨科(Woodsiaceae)和球盖蕨科(Peranemaceae)历来被多数学者认为是亲缘关系密切的两个科,它们的系统位置一直存在争议,两科曾被放入三叉蕨科(Aspidiaceae)、碗蕨科(Dennstaedtiaceae)、鳞毛蕨亚科(Dryopteridoidaae)及鳞毛蕨科(Dryopteriaceae)蹄盖蕨亚科(Athyrioideae)中。根据岩蕨科1种、球盖蕨科3种、蹄盖蕨科8种、鳞毛蕨科2种及1种外类群假大羽铁角蕨(Asplenium pseudolaserpitiifolium)的cpDNA基因trnL-F区序列建立的系统树,结果显示,岩蕨科和球盖蕨科的亲缘关系较远,岩蕨科与蹄盖蕨科有密切的亲缘关系,球盖蕨科与鳞毛蕨科亲缘关系较近,岩蕨科和球盖蕨科是处于不同进化线上的植物。秦仁昌（1978）和Pichi-Sermolii（1977）的系统将二者分别作为独立的科是合适的。     

岩蕨科、球盖蕨科的系统位置:叶绿体DNAtrnL-F区序列证据

岩蕨科(Woodsiaceae)和球盖蕨科(Peranemaceae)历来被多数学者认为是亲缘关系密切的两个科,它们的系统位置一直存在争议,两科曾被放入三叉蕨科(Aspidiaceae)、碗蕨科(Dennstaedtiaceae)、鳞毛蕨亚科(Dryopteridoidaae)及鳞毛蕨科(Dryopteriaceae)蹄盖蕨亚科(Athyrioideae)中.根据岩蕨科1种、球盖蕨科3种、蹄盖蕨科8种、鳞毛蕨科2种及1种外类群假大羽铁角蕨(Asplenium pseudolaserpitiifolium)的cpDNA基因trnL-F区序列建立的系统树,结果显示,岩蕨科和球盖蕨科的亲缘关系较远,岩蕨科与蹄盖蕨科有密切的亲缘关系,球盖蕨科与鳞毛蕨科亲缘关系较近,岩蕨科和球盖蕨科是处于不同进化线上的植物.秦仁昌(1978)和Pichi-Sermolii(1977)的系统将二者分别作为独立的科是合适的.     

中国台湾和大陆蹄盖蕨属植物的生物地理学比较

蹄盖蕨属Athyrium Roth是个典型的东亚属,全世界估计约有160种,主要分布在亚洲东部的亚热带高山,少数在温带其他地区,中国有117种,是其分布中心。台湾和大陆的蹄盖蕨属植物关系尤为密切,是研究海峡两岸植物地理关系的一个很好的材料。台湾已知共计有蹄盖蕨类植物32种,包括狭义蹄盖蕨27种,介蕨2种,蛾眉蕨1种,假蹄盖蕨1种,假冷蕨1种,即使将待查实的4种蹄盖蕨除去,至少还有28种。其中除去7种大陆不产外, 21种均和大陆共有,占75%。况且,这7种与大陆种形态相近,是否同种异名、亚种或姊妹种关系还有待进一步研究;在台湾和大陆共有的16种狭义蹄盖蕨中有7种是台湾-西南间断分布。这不仅说明了台湾的蹄盖蕨属类植物和大陆的关系密切、有着共同的起源,而且说明台湾高地的植物区系和西南高地关系最为密切。运用生物系统学和分子系统学的方法研究和测定海峡两岸共有种种内、姊妹种或近缘种之间的遗传学关系(如:遗传一致度),进一步了解并量化台湾和大陆植物区系之间的历史和地理关系是必要的。     

论拟贯众属的系统位置

综合形态学、叶表皮解剖学、孢粉学、分子系统学及生物地理学的证据,认为拟贯众属被置于鳞毛蕨科的处理是错误的。多方面证据支持这个属与叉蕨科的一些属有着较近的亲缘关系,我们建议将拟贯众属从鳞毛蕨科中移出而暂时置于叉蕨科内。     

东北蕨类植物配子体发育的研究Ⅸ蹄盖蕨科

在室内培养条件下,用光镜较详尽地比较观察了我国东北产蹄盖蕨科８属１０种的配子体发育的全过程;对蹄盖蕨科的系统分类,提供配子体发育方面的证据。蹄盖蕨科８属中仅有６属在配子体发育方面的属间区别明显,而假冷蕨属和短肠蕨属与蹄盖蕨属在配子体发育中未见甚大差异。     

山东产蹄盖蕨科2属植物形态解剖学的研究

采用光镜和扫描电镜对山东分布的蹄盖蕨科2属(蹄盖蕨属和假蹄盖蕨属)7种植物的根、根茎、叶柄、叶轴、叶表皮、表皮毛和孢子囊进行了形态解剖学的系统研究.结果表明,在形态解剖学方面2属植物的共同特征为:根均为无髓中柱;叶柄基部的双柱型维管束向上渐靠近联合形成1个周韧型维管束;叶上下表皮垂周壁均呈波状;气孔主要为胞环型、周胞型或极附型.2属植物的不同特征是:蹄盖蕨属植物体无毛;而假蹄盖蕨属植物叶片和叶轴上均生有腺毛;蹄盖蕨属植物根皮层外侧为薄壁细胞,假蹄盖蕨属则为棕色厚壁细胞环.研究结果表明蹄盖蕨科为一个自然分类群,并支持假蹄盖蕨属的成立.     

Complex evolutionary history and diverse domain organization of SET proteins suggest divergent regulatory interactions

? Plants and animals possess very different developmental processes, yet share conserved epigenetic regulatory mechanisms, such as histone modifications. One of the most important forms of histone modification is methylation on lysine residues of the tails, carried out by members of the SET protein family, which are widespread in eukaryotes. ? We analyzed molecular evolution by comparative genomics and phylogenetics of the SET genes from plant and animal genomes, grouping SET genes into several subfamilies and uncovering numerous gene duplications, particularly in the Suv, Ash, Trx and E(z) subfamilies. ? Domain organizations differ between different subfamilies and between plant and animal SET proteins in some subfamilies, and support the grouping of SET genes into seven main subfamilies, suggesting that SET proteins have acquired distinctive regulatory interactions during evolution. We detected evidence for independent evolution of domain organization in different lineages, including recruitment of new domains following some duplications. ? More recent duplications in both vertebrates and land plants are probably the result of whole-genome or segmental duplications. The evolution of the SET gene family shows that gene duplications caused by segmental duplications and other mechanisms have probably contributed to the complexity of epigenetic regulation, providing insights into the evolution of the regulation of chromatin structure.     

Evolution of the Rho family of ras-like GTPases in eukaryotes

GTPases of the Rho family are molecular switches that play important roles in converting and amplifying external signals into cellular effects. Originally demonstrated to control the dynamics of the F-actin cytoskeleton, Rho GTPases have been implicated in many basic cellular processes that influence cell proliferation, differentiation, motility, adhesion, survival, or secretion. To elucidate the evolutionary history of the Rho family, we have analyzed over 20 species covering major eukaryotic clades from unicellular organisms to mammals, including platypus and opossum, and have reconstructed the ontogeny and the chronology of emergence of the different subfamilies. Our data establish that the 20 mammalian Rho members are structured into 8 subfamilies, among which Rac is the founder of the whole family. Rho, Cdc42, RhoUV, and RhoBTB subfamilies appeared before Coelomates and RhoJQ, Cdc42 isoforms, RhoDF, and Rnd emerged in chordates. In vertebrates, gene duplications and retrotranspositions increased the size of each chordate Rho subfamily, whereas RhoH, the last subfamily, arose probably by horizontal gene transfer. Rac1b, a Rac1 isoform generated by alternative splicing, emerged in amniotes, and RhoD, only in therians. Analysis of Rho mRNA expression patterns in mouse tissues shows that recent subfamilies have tissue-specific and low-level expression that supports their implication only in narrow time windows or in differentiated metabolic functions. These findings give a comprehensive view of the evolutionary canvas of the Rho family and provide guides for future structure and evolution studies of other components of Rho signaling pathways, in particular regulators of the RhoGEF family.     

Comparative cytogenetic analysis of eleven species of subfamilies Neoplecostominae and Hypostominae (Siluriformes: Loricariidae)

The family Loricariidae with about 690 species divided into six subfamilies, is one of the world’s largest fish families. Recent studies have shown the existence of several problems in the definition of natural groups in the family, which has made the characterization of the subfamilies and even of some genera quite difficult. With the main objective of contributing for a better understanding of the relationships between loricariids, cytogenetic analysis were conducted with two species of Neoplecostominae and nine species of Hypostominae that, according to morphological and molecular data, may belong to a new monophyletic unit. The results obtained showed a marked chromosomal conservation with the presence of 2n = 54 chromosomes and single interstitial Ag-NORs in all species analyzed. Considering that Neoplecostominae is the primitive sister-group of all other loricariids, with exception of Lithogeneinae, this karyotypic structure may represent the primitive condition for the family Loricariidae. The cytogenetic characteristics partaken by the species of Neoplecostominae and Hypostominae analyzed in the present study reinforce the hypothesis that the species of both these subfamilies might belong to a natural group.     

Phylogeny and classification of Leptophlebiidae (Ephemeroptera) with an emphasis on Neotropical fauna

Mayflies from the family Leptophlebiidae are cosmopolitan and highly diverse morphologically; they are also the largest family in numbers of genera and the second in number of species in the order Ephemeroptera. In spite of their broad diversity and the efforts employed to understand the evolution of this group, the internal classification of Leptophlebiidae remains controversial at all levels. More recently, important changes have been incorporated into the systematics of the family, increasing the number of subfamilies (from two to six) and recognizing several tribes. We present a phylogeny of the family based on 153 taxa (53 genera) and two molecular markers, representing 1655 bp, and verify the taxonomic status of the subfamilies, tribes and complexes. Based on these results, the number of subfamilies has been increased from six to eight and one new tribes and two new subtribes have been added. In addition, new ranks are proposed and the concept of Atalophlebiinae revised, including genera with distributions in the Australasian and Neotropical regions.     

Mitochondrial and nuclear markers support the monophyly of Dolichopodidae and suggest a rapid origin of the subfamilies (Diptera: Empidoidea)

Abstract. The Dolichopodidae is a species‐rich dipteran group with almost 7000 described species. The monophyly of the subfamilies and their relationships remain largely unknown because the polarities of key morphological characters are unclear and molecular data are available only for 9 of the 19 proposed subfamilies. Here we test whether molecular data from two nuclear (18S, 28S) and four mitochondrial (12S, 16S, Cytb, COI) genes can resolve the higher‐level relationships within the family. Our study is based on 76 Oriental species from 12 dolichopodid subfamilies and uses eight species of Empididae and Hybotidae as outgroups. Parsimony and likelihood analyses confirm the monophyly of the Dolichopodidae, as well as the monophyly of five of the ten subfamilies represented by more than two species [Sympycninae, Sciapodinae, Dolichopodinae, Hydrophorinae (excluding tribe Aphrosylini), Neurigoninae]. There is strong support for restoring the tribe Aphrosylini as a separate subfamily Aphrosylinae. The monophyly of Medeterinae, Peloropeodinae and Diaphorinae is dependent on which tree reconstruction technique is used, how indels are coded, and whether the fast‐evolving sites are excluded. Overall, we find that our sample of Oriental species is largely compatible with the subfamily concepts that were developed for the northern temperate fauna. However, our data provide little support for relationships between the subfamilies. Branch lengths, saturation, and distance plots suggest that this is probably the result of the rapid origin of dolichopodid subfamilies over a relatively short time. We find that genera that are difficult to place into subfamilies based on morphological characters are generally also difficult to place using molecular data. We predict that a dense, balanced taxon sample and protein‐encoding nuclear genes will be needed to resolve the higher‐level relationships in the Dolichopodidae.     

Molecular analysis of the NAC gene family in rice

Genes that encode products containing a NAC domain, such as NO APICAL MERISTEM (NAM) in petunia, CUP-SHAPED COTYLEDON2 (CUC2) and NAP in Arabidopsis thaliana, have crucial functions in plant development. We describe here molecular aspects of the OsNAC genes that encode proteins with NAC domains in rice (Oryza sativa L.). Sequence analysis revealed that the NAC genes in plants can be divided into several subfamilies, such as the NAM, ATAF, and OsNAC3 subfamilies. In rice, OsNAC1 and OsNAC2 are classified in the NAM subfamily, which includes NAM and CUC2, while OsNAC5 and OsNAC6 fall into the ATAF subfamily. In addition to the members of these subfamilies, the rice genome contains the NAC genes OsNAC3, OsNAC4 (both in the OsNAC3 subfamily), OsNAC7, and OsNAC8. These results and Southern analysis indicate that the OsNAC genes constitute a large gene family in the rice genome. Each OsNAC gene is expressed in a specific pattern in different organs, suggesting that this family has diverse and important roles in rice development.     

Phylogeny of babblers (Aves, Passeriformes): major lineages, family limits and classification

Babblers, family Timaliidae, have long been subject to debate on systematic position, family limits and internal taxonomy. In this study, we use five molecular regions to estimate the relationships among a large proportion of genera traditionally placed in Timaliidae. We find good support for five main clades within this radiation, and propose a new classification, dividing the babblers into the families Sylviidae and Timaliidae. Within the latter family, four subfamilies are recognized: Zosteropinae, Timaliinae, Pellorneinae and Leiothrichinae. Several taxa, previously not studied with molecular data, are phylogenetically placed within Sylviidae or Timaliidae. This is, however, not the case for the genus Pnoepyga , for which we propose the family name Pnoepygidae fam. n.     

Shaking the Tree: Multi-locus Sequence Typing Usurps Current Onchocercid (Filarial Nematode) Phylogeny

During the past twenty years, a number of molecular analyses have been performed to determine the evolutionary relationships of Onchocercidae, a family of filarial nematodes encompassing several species of medical or veterinary importance. However, opportunities for broad taxonomic sampling have been scarce, and analyses were based mainly on 12S rDNA and coxI gene sequences. While being suitable for species differentiation, these mitochondrial genes cannot be used to infer phylogenetic hypotheses at higher taxonomic levels. In the present study, 48 species, representing seven of eight subfamilies within the Onchocercidae, were sampled and sequences of seven gene loci (nuclear and mitochondrial) analysed, resulting in the hitherto largest molecular phylogenetic investigation into this family. Although our data support the current hypothesis that the Oswaldofilariinae, Waltonellinae and Icosiellinae subfamilies separated early from the remaining onchocercids, Setariinae was recovered as a well separated clade. Dirofilaria, Loxodontofilaria and Onchocerca constituted a strongly supported clade despite belonging to different subfamilies (Onchocercinae and Dirofilariinae). Finally, the separation between Splendidofilariinae, Dirofilariinae and Onchocercinae will have to be reconsidered.     

The ecological tale of Gonyleptidae (Arachnida,Opiliones) evolution: phylogeny of a Neotropical lineage of armoured harvestmen using ecological,behavioural and chemical characters

The large Neotropical family Gonyleptidae comprises nearly 820 species divided into 16 subfamilies. The majority of publications on harvestman ecology, behaviour and scent gland secretion chemistry have focused on this family. We used the information available in the literature and combined it with an intensive search for ecological, behavioural and chemical data to infer the phylogeny of the Gonyleptidae. We included 28 species belonging to 14 of the 16 gonyleptid subfamilies in the ingroup and four species belonging to the families Cosmetidae, Stygnidae and Manaosbiidae in the outgroup. We performed the analyses using equally weighted characters and coded 63 characters comprising 153 states, which makes this the largest non‐morphological, non‐molecular phylogenetic data matrix published to date. We obtained five most parsimonious trees, and the strict consensus resulted in six collapsed nodes. The results show that the monophyly of Gonyleptidae is equivocal because Metasarcinae is placed at a basal polytomy with the outgroups Cosmetidae and Stygnidae. Gonyleptinae, Pachylinae and Progonyleptoidellinae are polyphyletic groups, but the remaining subfamilies are monophyletic and have several synapomorphies. Based on the resulting topology, we discuss the performance of ecological, behavioural and chemical characters, and map a selected set of characters to discuss their evolutionary patterns in the family.