Phylogenetic and populational study of the Tuber indicum complex

When examined using SEM, Chinese samples of Tuber indicum and T. sinense displayed the same ascospore ornamentation as that of T. pseudohimalayense, T. indicum, collected in India by Duthie in 1899, and samples renamed T. himalayense in 1988. The different authors who named the four taxa (T. indicum, T. himalayense, T. sinense, T. pseudohimalyense) described differences in the surface of the peridium which could be considered as usual variations within a single species. We consider T. indicum, T. himalayense, T. sinense and T. pseudohimalayense as one species, T. indicum. Within this T. indicum complex, according to ITS and β-tubulin sequences, there are two groups in China, which could be considered as geographical ecotypes. This study is the first to identify a genetic and phylogeographical structure within the Chinese Tuber species.     

Phylogenetic relationships among species and genera of Lycoperdaceae based on ITS and LSU sequence data from north European taxa

Phylogenetic relationships, limits of species, and genera within Lycoperdaceae, were inferred by use of ITS and LSU nu-rDNA sequence data. Lycoperdaceae was confirmed as monophyletic, and Mycenastrum corium as a sister taxon to the ingroup. Four major clades were identified and received weak to moderate support and correspond with the genera Lycoperdon, Bovista, Calvatia, and Disciseda. The Lycoperdon clade includes species from Lycoperdon, Vascellum, Morganella, Handkea, Bovistella, and Calvatia. The structure within the Lycoperdon clade is unresolved and several clades are more or less unsupported, which suggests treating the supported Lycoperdon clade as the genus Lycoperdon. L. nigrescens and L. caudatum occur on single branches and their phylogenetic positions could not be resolved. The phylogenetic analyses identified 31 species of Lycoperdon, 11 species of Bovista, six species of Calvatia, and two species of Disciseda. In Lycoperdon three new species were recognized. A new species closely related to B. limosa is identified and discussed. A classification of Lycoperdaceae is proposed based on the results of the phylogenetic analyses. Morphological characters of species within and among identified clades are discussed.     

A polysaccharide from Lichina pygmaea and L. confinis supports the recognition of Lichinomycetes

The lichen-forming order Lichinales, generally characterized by prototunicate asci and the development of thalli with cyanobacteria, has recently been recognized as a separate class of ascomycetes, Lichinomycetes, as a result of molecular phylogenetic studies. As alkali and water-soluble (F1SS) polysaccharides reflect phylogeny in other ascomycetes, a polysaccharide from Lichina pygmaea and L. confinis was purified and characterized to investigate whether these F1SS compounds in the Lichinomycetes were distinctive. Nuclear magnetic resonance (NMR) spectroscopy and chemical analyses revealed this as a galactomannan comprising a repeating unit consisting of an α-(1→6)-mannan backbone, mainly substituted by single α-galactofuranose residues at the O-2- or the O-2,4- positions linked to a small mannan core. With the exception of the trisubstituted mannopyranose residues previously described in polysaccharides from other lichens belonging to orders now placed in Lecanoromycetes, the structure of this galactomannan most closely resembles those found in several members of the Onygenales in Eurotiomycetes. Our polysaccharide data support molecular studies showing that Lichina species are remote from Lecanoromycetes as the galactofuranose residues are in the α-configuration. That the Lichinomycetes were part of an ancestral lichenized group can not be established from the present data because the extracted polysaccharide does not have the galactofuranose residue in the β configuration; however, the data does suggest that an ancestor of the Lichinomycetes contained a mannan and was part of an early radiation in the ascomycetes.     

7种桉树花粉微观形态及其亲缘关系分析

为了解我国常用桉树树种的亲缘关系,利用扫描电镜观察7种桉属(Eucalyptus)树种的花粉形态。结果表明,粗皮桉(E.pellita)、窿缘桉(E. exserta)的7个花粉性状大多处于前2位,其中粗皮桉花粉的赤道面长、宽和面积最大,分别为17.522、17.090μm和300.830μm~2,而窿缘桉花粉的萌发沟长、宽和大小最大,分别为6.576、0.720μm和4.718μm~2;赤桉(E. camaldulensis)花粉的赤道面最小,韦塔桉(E.wetarensis)花粉的萌发沟最小。聚类分析表明,在信息保留87.5%时,7树种可以分为3组,粗皮桉和窿缘桉聚在一组,韦塔桉和巨桉(E. grandis)聚在一组,其余聚在一组。粗皮桉、窿缘桉的花粉外壁纹饰较光滑,细叶桉(E. tereticornis)和赤桉属常规,尾叶桉(E. urophylla)、韦塔桉和巨桉较粗糙。从花粉形态分析,粗皮桉和窿缘桉的亲缘关系较近,韦塔桉、尾叶桉的亲缘关系较远,细叶桉、赤桉和巨桉的亲缘关系与传统分类结果一致。因此,7种桉树花粉形态反映了一些新的亲缘关系,对桉树的杂交育种有指导意义。     

国产尖叶蛇根草(茜草科)的订正

中国文献中记载的尖叶蛇根草（Ophiorrhiza hispida Hook.f.）以及采自中国鉴定为该种的标本均实为近簇花蛇根草（O.pseudofasciculata Schanzer）,在此予以纠正。     

SSR标记在桉树树种精准鉴定中的应用分析

为精准鉴定桉树种质,利用4个在种内完全保守的SSR位点对28种桉树(Eucalyptus)进行鉴定。根据这4个SSR位点的微卫星重复次数和侧翼序列特异核苷酸组合,构建了28种桉树种间种质资源的鉴定条码,能够精准鉴定9种桉树。这为桉树杂交育种工作提供了生物学依据。     

The Genus Obelus Hartmann, 1842 (Gastropoda, Pulmonata, Helicoidea) and its Phylogenetic Relationships

The genus Obelus, so far known from shells only, is re-described on the basis of the anatomy of its genital system. Its range is here restricted to north-western Africa and the Canary Islands. Four species are traditionally listed for the Canary Islands: Obelus despreauxii, O. moderatus, O. mirandae and O. cyclodon. The presence of the last species on the Canary Islands is doubtful, whereas the fossil/subfossil presence of O. pumilio is documented. The species Helix morata also belongs to the genus, as well as a new species, O. discogranulatus sp. nov. The genital systems of all confirmed extant Canarian species are shown. Obelus has a peculiar vaginal stimulator appendix (“appendicula”) which is homologous to the penial appendix of the Orthurethra and to the stimulatory organ of other Stylommatophora, with the exception that the A₃ portion is missing. The genus is diagnosed by characters of the vaginal stimulator appendix, such as a curved, finger-like A₂ portion of the appendicula ending proximally in a blind, well-developed muscular sac, and by the slender tubular A₄ portion arising laterally from the muscular sac duct. We conclude that Obelus belongs to the Cochlicella group because it shares an appendicula with the other genera of the group. However, it differs in anatomical details of this structure. The Cochlicella group should be recognized as a separate family Cochlicellidae Schileyko, 1972, with close relationships to the Helicellidae and the Hygromiidae. A new diagnosis for Cochlicellidae is proposed and its phylogenetic relationships are discussed.This is: Notes on the Malacofauna of the Canary Islands, No. 46.     

Phylogenetic investigations of Sordariaceae based on multiple gene sequences and morphology

The family Sordariaceae incorporates a number of fungi that are excellent model organisms for various biological, biochemical, ecological, genetic and evolutionary studies. To determine the evolutionary relationships within this group and their respective phylogenetic placements, multiple-gene sequences (partial nuclear 28S ribosomal DNA, nuclear ITS ribosomal DNA and partial nuclear β-tubulin) were analysed using maximum parsimony and Bayesian analyses. Analyses of different gene datasets were performed individually and then combined to generate phylogenies. We report that Sordariaceae, with the exclusion Apodus and Diplogelasinospora, is a monophyletic group. Apodus and Diplogelasinospora are related to Lasiosphaeriaceae. Multiple gene analyses suggest that the spore sheath is not a phylogenetically significant character to segregate Asordaria from Sordaria. Smooth-spored Sordaria species (including so-called Asordaria species) constitute a natural group. Asordaria is therefore congeneric with Sordaria. Anixiella species nested among Gelasinospora species, providing further evidence that non-ostiolate ascomata have evolved from ostiolate ascomata on several independent occasions. This study agrees with previous studies that show heterothallic Neurospora species to be monophyletic, but that homothallic ones may have a multiple origins. Although Gelasinospora and Neurospora are closely related and not resolved as monophyletic groups, there is insufficient evidence to place currently accepted Gelasinospora and Neurospora species into the same genus.     

Phylogenetic relationships of Auriculoscypha based on ultrastructural and molecular studies

The phylogeny of Auriculoscypha anacardiicola, an associate of scale insects in India, is investigated using subcellular characters and MP and Bayesian analyses of combined nuLSU-rDNA, nuSSU-rDNA and 5.8S rDNA sequence data. It has simple septa with a pulley-wheel-shaped pore plug, which is diagnostic of phytoparasitic members of the Pucciniomycetes, and hyphal wall break on branching, a phenomenon unique to some simple septate heterobasidiomycetes. The septal ultrastructure of A. anacardiicola is similar to that of the genus Septobasidium. The close relationship to Septobasidium is also confirmed by rDNA sequence analyses. The polyphyletic nature of the order Platygloeales, noted in earlier studies, is evident from the present molecular analysis as well. The placement of Auriculoscypha in the Platygloeales can no longer be justified and both ultrastructural and molecular evidence strongly support the placement of Auriculoscypha in the Septobasidiales.     

国产鸡血藤属和崖豆藤属(豆科)的花粉形态及其系统学意义

为探讨国产豆科(Leguminosae)鸡血藤属(Callerya Endl.)和崖豆藤属(Millettia Wight et Arn.)的属间和属下分类,在扫描电镜下观察了鸡血藤属11种5变种和崖豆藤属6种2变种的花粉形态。结果表明,鸡血藤属和崖豆藤属植物的花粉都是3孔沟或3沟的单粒,辐射对称,赤道面观主要为类球形或近扁球形,极面观主要为圆形或圆状三角形。鸡血藤属植物的花粉大小为中等,而崖豆藤属的为小型。两属植物花粉的沟膜呈现或多或少的隆起或凹陷,附有细微的或粗糙的颗粒,花粉外壁纹饰可分为6种类型。花粉形态不支持Schot合并所有灰毛鸡血藤复合体中除了亮叶鸡血藤[C.nitida(Benth.)R.Geesink]与喙果鸡血藤[C.cochinchinensis(F.P.Metcalf)Z.WeiPedley]为灰毛鸡血藤[C.cinerea(Benth.)Schot]的观点,花粉大小支持将鸡血藤属从广义崖豆藤属中分离。     

巨桉AGO基因家族的生物信息学分析

为了解巨桉(Eucalyptus grandis)中Argonaute (AGO)的功能, 经全基因组序列分析, 巨桉中存在14 个AGO基因家族成员, 基因长度为2676~3225 bp, 编码的蛋白质具有保守的Piwi、PAZ、DUF1785 结构域。巨桉EgrAGOs 基因可分为3 组, 内含子和外显子结构具有明显的组织特异性。组内成员核苷酸序列和氨基酸序列保守性较高, 同源性分别达到88.14% 和82.97%。EgrAGO基因分布于第2、4、7、8、10、11 条染色体上, 在进化过程中存在着串联复制和大片段基因复制机制。预测巨桉的大部分AGO 蛋白定位于细胞核和胞质中, 表现出偏碱性和亲水性, 具有较高的脂溶指数。基因表达分析表明, 桉树EgrAGO成员在不同组织中的表达有明显差异, 与木材形成相关的组织/ 器官中有较高的表达。这些为深入研究EgrAGO基因的功能奠定了基础。     

16S rRNA及rpoC1基因用于螺旋藻、节旋藻系统发育的比较北大核心CSCD

【目的】利用16S rRNA和rpoC1基因分子标记研究螺旋藻、节旋藻的系统发育关系,并对其区分能力进行比较。【方法】以84株螺旋藻、节旋藻为研究对象,对其进行16S rRNA、rpoC1基因序列的扩增、测序及分析,并对构建的系统发育树进行对比。【结果】rpoC1基因序列保守位点所占比例49.7%、平均G+C百分含量47.7%和序列相似度76%–100%明显低于16S rRNA基因序列的79.4%、55.6%和91%–100%,其变异程度高于16S rRNA基因;基于16S rRNA、rpoC1基因构建的系统发育NJ树拓扑结构基本一致,84株实验藻株分为2个属3个类群,其中仅F-351、F-904-2、F-1070和TJBC14-1藻株为螺旋藻,其余均为节旋藻;虽然2个基因都不能区分形态种和地理种,但rpoC1基因NJ树的置信度(100%)高于16S rRNA基因(99%),属内分群效果也明显优于16S rRNA基因。【结论】支持了螺旋藻、节旋藻为两个不同属的结论,且在属内分类时rpoC1基因比16S rRNA基因具有更高的区分度。     

中国毛茛科翠雀属的分类学研究(十二):竞生翠雀花的名实订正

通过标本室和野外观察,发现根据云南西北部中甸标本描述的毛茛科竞生翠雀花（Delphinium yangii W.T.Wang）与此前记载分布于该地及四川西南部（康定、小金、汶川）的宝兴翠雀花（D.smithianum Hand.-Mazz.）属于同一分类实体,故将前者处理为后者的异名。     

中国毛茛科翠雀属的分类学研究(四):五花翠雀花的名实订正

通过标本室和野外观察,发现根据云南中甸标本描述的毛茛科五花翠雀花(Delphinium quinqueflorum W.T.Wang)与当地颇为常见的澜沧翠雀花(D.thibeticum Finet&Gagnep.)没有本质区别,仅为其稍矮小的植株,故将前者处理为后者的异名。     

中国毛茛科翠雀属的分类学研究(十四):光序翠雀花二新异名

广布于中国-喜马拉雅地区的毛茛科光序翠雀花（Delphinium kamaonense Huth）在我国甘肃、青海、四川和西藏具有相当连续的分布区,在分布区内颇为常见,几为杂草。通过标本室和野外观察,发现根据西藏波密、察隅标本描述的展毛光序翠雀花[D. kamaonense var. glabrescens（W. T. Wang）W. T. Wang]和根据西藏类乌齐标本描述的倒心形翠雀花（D. obcordatilimbum W. T. Wang）与光序翠雀花没有本质区别,故将二者均处理为光序翠雀花的异名。     

Phylogenetic reassessment of Hyaloscyphaceae sensu lato (Helotiales, Leotiomycetes) based on multigene analyses

Hyaloscyphaceae is the largest family in Helotiales, Leotiomycetes. It is mainly characterized by minute apothecia with well-differentiated hairs, but its taxonomic delimitation and infrafamilial classification remain ambiguous. This study performed molecular phylogenetic analyses using multiple genes including the ITS-5.8S rDNA, the D1–D2 region of large subunit of rDNA, RNA polymerase II subunit 2, and the mitochondrial small subunit. The primary objective was to evaluate the phylogenetic utility of morphological characters traditionally used in the taxonomy of Hyaloscyphaceae through reassessment of the monophyly of this family and its genera. The phylogenetic analyses inferred Hyaloscyphaceae as being a heterogeneous assemblage of a diverse group of fungi and not supported as monophyletic. Among the three tribes of Hyaloscyphaceae only Lachneae formed a monophyletic lineage. The presence of hairs is rejected as a synapomorphy, since morphologically diversified hairs have originated independently during the evolution of Helotiales. The true- and false-subiculum in Arachnopezizeae are hypothesized to have evolved through different evolutionary processes; the true-subiculum is likely the product of a single evolutionary origin, while the false-subiculum is hypothesized to have originated multiple times. Since Hyaloscyphaceae sensu lato was not resolved as monophyletic, Hyaloscyphaceae sensu stricto is redefined and only applied to the genus Hyaloscypha.     

Molecular phylogeny supports a Northern Hemisphere origin of Golovinomyces (Ascomycota: Erysiphales)

Golovinomyces is a strictly herb-parasitic genus in the Erysiphaceae. Host–parasite co-speciation was reported recently between the genus Golovinomyces and Asteraceae from molecular phylogenetic analyses. The Asteraceae originated in South America and latterly expanded their geographic distribution into the Northern Hemisphere. If the co-speciation between Golovinomyces and Asteraceae originated in South America, the geographic origin of Golovinomyces could be assumed to be South America. To address this question, Golovinomyces species from hosts of the tribe Mutisieae, an asteraceous tribe endemic to South America, were collected and the ITS and 28S rDNA regions sequenced. Results indicate that Oidium mutisiae and Golovinomyces leuceriae isolated from the Mutisieae do not belong at the base of the Golovinomyces tree. Instead, they are situated separately within two different clades of Golovinomyces isolates from the Northern Hemisphere. Therefore, the tribe Mutisieae is not the most early host of Golovinomyces. Present results suggest that Golovinomyces originated in the Northern Hemisphere, and not in South America. The new species Oidium reginae for the previous O. mutisiae on Mutisia decurrens is proposed.     

中国毛茛科翠雀属的分类学研究(五):秋翠雀花二新异名

通过标本室和野外观察,发现根据四川西南部越西标本描述的毛茛科凉山翠雀花(Delphinium liangshanense W. T. Wang)和根据四川西南部木里标本描述的光轴翠雀花(D. leiostachyum W. T. Wang)只是此前记载分布于四川木里、盐源和云南西北部宁蒗一带的秋翠雀花(D. autumnale Hand.-Mazz.)植株较高的类型,故将二者均处理为秋翠雀花的异名.     

中国毛茛科翠雀属的分类学研究(七):岩瓦翠雀花的名实订正

通过标本室和野外观察,发现根据云南西北部维西标本描述的毛茛科岩瓦翠雀花(Delphinium yanwaense W. T. Wang)与云南西北部颇为常见的中甸翠雀花(D. yuanum Chen)没有本质区别,故将前者处理为后者的异名。中甸翠雀花在叶的分裂程度上变异颇大。     

Phylogenetic relationships of Ceratitis fruit flies inferred from nuclear CAD and tango/ARNT gene fragments: Testing monophyly of the subgenera Ceratitis (Ceratitis) and C. (Pterandrus)

Systematic studies of Ceratitis (Tephritidae) fruit flies using molecular (i.e., COI, ND6, and period genes) and morphological (plus host-use characters) data have recently challenged the monophyly of the subgenera Ceratitis (Ceratitis) and Ceratitis (Pterandrus). In this paper, we report on the phylogenetic utility of three single-copy nuclear gene regions (two non-overlapping fragments of the carbamoylphosphate synthetase, CPS, locus of CAD, and a fragment of tango) within these taxa and investigate evolutionary relationships based on a concatenated ca. 3.4 kb data set that includes the six protein encoding gene regions. Results indicate that the CAD and tango genes provide useful phylogenetic signal within the taxa and are compatible with the previously studied genes. The two subgenera, as currently classified, are not monophyletic. Our molecular phylogenetic analyses support a revised classification in which (1) the subgenus C. (Pterandrus) comprises two lineages called A and B, (2) the C. (Pterandrus) B species should be included in C. (Ceratitis), and (3) the newly defined subgenera C. (Pterandrus) (=Pterandrus section A) and C. (Ceratitis) [=C. (Ceratitis) + C. (Pterandrus) section B] are reciprocally monophyletic.