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1.
Molecular phylogeny of the genus Stereocaulon (Stereocaulaceae, lichenized ascomycetes) 总被引:1,自引:1,他引:0
Filip Hgnabba 《Mycological Research》2006,110(9):1080-1092
In the present study phylogenetic relationships of the genus Stereocaulon (lichenized ascomycetes) were examined using DNA sequences from the ITS1–5.8 S–ITS2 rDNA gene cluster and from the protein-coding β-tubulin gene. In addition to the fruticose species traditionally classified in Stereocaulon, representatives of the crustose species that have recently been transferred to the genus were included. Muhria, a monotypic genus that is morphologically similar to Stereocaulon, differing only in apothecia ontogeny, was also incorporated. The analyses included 101 specimens from the ingroup representing 49 taxa. Sequences from both DNA regions were analysed simultaneously using direct optimization under the parsimony optimality criterion. The results support the inclusion of the crustose species and Muhria in Stereocaulon, while the current infrageneric classification is not supported. As Muhria is securely nested within Stereocaulon the new combination Stereocaulon urceolatum comb. nov. (syn. Muhria urceolata) is made. Further, species concepts need to be re-examined, as some species do not appear as monophyletic entities in the phylogeny. 相似文献
2.
The Harpellales (Trichomycetes) are endosymbiotic microfungi, mostly unculturable and predominantly associated with larval aquatic insects worldwide. Molecular phylogenies including ‘gut fungi’ have included at most only four axenic isolates of the 38 genera of Harpellales. Cladistic analyses were used to infer the phylogeny of the Harpellales using partial 18S or 28S nu-rRNA sequences generated for 16 genera of Harpellales, with 64 of 72 sequences generated from unculturable samples. Both analyses placed Orphella outside an otherwise monophyletic group of Harpellales, more closely allied to the Kickxellales. The current classification recognizing two families is not corroborated and continued use of the family Legeriomycetaceae may not be supportable. The largest genera of Harpellales, Smittium and Stachylina, were polyphyletic and the 28S rRNA sequences separate Smittium culisetae from the remainder of its genus. The cladograms did not support the consistent mapping of important morphological taxonomic characters, including trichospore shape and zygospore type or appendage numbers for both. This study demonstrates the use of microscopic thalli from host guts for molecular phylogenies and suggests the need for more data from the remaining Harpellales, especially with the future inclusion of protein-coding genes. 相似文献
3.
A molecular phylogeny of Hebeloma species from Europe 总被引:2,自引:1,他引:1
Herbert Boyle Bettina Zimdars Carsten Renker Franois Buscot 《Mycological Research》2006,110(4):369-380
In order to widen the scope of existing phylogenies of the ectomycorrhizal agaric genus Hebeloma a total of 53 new rDNA ITS sequences from that genus was generated, augmented by sequences retrieved from GenBank, and analysed using Bayesian, strict consensus and neighbour joining methods. The lignicolous Hebelomina neerlandica, Gymnopilus penetrans, and two species of Galerina served as outgroup taxa. Anamika indica, as well as representatives of the genera Hymenogaster and Naucoria, were included to test the monophyly of Hebeloma, which is confirmed by the results. Hebeloma, Naucoria, Hymenogaster and Anamika indica cluster in a strongly supported monophyletic hebelomatoid clade. All trees largely reflect the current infrageneric classification within Hebeloma, and divide the genus into mostly well-supported monophyletic groups surrounding H. crustuliniforme, H. velutipes, H. sacchariolens, H. sinapizans, and H. radicosum, with H. sarcophyllum being shown at an independent position; however this is not well supported. The section Indusiata divides with strong support into three groups, the position of the pleurocystidiate Hebeloma cistophilum suggests the possible existence of a third subsection within sect. Indusiata. Subsection Sacchariolentia is raised to the rank of section. 相似文献
4.
Carlos Vergara-Chen Windsor E. Aguirre Mercedes Gonzlez-Wangüemert Eldredge Bermingham 《Molecular phylogenetics and evolution》2009,53(2):602-607
We infer the phylogeny of fishes in the New World Cynoscion group (Cynoscion, Isopisthus, Macrodon, Atractoscion, Plagioscion) using 1603 bp of DNA sequence data from three mitochondrial genes. With the exception of Plagioscion, whose position was ambiguous, the Cynoscion group is monophyletic. However, several genera examined are not monophyletic. Atlantic and Pacific species of Cynoscion are interspersed in the tree and geminate species pairs are identified. Intergeneric relationships in the group are clarified. Our analysis is the first comprehensive phylogeny for the Cynoscion group based on molecular data and provides a baseline for future comparative studies of this important group. 相似文献
5.
The genus Schizochytrium sensu lato has been characterized by successive binary division of its vegetative cells. However, the molecular phylogeny
strongly suggests that this genus is not a natural taxon, because the original and recorded strains that have been identified
as Schizochytrium spp. separately form three well-supported monophyletic groups in the 18S rRNA gene tree. These three groups are clearly distinguishable
by their combined morphological characteristics and the profiles of the polyunsaturated fatty acids and carotenoid pigments
they contain, although these are hard to distinguish using only a single feature. Therefore, three different genera are proposed
to accommodate these three groups, i.e., Schizochytrium sensu stricto, Aurantiochytrium, and Oblongichytrium gen. nov. 相似文献
6.
Polystichum, one of the largest genera of ferns, occurs worldwide with the greatest diversity in southwest China and adjacent regions. Although there have been studies of Chinese Polystichum on its traditional classification, geographic distributions, and even a few on its molecular systematics, its relationships to other species outside China remain little known. Here, we investigated the phylogeny and biogeography of the Polystichum species from China and Australasia. The evolutionary relationships among 42 Polystichum species found in China (29 taxa) and Australasia (13 taxa) were inferred from phylogenetic analyses of two chloroplast DNA sequence data sets: rps4-trnS and trnL-F intergenic spacers. The divergence time between Chinese and Australasian Polystichum was estimated. The results indicated that the Australasian species comprise a monophyletic group that is nested within the Chinese diversity, and that the New Zealand species are likewise a monophyletic group nested within the Australasian species. The divergence time estimates suggested that Chinese Polystichum migrated into Australasia from around 40 Ma ago, and from there to New Zealand from about 14 Ma. The diversification of the New Zealand Polystichum species began about 10 Ma. These results indicated that Polystichum probably originated in eastern Asia and migrated into Australasia: first into Australia and then into New Zealand. 相似文献
7.
Doris M. Lagos David J. Voegtlin Armelle Coeur d'acier Rosanna Giordano 《Insect Science》2014,21(3):374-391
A phylogeny of the genus Aphis Linnaeus, 1 758 was built primarily from specimens collected in the Midwest of the United States. A data matrix was constructed with 68 species and 41 morphological characters with respective character states of alate and apterous viviparous females. Dendrogram topologies of analyses performed using UPGMA (Unweighted Pair Group Method with Arithmetic Mean), Maximum Parsimony and Bayesian analysis of Cytochrome Oxidase I, Elongation Factor 1‐α and primary endosymbiont Buchnera aphidicola 16S sequences were not congruent. Bayesian analysis strongly supported most terminal nodes of the phylogenetic trees. The phylogeny was strongly supported by EF1‐α, and analysis of COI and EF1‐α molecular data combined with morphological characters. It was not supported by single analysis of COI or Buchnera aphidicola 16S. Results from the Bayesian phylogeny show 4 main species groups: asclepiadis, fabae, gossypii, and middletonii. Results place Aphis and species of the genera Protaphis Börner, 1952, Toxoptera Koch, 1856 and Xerobion Nevsky, 1928 in a monophyletic clade. Morphological characters support this monophyly as well. The phylogeny shows that the monophyletic clade of the North American middletonii species group belong to the genus Protaphis: P. debilicornis (Gillette & Palmer, 1929 ), comb. nov., P. echinaceae (Lagos and Voegtlin, 2009 ), comb. nov., and P. middletonii (Thomas, 1879 ). The genus Toxoptera should be considered a subgenus of Aphis (stat. nov.). The analysis also indicates that the current genus Iowana Frison, 1954 should be considered a subgenus of Aphis (stat. nov.). 相似文献
8.
M. Virgilio M. De Meyer I.M. White T. Backeljau 《Molecular phylogenetics and evolution》2009,51(3):531-539
The genus Dacus Fabricius includes economically important pest fruit flies distributed in the Afrotropical and Indo-Australian regions. Two recent revisions based on morphological characters proposed new and partially discordant classifications synonymizing/revalidating several subgeneric names and forming species groups. Regardless these efforts, the phylogenetic relationships among Dacus species remained largely unresolved mainly because of the difficulties in assigning homologous character states. Therefore we investigated the phylogeny of African Dacus by sequencing 71 representatives of 32 species at two mitochondrial (COI, 16S) and one nuclear (period) gene fragments. Phylogenetic relationships were inferred through Bayesian and Maximum Parsimony methods and hypotheses about the monophyly of Dacus subgenera were tested by Shimodaira–Hasegawa tests. The congruence tests and the analyses of the single gene fragments revealed that the nuclear gene supports similar conclusions as the two mitochondrial genes. Levels of intra- and inter-specific differentiation of Dacus species were highly variable and, in some cases, largely overlapping. The analyses of the concatenated dataset resolved two major bootstrap-supported groups as well as a number of well-supported clades and subclades that often comprised representatives of different subgenera. Additionally, specimens of Dacus humeralis from Eastern and Western African localities formed separate clades, suggesting cryptic differentiation within this taxon. The comparisons between the molecular phylogeny and the morphological classification revealed a number of discrepancies and, in the vast majority of cases, the molecular data were not compatible with the monophyly of the currently recognised subgenera. Conversely, the molecular data showed that Apocynaceae feeders are a monophyletic sister group of species feeding on both Cucurbitaceae and Passifloraceae (these latter being also monophyletic). These results show a clear association between the molecular phylogeny of African Dacus and the evolution of host plant choice and provide a basis towards a more congruent taxonomy of this genus. 相似文献
9.
摘要:本文报道秦岭地区尾孢菌属及其近似属56种,其中有一个新种:秦岭假尾孢(Pseudocercospora qinlingensis Guo, sp. nov.),寄生在苦木科(Simaroubaceae)臭椿属(Ailanthus sp.)上,两个新组合:草霉色链隔孢[Phaeoramularia vexans (C. Massalongo) Guo,comb. nov.].寄生在蔷薇科(Rosaceae)草霉属(Fragaria sp.)上;篙假尾孢[Pseudocercospora dracunculi (Sarwar) Guo, comb. nov.],寄生在菊科(Compositae)牛尾蒿(Artemisia subdigitataMattf.)上和两个中国新记录种:商陆尾孢(Cercospora pircuniae Speg.),寄生在商陆科(Phytolaccaceae)商陆(Phytolacca acinosa Roxb.)上;荚蒾生尾孢(Cercospora viburnicola Ray).寄生在醉鱼草叶荚蒾(Viburnum buddleifolium C. H. Wight)上.新种(Pseudocercospora qinlingensis Guo, sp. nov.)子实体主要生于叶面,子座沿叶斑边缘发生,暗褐色至近黑色,直径40.0-75.0 (-100.0)μm,分生孢子梗紧密簇生,青黄褐色,不分枝,不呈曲膝状,无隔膜,6.5-26.0 × 3.9-6.0μm,分生孢子圆柱形,青黄褐色至中度褐色,非常弯曲,基部平截,具紧密排列地4至多个隔膜,在隔膜处缴缩,32.0-120.0 (-150.0) ×4.0-6.5 (-7.6)μm.新种与寄生在臭椿属(Ailanthus spp.)植物上的臭椿尾孢(Cercospora ailanthi P. Henn.)和臭椿生假尾孢[Pseudocercospora ailanthicola(Patwardhan) Dcighton]不同:臭椿尾孢无子座.分生孢子梗不成簇,分枝,长(50.0-200.0μm),分生孢子倒棍棒一圆柱形,色泽浅(浅青黄褐色),隔膜少(5-7隔),不缢缩,短(15.0-60.0μm);臭椿生假尾孢子实体叶背生,分生孢子梗窄((3.0-4.Spm),分生孢子倒棍棒形,隔膜少((5-8隔),不绣缩,短而窄(20.0-63.0 ×3.0-5.0μm). 相似文献
10.
On the basis of 1,290 bp sequences of the chloroplast generbcL, a molecular phylogeny of seven of nine genera of the Celtidaceae and four of six genera of the Ulmaceae was produced. These
data were analyzed together with some other urticalean genera using three methods (i.e., maximum parsimony, maximum likelihood,
and neighbor joining methods). Maximum likelihood topology among 18 trees obtained indicated that the Urticales are monophyletic
with its common clade splitting basally into two: one leading to a line comprisingAmpelocera (traditionally placed in Celtidaceae) and Ulmaceae, and the other leading to a line comprising the remaining genera of Celtidaceae,
Moraceae, and other Urticales. Ulmaceae, to whichAmpelocera is a sister group, are monophyletic, as supported by many lines of morphological evidence. In contrast to Ulmaceae, the monophyly
of Celtidaceae (excludingAmpelocera) was not supported, and resolution of relationships of Celtidaceae with other Urticales, as well as of those within the family,
is left for future study. 相似文献
11.
梭菌属分类研究进展:现状和展望 总被引:2,自引:0,他引:2
Paul A.Lawson 《微生物学通报》2016,43(5):1070-1074
目前构成梭菌属的微生物在系统发育和表型特征上不一致。多相分类数据表明,梭菌属物种之间差异大。大量基于16S rRNA 基因的系统发育研究表明,梭菌属应被限定为梭菌属类群I,作为狭义梭菌属(Clostridium sensu stricto)。尽管有这方面认识,梭菌属新物种仍持续增加,这些新物种并不能与梭菌属类群I 和标准种丁酸梭菌(C. butryicum)形成一致分支,引发梭菌属分类上的混乱。本文明确了梭菌属物种的范围,即只包括模式种和梭菌属类群I。此外,4 个物种念珠状真杆菌(Eubacterium moniliforme)、旋舞真杆菌(Eubacterium tarantellae)、最大八叠球菌(Sarcina maxima)和胃八叠球菌(Sarcina ventriculi)应被调至梭菌属,分别命名为念珠状梭菌(Clostridium moniliforme)、旋舞梭菌(Clostridium tarantellae)、最大梭菌(Clostridium maximum)和胃梭菌(Clostridium ventriculi)。一个新属哈撒韦氏菌属(Hathewaya)被提议成立,3 个梭菌属物种溶组织梭菌(Clostridium histolyticum)、泥渣梭菌(Clostridium limosum)和解朊梭菌(Clostridiumproteolyticum)重新归为溶组织哈撒韦氏菌(Hathewaya histolytica)、泥渣哈撒韦氏菌(Hathewaya limosa)和解朊哈撒韦氏菌(Hathewaya proteolytica),其中Hathewaya histolytica 为模式种。 相似文献
12.
The relationship between Litsea and related genera is currently unclear. Previous molecular studies on these taxa using cpDNA and nrITS were unable to produce
well-resolved phylogenetic trees. In this study, we explored the potential of the rpb2 gene as a source of molecular information to better resolve the phylogenetic analysis. Although rpb2 was believed to be a single-copy gene, our cloning results showed that most species examined possessed several copies of these sequences. However, the genetic distance
among copies from any one species was low, and these copies always formed monophyletic groups in our molecular trees. Our
phylogenetic analyses of rpb2 data resulted in better resolved tree topologies compared to those based on cpDNA or nrITS data. Our results show that monophyly
of the genus Litsea is supported only for section Litsea. As a genus, Litsea was shown to be polyphyletic. The genera Actinodaphne and Neolitsea were resolved as monophyletic groups in all analyses. They were also shown to be sisters and closer to the genus Lindera than to the genus Litsea. Our results also revealed that the genus Lindera is not a monophyletic group. 相似文献
13.
14.
The internal transcribed spacer (ITS1, 5.8S rDNA, and ITS2) region of nuclear ribosomal DNA (nrDNA) was sequenced from 53
species, which represent most of the living species diversity in the genus Phalaenopsis (Orchidaceae). A phylogeny was developed for the genus based on the neighbor-joining and maximum parsimony analyses of molecular
data. Results of these analyses provided support for the monophyly of the genus Phalaenopsis and concurred in that the genera Doritis and Kingidium should be treated as being parts of the genus Phalaenopsis as suggested by Christenson (2001). Within the genus Phalaenopsis, neither subgenera Aphyllae nor Parishianae were monophyletic, and they were highly clustered with subgenus Proboscidioides plus sections Esmeralda and Deliciosae of subgenus Phalaenopsis based on ITS data. Those species also have the same characters of morphology of four pollinia and similar biogeographies.
Furthermore, neither subgenus Phalaenopsis nor Polychilos was monophyletic. Within the subgenus Phalaenopsis, only section Phalaenopsis was highly supported as being monophyletic. As for the subgenus Polychilos, only section Polychilos was moderately supported as being monophyletic. In conclusion, the present molecular data obtained from the ITS sequence
of nrDNA of the genus Phalaenopsis provide valuable information for elucidating the phylogeny of this genus. 相似文献
15.
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. 相似文献
16.
Rebecca F. Johnson 《Zoologica scripta》2011,40(2):137-157
Johnson, R. F. (2010). Breaking family ties: taxon sampling and molecular phylogeny of chromodorid nudibranchs (Mollusca, Gastropoda). —Zoologica Scripta, 40, 137–157. Although researchers have debated the monophyly of the diverse chromodorid nudibranchs (Chromodorididae) for over 100 years, the monophyly of this family has not been properly tested. Recent morphological and molecular phylogenetic studies have added to the debate, but have not used appropriate methods to resolve this issue. I investigate how outgroup choice and taxon sampling influences tree topology and in turn the recovery of chromodorid monophyly. As a demonstration of these potential methodological problems, I then present phylogenies resulting from different taxon‐sampling schemes using the same molecular data. Taxon sampling has a strong influence on the resulting phylogenies. With comprehensive taxon sampling and outgroup selection, Cadlina is not a member of the Chromodorididae. The chromodorid nudibranchs without Cadlina are monophyletic and possibly sister to the Actinocyclidae. Additionally, I found, for the first time, support for most current family groupings in the Doridoidea. I propose a new classification in which Cadlina is not considered a member of the Chromodorididae. Instead, I resurrect the family name Cadlinidae to include the genera Cadlina and Aldisa. 相似文献
17.
Molecular phylogeny of Coniochaetales 总被引:1,自引:1,他引:0
Dania García Alberto M. Stchigel Jos Cano Misericordia Calduch David L. Hawksworth Josep Guarro 《Mycological Research》2006,110(11):1271-1289
18.
Phylogenetic analysis and trait evolution in Australian lineages of drywood termites (Isoptera, Kalotermitidae) 总被引:4,自引:0,他引:4
A phylogenetic analysis of Australian drywood termites (Isoptera, Kalotermitidae) based on partial sequence from the cytochrome oxidase II (COII) and cytochrome b genes is presented. In addition to providing new information on the evolutionary relationships among 25 species from seven genera, we evaluate the relative likelihoods of alternative topological hypotheses, including those derived from morphology-based classifications. We also test the applicability of a molecular clock for estimating the age of the Kalotermitidae and infer the evolution of species-specific variation for habitat type and soldier caste phragmosis by mapping this information onto the independently derived phylogeny. Maximum-likelihood analysis of both nucleotide and protein sequences from a multigene data set jointly support a single topology, which is shown to be the best estimate of the true phylogeny among the alternatives tested. Our results support the monophyly of all genera but question the discrimination between Procryptotermes and Cryptotermes. A basal dichotomy among generic groups suggests two principle lines of divergence within the family. Intergeneric relationships show mixed congruence to previous proposals, resulting in one morphology-based classification being rejected. A molecular clock hypothesis is not supported due to significant among-lineage rate heterogeneity in the COII gene. Patterns revealed through trait mapping suggest that the most recently diverged taxa tend to occupy the driest habitats and that these same taxa reflect a defensive transition away from large mandibulate soldiers toward small phragmotic soldiers. The association between habitat and defensibility supports the hypothesis that these two characters have been tightly linked throughout the social diversification of termites. 相似文献
19.
A higher-level phylogenetic classification of the Fungi 总被引:3,自引:3,他引:0
《Mycological Research》2007,111(5):509-547
A comprehensive phylogenetic classification of the kingdom Fungi is proposed, with reference to recent molecular phylogenetic analyses, and with input from diverse members of the fungal taxonomic community. The classification includes 195 taxa, down to the level of order, of which 16 are described or validated here: Dikarya subkingdom nov.; Chytridiomycota, Neocallimastigomycota phyla nov.; Monoblepharidomycetes, Neocallimastigomycetes class. nov.; Eurotiomycetidae, Lecanoromycetidae, Mycocaliciomycetidae subclass. nov.; Acarosporales, Corticiales, Baeomycetales, Candelariales, Gloeophyllales, Melanosporales, Trechisporales, Umbilicariales ords. nov. The clade containing Ascomycota and Basidiomycota is classified as subkingdom Dikarya, reflecting the putative synapomorphy of dikaryotic hyphae. The most dramatic shifts in the classification relative to previous works concern the groups that have traditionally been included in the Chytridiomycota and Zygomycota. The Chytridiomycota is retained in a restricted sense, with Blastocladiomycota and Neocallimastigomycota representing segregate phyla of flagellated Fungi. Taxa traditionally placed in Zygomycota are distributed among Glomeromycota and several subphyla incertae sedis, including Mucoromycotina, Entomophthoromycotina, Kickxellomycotina, and Zoopagomycotina. Microsporidia are included in the Fungi, but no further subdivision of the group is proposed. Several genera of ‘basal’ Fungi of uncertain position are not placed in any higher taxa, including Basidiobolus, Caulochytrium, Olpidium, and Rozella. 相似文献
20.
本文报道假尾孢属的一个新种:复叶耳蕨假尾孢(Pseudocercospora arachniodis Y.L. Guo, sp. nov.)和一个新组合:单叶藤桔假尾孢[ Pseudocercospora paramignyae(Thirum. & Chupp) Y.L. Guo, cobm. nov.]。新种生于鳞毛蕨科(Dryopteridaceae)复叶耳蕨属植物上,子实体生于叶背面,具小子座,分生孢子梗浅青黄色至青黄色,不分枝,一个隔膜,6.5-30.0 × 2.5-4.0 μm。分生孢子针形,短孢子呈倒棍棒形,浅青黄色,具不明显地3-11个隔膜,30.0-110.0 × 1.5-3.0 μm。假尾孢属在鳞毛蕨科是首次报道。文中对新种提供了拉丁文简介并绘图。研究的标本保藏在中国科学院微生物研究所真菌标本室(HMAS)。 相似文献