基于ITS和ndhF-rpl32序列的荞麦种间亲缘关系分析

荞麦起源于我国, 演化形成了丰富的物种和遗传多样性。为了有效研究和利用荞麦及其野生种资源, 以从四川、甘肃、贵州等地采集的荞麦属(Fagopyrum)10个种(含变种、亚种和复合体种)共71份材料为对象, 通过ITS和叶绿体ndhF-rpl32序列分析, 利用MEGA5.0构建系统进化树, 探讨了荞麦种内及种间亲缘关系。结果表明, 在ITS序列矩阵中, 序列长度为725 bp, 信息位点为150个, 占序列总长度的20.7%; 在ndhF-rpl32序列矩阵中, 序列长度为940 bp, 信息位点为158个, 占序列总长度的16.8%。由ITS序列和ndhF-rpl32序列构建的两个进化树都可以将71份材料分为大粒荞麦种组和小粒荞麦种组; 其中, 大粒荞麦种组包括栽培苦荞和米苦荞(F. tataricum)、金荞复合体(F. cymosum complex)、栽培甜荞(F. esculentum)和野生甜荞(F. esculentum ssp. ancestralis); 小粒荞麦种组包括齿翅野荞(F. gracilipes var. odontopterum)、疏穗小野荞(F. leptopodum var. grossii)、小野荞(F. leptopodum)、密毛野荞(F. densovillosum)、细柄野荞(F. gracilipes)和硬枝万年荞(F. urophyllum)。而ndhF-rpl32序列构建的系统发育树还能区分栽培甜荞和野生甜荞, 具有更好的聚类效果。另外, 与栽培甜荞相比, 金荞复合体与栽培苦荞的亲缘关系更近。该研究为荞麦属种的分类和条形码研究提供了一定的科学依据。     

中国甘肃省狭义丝盖伞属二新种

依据形态学和分子系统学研究结果,描述了产自中国甘肃省的狭义丝盖伞属2个新种,即拟黄囊丝盖伞Inocybe muricellatoides和甘肃丝盖伞I. gansuensis。对新种的ITS、LSU和rpb2片段进行了测序和分析,并提供了详细描述、线条图、生态照片及与相似种的区别。拟黄囊丝盖伞以菌盖翘起的鳞片、菌柄纤维状、孢子光滑和厚壁的侧生囊状体为主要识别特征。甘肃丝盖伞具有粗壮的子实体、较大的孢子和厚壁侧生囊状体。基于LSU和rpb2联合数据的分子系统发育分析显示这两个新种隶属于狭义丝盖伞属且分别占据独特的分支。     

用于灵芝属10个物种快速鉴定的DNA条形码筛选与验证

灵芝栽培品种常出现同名异物或同物异名的现象,依赖于灵芝的形态学特征鉴定物种的传统分类方法不足以鉴定物种的种间和种内差异。为开发简便而准确的分子水平灵芝属物种鉴定方法,以常用于种属鉴定的核糖体内转录间隔区（ITS）、微管蛋白基因（β-tubulin）片段、大亚基核糖体DNA(LSU)片段和基因编码RNA聚合酶Ⅱ第二大亚基（RPB2）片段4个DNA条形码,对灵芝属10个物种的44份菌株进行PCR扩增和测序,比较4个条形码的扩增成功率和变异率,根据种内、种间遗传距离差异分析筛选特异性的DNA条形码间隔（DBG）,并利用单独及联合条形码构建系统发育树验证筛选的DBG鉴定灵芝属物种的准确性。研究结果表明：β-tubulin和LSU片段的PCR扩增成功率均达100%,ITS和RPB2片段分别为95.35%和90.91%;对比ITS和LSU片段,β-tubulin和RPB2片段的种内最大遗传距离分别小于各自的种间最小遗传距离,存在明显的DBG,有利于准确对物种进行种间鉴定;利用ITS、β-tubulin和RPB2片段分别构建的系统发育树均能使灵芝属10个物种的所有个体聚为1个单系分支,而LSU片段不...     

山西太行山地区铦囊蘑属两新种

铦囊蘑属Melanoleuca属于担子菌门Basidiomycota伞菌纲Agaricomycetes伞菌目Agaricales,因该属很多种类都是重要的食用菌而受到广泛关注。本文报道了在山西太行山地区发现的该属2个新种,即浅灰铦囊蘑Melanoleuca grisea和近白柄铦囊蘑M. subleucopoda。通过形态学特征、ITS和RPB2基因序列的分子系统发育分析结果,确定了其分类地位,并讨论了它们与铦囊蘑属内相关物种的形态学和系统发育关系。     

中国丝盖伞属凹孢亚属的分类与分子系统

结合形态学和分子系统学资料,对我国丝盖伞属凹孢亚属Inocybe subgen.Inosperma进行了分类学研究。确认该亚属8个分类群在中国的分布,并编制了分种检索表,包括3个中国新记录种:新褐丝盖伞Inocybe neobrunnescens、淀粉味丝盖伞I.quietiodor、蜡盖丝盖伞I.lanatodisca。根据采集的材料对此3种进行了形态学描述和绘图,并基于ITS序列,采用贝叶斯法分析了与之相近物种之间的系统学关系。基于n LSU序列重建了我国丝盖伞属凹孢亚属系统发育树,进一步分析和讨论了我国该亚属物种与欧洲和北美的近缘种之间的区别和联系,初步认为裂盖组为非单系群。     

中国西南高黎贡山绿僵菌物种多样性及其垂直分布特征

云南高黎贡山具有多样化的生态系统和生物资源。为探清该地区绿僵菌属(Metarhizium)真菌的物种多样性及其不同海拔的垂直分布特征, 沿海拔梯度(600-3,800 m)在7种典型植被类型(I: 干热河谷; II: 季风常绿阔叶林; III: 暖性针叶林; IV: 中山暖性常绿阔叶林; V: 山地苔藓矮林; VI: 寒温性灌丛或草甸; VII: 流石滩稀疏植被)中调查绿僵菌资源。从生境土壤中分离菌株, 通过多基因(nrSSU、nrLSU、EF-1α、RPB1和RPB2)系统发育分析进行物种鉴定。结果表明, 高黎贡山绿僵菌物种资源丰富, 获得的161株菌株分属于12个物种(Metarhizium rileyi, M. viridulum, M. lepidiotae, M. brunneum, M. pingshaense, M. anisopliae, M. robertsii, M. guizhouense, M. indigoticum, M. pemphigi, M. campsosterni和Metacordyceps neogunnii), 其中M. indigoticum为中国新记录种, M. anisopliae complex中的物种(8种)较集中; 同时还采集到了绿僵菌的近缘属Nigelia属物种N. martiale。高黎贡山绿僵菌广泛分布于除类型VII (海拔3,600-3,800 m)外的6种植被类型(海拔600-3,400 m)中。中低海拔植被类型(I-IV)中菌株数量较多(≥23株)、物种多样性较高(4-9种), 而高海拔植被类型(V-VI)中菌株数量较少(2-8株)、物种较单一(1-2种)。中海拔的常绿阔叶林中绿僵菌资源最丰富, 其中季风常绿阔叶林(植被类型II)中的菌株数量(52株, 占总数的32.3%)和物种数(9种)最多; 中山湿性常绿阔叶林(植被类型IV)为其次(47株, 占总数的29.2%; 7种)。高黎贡山绿僵菌优势种现象明显, M. brunneum为最优势物种, 其菌株数占总数的46.6%, 在生境条件差异很大的6种植被类型(I-VI)中都存在, 说明该物种生态适应能力最强。     

冬菇属的新变种和中国新记录种（英文）

冬菇属Flammulina真菌是重要的食用菌,在东亚广为栽培。基于形态特征及内转录间隔区(ITS)序列分析,报道了该属真菌的两个新变种——冬菇丝盖变种F.velutipes var.filiformis和冬菇喜玛拉雅变种F.velutipes var.himalayana,以及中国的一个新记录种——杨树冬菇F.populicola。提供了中国冬菇属已知物种和变种的形态描述、生境照片及检索表。     

中国丝盖伞属裂盖组的三个新种

丝盖伞属裂盖组Inocybe sect. Rimosae sensu lato是一个分类难度较大的类群,组内的一些种类被认为是复合种。分子系统发育分析表明该组并非单系群,该组成员隶属于丝盖伞科下的2个属级分支,Inosperma分支和Pseudosperma分支。本文结合形态学特征和分子序列分析,对我国丝盖伞属裂盖组进行了分类学研究,发现3个新种：长白丝盖伞Inocybe changbaiensis、新茶褐丝盖伞I. neoumbrinella和云南丝盖伞I. yunnanensis。长白丝盖伞和新茶褐丝盖伞产自中国东北,前者生于针阔混交林下,后者生于柳树林下;云南丝盖伞产自云南省昆明市,生于阔叶树下。基于LSU序列的系统发育分析结果显示,长白丝盖伞隶属于Inosperma分支,新茶褐丝盖伞和云南丝盖伞隶属于Pseudosperma分支。本文对此进行了形态描述和特征图示,并讨论了新种与近缘种之间的异同。编制了中国丝盖伞属裂盖组已知种类的分种检索表。     

基于孢子形态和分子证据探讨鳞盖蕨属(碗蕨科)系统分类

孢粉学是解决植物分类中疑难类群物种微形态分化的重要方法, 随着分子系统学的发展, 结合这两门学科的优势可以更加有效地解决疑难类群的分类学问题。鳞盖蕨属(Microlepia)是一个分类困难的疑难类群, 采用孢粉学与分子系统学一一对应的方法, 以及居群取样方式, 选取280份样本, 联合4个叶绿体片段(rbcL、trnL-F、psbA-trnH和rps4), 采用最大似然法和贝叶斯法构建该属的系统发生关系, 在此基础上对凭证标本中100份材料的孢子进行观察和分析。综合分子系统学和孢粉学的研究结果, 得出结论: (1) 在形态学研究中广泛被接受的15个物种得到了单系支持, 并厘清了分类困难的复合群; (2) 发现边缘鳞盖蕨(M. marginata)可能存在隐性种; (3) 建议恢复过去归并处理为异名的瑶山鳞盖蕨(M. yaoshanica)、罗浮鳞盖蕨(M. lofoushanensis)、四川鳞盖蕨(M. szechuanica)以及滇西鳞盖蕨(M. subspeluncae); (4) 提出鳞盖蕨属可能存在杂交现象; (5) 提出鳞盖蕨属完整的属下分类建议。     

青海湖地区狗獾分类地位和狗獾属进化历史探讨

本研究选择线粒体细胞色素b (cytochrome b, Cyt b)和控制区(control region, CR)片段作为分子标记, 探讨了青海湖地区狗獾(Meles sp.)的系统发育地位和狗獾属分歧时间。研究结果支持目前将狗獾属分为4个种的结论。Cyt b和CR片段序列拼接后总长1,652 bp, 23条序列共定义了21个单倍型。研究结果表明欧亚大陆狗獾分为东西两个支系, 每个支系进一步分为两个种: 东部支系包括亚洲狗獾(M. leucurus)和日本狗獾(M. anakuma); 西部支系包括欧洲狗獾(M. meles)和西南亚狗獾(M. canescens)。贝叶斯树和单倍型网络关系图都支持青海湖地区狗獾属于亚洲狗獾。分歧时间的估算结果与古生物学证据相符, 东部支系和西部支系在2.24 Ma左右产生分歧, 西南亚狗獾在1.27 Ma左右从欧洲狗獾分出, 而日本狗獾和亚洲狗獾的分化时间为0.99 Ma左右。     

Torulaspora maleeae sp. nov., a novel ascomycetous yeast species from Japan and Thailand

Nine strains of a new Torulaspora species were isolated from natural samples collected in Japan and Thailand including one strain obtained from a leaf of Rhizophora stylosa (NBRC 11061T), one strain from soil (NBRC 11062), six strains from mosses (ST-14, ST-266, ST-510, ST-511, ST-513 and ST-581) and one strain from sediment in mangrove forest (RV-51). On the basis of morphological, biochemical, physiological and chemotaxonomic characteristics, and the sequence analyses of the D1/D2 domain of the large subunit (LSU) rRNA gene and the internal transcribed spacer (ITS) (ITS1-5.8S rRNA gene-ITS2) region, the nine strains were found to represent a single novel species of the genus Torulaspora, which were named Torulaspora maleeae sp. nov. The type strain is NBRC 11061T (BCC 25515T=CBS 10694T). In the phylogenetic trees based on the sequences of the D1/D2 domain of the LSU rRNA gene, T. maleeae showed a close relationship with the five recognized species of the genus Torulaspora, Torulaspora delbrueckii, Torulaspora franciscae, Torulaspora globosa, Torulaspora microellipsoides and Torulaspora pretoriensis. Torulaspora maleeae differed from the five recognized species of the genus Torulaspora by six to 12 nucleotide substitutions (1.1-2.1%) in the D1/D2 domain of the LSU rRNA gene and by 6.4-11.7% nucleotide substitutions in the ITS (ITS1-5.8S rRNA gene-ITS2) region.     

Wickerhamomyces edaphicus sp. nov. and Pichia jaroonii sp. nov., two ascomycetous yeast species isolated from forest soil in Thailand

Four yeast strains were isolated from soil in a mixed deciduous forest in Amphoe Wang Nam Khiao, Nakhon Ratchasima province, Thailand. On the basis of morphological, biochemical, physiological and chemotaxonomic characteristics, and the sequence analyses of the D1/D2 domain of the large-subunit (LSU) rRNA gene, small-subunit rRNA gene and internal transcribed spacer (ITS) region, the three strains (S-29, S-63 and S-80) were found to represent a single species of the genus Wickerhamomyces , which were named Wickerhamomyces edaphicus sp. nov. The type strain is S-29^T (BCC 21231^T=NBRC 101969^T=CBS 10408^T). Strain S-75 represented a novel species of the genus Pichia on the basis of morphological, biochemical, physiological and chemotaxonomic characteristics, and the sequence analyses of the D1/D2 domain of the LSU rRNA gene, for which the name Pichia jaroonii sp. nov. is proposed. The type strain is S-75^T (BCC 23061^T, NRBC 102180^T=CBS 10930^T).     

蜗孢属两个新种和一个中国新记录

蜗孢属隶属于子囊菌门Ascomycota毛筒壳科Tubeufiaceae,它们形态特征独特,能够产生多种活性次级代谢产物,具有一定的应用前景。本研究从中国海南省采集的腐木标本上分离到3种卷旋型丝孢真菌,通过ITS、LSU、RPB2和TEF1α多基因系统发育分析证据结合形态学特征,确定了它们的分类地位。结果表明,其中2个物种为蜗孢属新种,1个物种为中国新记录。为纪念李玉院士在中国菌物学界做出的贡献,本文特将其中一个新物种命名为李玉蜗孢菌。     

中国巢鼠属分类与分布的讨论

巢鼠属(Micromys Dehne, 1841)隶属于啮齿目(Rodentia)鼠科(Muridae),是最小的啮齿动物之一。此前的研究显示该属包含巢鼠(M. minutus)和红耳巢鼠(M. erythrotis)两个物种,但由于数据缺乏,红耳巢鼠的有效种地位仍存争议,且两个物种在中国的地理分布也不确定。本研究在安徽清凉峰国家级自然保护区采集到一批巢鼠属标本,经形态与分子学鉴定发现其包含巢鼠和红耳巢鼠两个物种,它们在清凉峰海拔1 600 m处同域分布,支持红耳巢鼠的有效种地位。基于安徽清凉峰巢鼠和红耳巢鼠的外形特点,本文对国家动物标本资源库的巢鼠属照片进行了分析,并结合相关文献资料,对中国巢鼠属的地理分布进行了整理,同时绘制了地理分布图。结果显示:在我国巢鼠主要分布在黑龙江、吉林、辽宁、内蒙古、河北、陕西、甘肃、新疆、江苏、安徽、浙江、湖南、江西、广东、福建、台湾;红耳巢鼠主要分布在云南、四川、陕西、湖北、西藏、贵州、重庆、安徽、福建、广西;两者在安徽清凉峰和陕西镇巴县、城固县皆有分布。此外,分子系统学分析显示,我国巢鼠属多样性仍被低估,极有可能存在未知的分类单元,巢鼠属的分类研究...     

Systematics of Mukdenia and Oresitrophe (Saxifragaceae): Insights from genome skimming data

Oresitrophe and Mukdenia (Saxifragaceae) are epilithic sister genera used in traditional Chinese medicine. The taxonomy of Mukdenia, especially of M. acanthifolia, has been controversial. To address this, we produced plastid and mitochondrial data using genome skimming for Mukdenia acanthifolia and Mukdenia rossii, including three individuals of each species. We assembled complete plastomes, mitochondrial CDS and nuclear ribosomal ETS/ITS sequences using these data. Comparative analysis shows that the plastomes of Mukdenia and Oresitrophe are relatively conservative in terms of genome size, structure, gene content, RNA editing sites and codon usage. Five plastid regions that represent hotspots of change (trnH-psbA, psbC-trnS, trnM-atpE, petA-psbJ and ccsA-ndhD) are identified within Mukdenia, and six regions (trnH-psbA, petN-psbM, trnM-atpE, rps16-trnQ, ycf1 and ndhF) contain a higher number of species-specific parsimony-informative sites that may serve as potential DNA barcodes for species identification. To infer phylogenetic relationships between Mukdenia and Oresitrophe, we combined our data with published data based on three different datasets. The monophyly of each species (Oresitrophe rupifraga, M. acanthifolia and M. rossii) and the inferred topology ((M. rossii, M. acanthifolia), O. rupifraga) are well supported in trees reconstructed using the complete plastome sequences, but M. acanthifolia and M. rossii did not form a separate clade in the trees based on ETS + ITS data, while the mitochondrial CDS trees are not well-resolved. We found low recovery of genes in the Angiosperms353 target enrichment panel from our unenriched genome skimming data. Hybridization or incomplete lineage sorting may be the cause of discordance between trees reconstructed from organellar and nuclear data. Considering its morphological distinctiveness and our molecular phylogenetic results, we strongly recommend that M. acanthifolia be treated as a distinct species.     

Phylogeny of the lichen genus Placopsis and its allies based on Bayesian analyses of nuclear and mitochondrial sequences

The phylogenetic relationships of the lichen genus Placopsis and related genera in the Agyriales were analyzed using molecular data. We obtained a total of 66 new sequences from the nuclear ITS, LSU and the mitochondrial SSU rDNA. Phylogenetic analyses were conducted in a Bayesian and a maximum-parsimony framework. Our analyses show that Placopsis is paraphyletic with members of Orceolina nesting within the genus. A morphological character supporting the Placopsis-Orceolina clade is the non-amyloid ascus. The section Aspiciliopsis as defined by sunken fruiting bodies is not supported, but the type species of Aspiciliopsis is more closely related to Orceolina. This clade shares apothecia with reduced amphithecia as apomorphic character. We suggest resurrecting the generic name Aspiciliopsis. Trapelia is the sister genus to Placopsis and Aspiciliopsis/Orceolina.     

Ribosomal DNA phylogenies of Cyathus: is the current infrageneric classification appropriate?

Phylogenetic relationships within the genus Cyathus (bird's nest fungi) were investigated with neighbor joining, maximum likelihood, weighted maximum parsimony and MrBayes analyses of ITS and LSU ribosomal DNA sequences datasets. Twenty-two taxa of Cyathus were used in the analyses based primarily on type and authentic specimens. The current infrageneric classification system of Brodie recognizes seven infrageneric groups based on morphological characters, including peridium plications and variations in peridium hair anatomy, peridiole structure and fruit-body color. These groups are not supported by molecular data. Instead the ITS and LSU datasets support recognition of three infrageneric groups herein named the ollum, pallidum and striatum groups. Morphological characters useful in distinguishing these groups include basidiospore size, fruit-body coloration and peridium anatomy. Cyathus africanus var. latisporus is considered a synonym of Cyathus jiayuguanensis, and a new combination Cyathus lanatus (Brodie) R.L. Zhao is proposed based on morphological and molecular data.     

草木樨属(Melilotus)九个种的核型比较研究

豆科草木樨属(Mclilotus)植物共约20种,主要分布于中亚、欧洲和北非。我国产7种。该属植物经济价值较高,是优良的牧草和绿肥作物。此外,由于其适应性强,也是水土保持和改良天然草场和重要植物资源。     

First report of the photosynthetic dinoflagellate genus Azadinium in the Pacific Ocean: morphology and molecular characterization of Azadinium cf. poporum

A strain of a dinoflagellate belonging to the genus Azadinium was obtained by the incubation of sediments collected from Shiwha Bay, Korea. This report of the genus Azadinium is the first outside of northern Europe and furthermore from the Pacific Ocean. The diagnostic morphological features of the isolate very closely resemble the recently described species Azadinium poporum isolated from the North Sea. However, the shape of the 3' apical plate and the occasional morphological variations unreported from A. poporum bring minor distinctions between strains from different locations. The DNA sequences of small subunit, ITS, and large subunit (LSU) rDNA differed by 0.2%, 2.6%, and 3.6%, respectively, from those of A. poporum, whereas the COI gene was identical to those found in all strains of Azadinium. Phylogenetic analyses of the ribosomal DNA regions generally positioned the Korean strain as a sister taxon of A. poporum. However, the Korean isolate tends to occupy a basal position within Azadinium species with ITS rDNA and LSU rDNA. Using liquid chromatography coupled with tandem mass spectrometry, no known azaspiracids were detected. The slight but discernible morphological differences, the distinct rDNA sequences, and the tendency of the Korean strain to diverge phylogenetically based on ITS rDNA and LSU rDNA from A. poporum do not enable us to clearly assign the isolate to A. poporum. However, these characteristics do not allow us to classify it as a distinct species, and it is therefore designated as Azadinium cf. poporum. The examination of more strains to find more diagnostic characteristics might enable the attribution of this material to a well-defined taxonomic position.