《菌物研究》2004年总目次

第　 1　期研究论文中国口蘑属种类名录邓　晖 ,姚一建 ,佩格勒D .N .( 1 )……………………………………………………棘状外瓶霉核糖体基因的初步研究李东明 ,李若瑜 ,王晓红 ,万　哲 ,马圣清 ,王端礼 ( 1 9)…………中国鳞伞属 (广义 )已知种类及其分布田恩静 ,图力古尔 ( 2     

国内首见三株棘状外瓶霉的研究

作者研究了国内首见的三株棘状外瓶霉[Exophiala spinifera(Nielsen et Conant)McGinms],观察了菌落形态,研究了此菌在光学显微镜下和扫描电镜下的特点,并作了外抗原试验。在光学显微镜下,本菌有暗色长棘状的分生孢子梗。在扫描电镜下,有很长的环痕梗,其尖端的环痕数目可达30个以上。有的环痕梗和甄氏外瓶霉[Exophiala jeanselmei(Langeron)McGinnis et Padhye]的环痕梗很相似。有些酵母样细胞上也可产生短的环痕产孢尖端。有一株菌的产孢细胞顶端有几个突起的环痕产孢尖端,呈假单轴性排列。另一株菌产生瓶梗。因此考虑此菌是一种多形性真菌。外抗原试验,一株菌符合棘状外瓶霉,另二株菌符合外瓶霉。     

致病性暗色霉的浆膜超微结构分类学意义初探

对致病性暗色霉中的着色霉(Fonsecaea Negroni)外瓶霉(Exophiala Charmichael)瓶霉(Phialophoro Medlar)中的五种真菌浆膜超微结构进行了冰冻蚀刻研究,发现裴氏着色霉(Fonsecaea pedrosoi)和紧密着色霉(F.compacta)的内折长而宽,较深,略有弯曲,数量少,多呈平行或垂直排列。皮炎外瓶霉(Exophiala dermatitidis)的内折数量多,密集而分布均匀,呈圆点状或圆棒状。棘状外瓶霉(Exophiala spinifera)的内折少而表浅,多为圆形。疣状瓶霉(Phialophora verrucosa)的内折数量,排列,形状无一定规律。据上述特征,着色霉可以与外瓶霉,疣状瓶霉区别开来,皮炎外瓶霉也可与棘状外瓶霉区分。浆膜超微结构的性状有一定的分类学意义。     

1株致体股癣的颗粒型红色毛癣菌变种的形态学观察与基因鉴定

目的：探讨1株致体股癣的颗粒型红色毛癣菌变种的形态学特点及核糖体基因序列变化。方法1例体股癣患者皮损中分离出1株红色毛癣菌,观察形态学特点,并用PCR测定核糖体转录间区（ITS）、D1/D2区、非转录区基因序列（NTS区）内串联重复亚单位（TRS）。结果该菌株可产生鹿角形菌丝,大分生孢子有中空现象及单侧出芽产孢特征,可在42℃生长;ITS和D1/D2区基因测序鉴定为红色毛癣菌,但TRS-1和TRS-2基因序列分别有2个、1个碱基差异。结论该菌株可能是颗粒型红色毛癣菌的1个变种。     

核糖体基因簇在真菌系统学研究中的意义

真菌作为一个古老的生物类群 ,在生物的遗传、演化中具有重要的作用和研究价值 ,真菌的系统学研究正越来越受到人们的关注。核糖体基因簇以其特殊的组成结构和演化方式在研究真菌的系统演化中具有不可替代的重要作用。1 .核糖体基因簇的结构真菌的核糖体ＲＮＡ基因簇既存在于细胞核内 ,又存在于线粒体中 ,由高度保守区和可变区组成 ,含有多个串联重复序列 ,每个重复序列包含 1 8Ｓ、5.8Ｓ、2 8ＳｒＤＮＡ结构基因区及其间隔区域 (图 1 )。在染色体上这 3个基因的转录间隔区 (ｉｎｔｅｒｎａｌｌｙｔｒａｎｓｃｒｉｂｅｄｓｐａｃ ｅｒｓ,Ｉ…     

棘孢木霉木聚糖酶Ⅰ基因和启动子克隆与分析

目的:克隆及分析棘孢木霉木聚糖酶Ⅰ结构基因和上游调控区,以获得内源启动子.方法:根据木霉属木聚糖酶Ⅰ结构基因及上游调控区的保守性,以棘孢木霉基因组DNA为模板,进行简并PCR扩增.产物纯化并克隆至T载体,经酶切鉴定后讲行序列分析.结果:扩增获得1.2 kb的片段,酶切鉴定及序列分析表明,该片段长1 265 bp,由753 bp的木聚糖酶Ⅰ结构基因和512 bp的上游调控区组成.结构基因编码230个氨基酸,具有糖基水解酶第11家族的典型保守区域.上游调控区具备核心启动子和转录起始点,有CAAT-Box、TATA-Box等启动子特征元件,分析其还有Cre Ⅰ、XlnR、Acel、AreA等多个转录因子结合位点.结论:克隆的512 bp上游调控区是典型的丝状真菌基因启动子,可作为内源启动子用于构建棘孢木霉高效外源基因表达系统.     

儿童孢子丝菌病的临床分析及致病菌的基因型检测

目的 对吉林省扶余县35例儿童孢子丝菌病进行临床分析并对部分菌株进行基因测定,了解该地区孢子丝菌病的致病菌菌株基因是否发生变异而致致病力增强及发病率增高.方法 收集2011年1月1日～4月30日来自扶余县就诊于我科并确诊为孢子丝菌病的患儿35例,进行临床分析;从中选取8株菌,对其核糖体保守区及内转录间隔区(ITS)、非转录间隔区(NTS)区进行基因测定,了解基因水平上的异同.结果 8株孢子丝菌菌株中5株NTS区可见较大范围的碱基缺失.结论 吉林省扶余县孢子丝菌菌株可能由于NTS区碱基较大范围缺失而致致病力增强,导致该地区短时间内发病率增高.     

核糖体基因ITS作为苎麻疫霉、恶疫霉分类辅助性状的研究*

以2个雄器大多围生、少数侧生的苎麻疫霉菌株与1个雄器侧生、偶有围生的恶疫霉菌株为材料,采用真菌核糖体基因转录间隔区（ITS）通用引物,PCR扩增3个供试菌株核糖体基因的ITS1和ITS2,并对PCR产物进行了克隆和序列分析。结果是苎麻疫霉的ITS1和ITS2分别由206和453个碱基组成, 而恶疫霉则分别由218和415个碱基组成。2个供试苎麻疫霉菌株的ITS1和ITS2的碱基序列同源性均分别为100%。苎麻疫霉和恶疫霉ITS1同源性为74.9%,其中中间区域40bp-164bp之间在两种间变异丰富,同源性只有59.4%,而1bp-39bp和165bp-239bp两区域的同源性分别为92.3%和92.1%; ITS2在两种疫霉菌间的同源性为71.0%。结果表明苎麻疫霉和恶疫霉ITS的碱基序列有明显差异。上述结果提示,ITS区域碱基序列可区分苎麻疫霉和恶疫霉。     

核糖体基因ITS作为苎麻疫霉、恶疫霉分类辅助性状的研究

以2个雄器大多围生、少数侧生的苎麻疫霉菌株与1个雄器侧生、偶有围生的恶疫霉菌株为材料,采用真菌核糖体基因转录间隔区（ITS）通用引物,PCR扩增3个供试菌株核糖体基因的ITS1和ITS2,并对PCR产物进行了克隆和序列分析。结果是苎麻疫霉的ITS1和ITS2分别由206和453个碱基组成,而恶疫霉则分别由218和415个碱基组成。2个供试苎麻疫霉菌株的ITS1和ITS2的碱基序列同源性均分别为100%。苎麻疫霉和恶疫霉ITS1同源性为74.9%,其中中间区域40bp-164bp之间在两种间变异丰富,同源性只有59.4%,而1bp-39bp和165bp-239bp两区域的同源性分别为92.3%和92.1%;ITS2在两种疫霉菌间的同源性为71.0%。结果表明苎麻疫霉和恶疫霉ITS的碱基序列有明显差异。上述结果提示,ITS区域碱基序列可区分苎麻疫霉和恶疫霉。     

人工锌指蛋白介导调控的里氏木霉纤维素酶生产

里氏木霉Trichoderma reesei Rut-C30是目前研究最广泛的纤维素酶生产菌,选育高产纤维素酶的里氏木霉菌株有助于提高木质纤维素资源生物炼制的经济性。利用人工锌指蛋白文库转化T.reeseiRut-C30,筛选获得了两株高产纤维素酶的突变株T. reesei M1和M2,与出发菌株比较,突变株M1和M2滤纸酶活分别提高100%和53%,且M1突变株外泌蛋白量提高69%,M2内切纤维素酶活提高64%。实时定量PCR分析结果表明,与对照菌株相比,突变株M1和M2中主要纤维素酶基因转录均上调,但不同酶基因在两株菌中有不同的变化特征。此外,纤维素酶抑制转录因子基因ace1在两株突变株中都转录下调,而纤维素酶正调控转录因子基因xyr1仅在M1突变株中上调。以上结果表明,不同人工锌指蛋白对纤维素酶活性的影响具有多样性。对这些突变体中人工锌指蛋白靶基因进行深入分析,为进一步深入探究里氏木霉纤维素酶合成调控的机理,以及利用代谢工程选育更高效的产酶菌株提供了基础。     

Genetic diversity of Acacia tortilis ssp. raddiana rhizobia in Tunisia assessed by 16S and 16S-23S rDNA genes analysis

AIMS: In order to understand the genetic diversity of Acacia tortilis ssp. raddiana-rhizobia in Tunisia, isolates from nine geographical locations were obtained and analysed. METHODS AND RESULTS: Characterization using restriction fragment length polymorphism analysis (RFLP) of PCR-amplified 16S rRNA gene and the intergenic spacer (IGS) between the 16S and 23S rRNA genes was undertaken. Symbiotic efficiency of the strains was also estimated. Analysis of the 16S rRNA by PCR-RFLP showed that the isolates were phylogenetically related to Ensifer ssp., Rhizobium tropicii-IIA, and Rhizobium tumefaciens species. Analysis of 16S-23S spacer by PCR-RFLP showed a high diversity of these rhizobia and revealed eleven additional groups, which indicates that these strains are genetically very diverse. Full 16S rRNA gene-sequencing showed that the majority of strains form a new subdivion inside the genera Ensifer, with Ensifer meliloti being its nearest neighbour. Nodulation test performed on the plant host demonstrated differences in the infectivity among the strains. CONCLUSION: Rhizobial populations that nodulate specifically and efficiently Acacia tortilis ssp. raddiana in representative soils of Tunisia is dominated by E. meliloti-like genomospecies. SIGNIFICANCE AND IMPACT OF THE STUDY: This paper provides the first clear characterization and symbiotic efficiency data of rhizobia strains nodulating A. tortilis in Tunisia.     

茶尺蠖和灰茶尺蠖内共生菌Wolbachia的分子检测及序列分析

【目的】对茶尺蠖Ectropis obliqua及其近缘种灰茶尺蠖E.grisescens体内共生菌Wolbachia进行分子鉴定,确定两者体内Wolbachia的感染率及其进化地位,为进一步探讨其对茶尺蠖和灰茶尺蠖的潜在影响提供科学依据。【方法】采用Wolbachia的16S r RNA、fts Z和wsp基因特异性引物,通过PCR扩增法检测了我国3个茶尺蠖地理种群(浙江杭州、余杭和江苏无锡)和3个灰茶尺蠖地理种群(浙江新昌、湖北浠水和江西南昌)中Wolbachia的感染情况,并进行测序和序列分析。【结果】茶尺蠖和灰茶尺蠖都感染了Wolbachia,灰茶尺蠖的Wolbachia感染率为100%,但茶尺蠖的Wolbachia感染率在22%~95%,且PCR产物电泳得到的条带微弱。wsp序列在茶尺蠖和灰茶尺蠖种间、种内无差异;但16S r RNA序列在茶尺蠖和灰茶尺蠖种间、种内差异为0.362%~0.727%之间;茶尺蠖样本未成功扩增出fts Z序列,灰茶尺蠖样本获得2条fts Z基因序列差异为1.647%。基于Wolbachia的16S r RNA和wsp基因构建的系统发育树表明,本研究中茶尺蠖和灰茶尺蠖种群所感染的Wolbachia全部属于B组的Pip亚组。【结论】茶尺蠖和灰茶尺蠖均被B组Pip亚组的Wolbachia感染,但感染率相差很大,这为研究Wolbachia对茶尺蠖和灰茶尺蠖生物学及生态学的影响奠定了基础。     

Identification of Erwinia stewartii by a ligase chain reaction assay.

A PCR-coupled ligase chain reaction (LCR) assay was developed to distinguish the plant pathogenic bacterium Erwinia stewartii from other erwiniae. This new technique allows discrimination to the species level on the basis of a single-base-pair difference in the 16S rRNA gene which is unique to E. stewartii. Portions of the 16S rRNA genes of E. stewartii and the closely related Erwinia herbicola were sequenced. From comparison of the two 16S rRNA gene regions, two primer pairs were constructed such that only E. stewartii DNA gave a product in the LCR assay. The ligated product was separated from the radioactively labelled primers by denaturing polyacrylamide gel electrophoresis and visualized by autoradiography. Twenty-four different Erwinia species and strains were tested by PCR-coupled LCR to verify the specificity of the assay, and only E. stewartii strains gave a positive reaction. In addition, infected and healthy plant material was also assayed. E. stewartii was detected in infected plant material, even when large populations of epiphytic bacteria were present. No enrichment was necessary for detection of the pathogen in corn leaves. This assay has potential as a diagnostic technique for the detection of E. stewartii in infected plant and vector material.     

Molecular phylogeny based on the 16S rRNA gene of elite rhizobial strains used in Brazilian commercial inoculants

Nitrogen is often a limiting nutrient, therefore the sustainability of food crops, forages and green manure legumes is mainly associated with their ability to establish symbiotic associations with stem and root-nodulating N2-fixing rhizobia. The selection, identification and maintenance of elite strains for each host are critical. Decades of research in Brazil resulted in a list of strains officially recommended for several legumes, but their genetic diversity is poorly known. This study aimed at gaining a better understanding of phylogenetic relationships of 68 rhizobial strains recommended for 64 legumes, based on the sequencing of the 16S rRNA genes. The strains were isolated from a wide range of legumes, including all three subfamilies and 17 tribes. Nine main phylogenetic branches were defined, seven of them related to the rhizobial species: Bradyrhizobium japonicum, B. elkanii, Rhizobium tropici, R. leguminosarum, Sinorhizobium meliloti/S. fredii, Mesorhizobium ciceri/M. loti, and Azorhizobium caulinodans. However, some strains differed by up to 35 nucleotides from the type strains, which suggests that they may represent new species. Two other clusters included bacteria showing similarity with the genera Methylobacterium and Burkholderia, and amplification with primers for nifH and/or nodC regions was achieved with these strains. Host specificity of several strains was very low, as they were capable of nodulating legumes of different tribes and subfamilies. Furthermore, host specificity was not related to 16S rRNA, therefore evolution of ribosomal and symbiotic genes may have been diverse. Finally, the great diversity observed in this study emphasizes that tropics are an important reservoir of N2-fixation genes.     

rRNA and nifD phylogeny of Bradyrhizobium from sites across the Pacific Basin

Many undomesticated legumes harbor nodule bacteria related to the soybean symbiont Bradyrhizobium elkanii, but little is known about their phylogenetic relationships or geographic distribution. Sequences of ribosomal genes (16S rRNA and partial 23S rRNA) and the nitrogenase alpha-subunit gene (nifD) were analyzed in 22 isolates of this group sampled from diverse legumes in Korea, Japan, the USA, Mexico, Costa Rica and Panama. Some strains from Asia and North America shared identical sequences for both ribosomal genes. However, pairs of strains with closely related nifD sequences were almost never found in different regions. The major exceptions involved North American isolates B. elkanii USDA 76 and USDA 94, which had nifD sequences highly similar to certain Korean strains. However, 16S rRNA sequences of USDA 76 and USDA 94 were closely related to Central American rather than Asian bradyrhizobia, implying that these strains are genetic mosaics combining sequences from distinct ancestral areas. Several other conflicts between rRNA and nifD tree topologies indicated that the genealogical histories of these loci have been influenced by recurrent lateral gene transfer events.     

Speciation in bacteria: comparison of the 16S rRNA gene for closely related Enterococcus species

Sequencing of the 16S rRNA genes from enterococcal strains used as starters suggested the existence of specialized taxa of lactic acid enterococci within the species Enterococcus durans and E. faecium and a new species, E. lactis. Comparisons showed that the 16S rRNA genes of closely related species have the same sets of variable positions with different combinations of nucleotides. The presence of identical combinations of nucleotide substitutions in different species was assumed to result from a transfer of genetic information via gene conversion between different rRNA operons. Such events were presumably associated with speciation in bacteria.     

Genetic diversity among Botulinum Neurotoxin-producing clostridial strains

Clostridium botulinum is a taxonomic designation for many diverse anaerobic spore-forming rod-shaped bacteria that have the common property of producing botulinum neurotoxins (BoNTs). The BoNTs are exoneurotoxins that can cause severe paralysis and death in humans and other animal species. A collection of 174 C. botulinum strains was examined by amplified fragment length polymorphism (AFLP) analysis and by sequencing of the 16S rRNA gene and BoNT genes to examine the genetic diversity within this species. This collection contained representatives of each of the seven different serotypes of botulinum neurotoxins (BoNT/A to BoNT/G). Analysis of the16S rRNA gene sequences confirmed previous identifications of at least four distinct genomic backgrounds (groups I to IV), each of which has independently acquired one or more BoNT genes through horizontal gene transfer. AFLP analysis provided higher resolution and could be used to further subdivide the four groups into subgroups. Sequencing of the BoNT genes from multiple strains of serotypes A, B, and E confirmed significant sequence variation within each serotype. Four distinct lineages within each of the BoNT A and B serotypes and five distinct lineages of serotype E strains were identified. The nucleotide sequences of the seven toxin genes of the serotypes were compared and showed various degrees of interrelatedness and recombination, as was previously noted for the nontoxic nonhemagglutinin gene, which is linked to the BoNT gene. These analyses contribute to the understanding of the evolution and phylogeny within this species and assist in the development of improved diagnostics and therapeutics for the treatment of botulism.     

Phylogeny and genetic diversity of native rhizobia nodulating common bean (Phaseolus vulgaris L.) in Ethiopia

The diversity and phylogeny of 32 rhizobial strains isolated from nodules of common bean plants grown on 30 sites in Ethiopia were examined using AFLP fingerprinting and MLSA. Based on cluster analysis of AFLP fingerprints, test strains were grouped into six genomic clusters and six single positions. In a tree built from concatenated sequences of recA, glnII, rpoB and partial 16S rRNA genes, the strains were distributed into seven monophyletic groups. The strains in the groups B, D, E, G1 and G2 could be classified as Rhizobium phaseoli, R. etli, R. giardinii, Agrobacterium tumefaciens complex and A. radiobacter, respectively, whereas the strains in group C appeared to represent a novel species. R. phaseoli, R. etli, and the novel group were the major bean nodulating rhizobia in Ethiopia. The strains in group A were linked to R. leguminosarum species lineages but not resolved. Based on recA, rpoB and 16S rRNA genes sequences analysis, a single test strain was assigned as R. leucaenae. In the nodC tree the strains belonging to the major nodulating groups were clustered into two closely linked clades. They also had almost identical nifH gene sequences. The phylogenies of nodC and nifH genes of the strains belonging to R. leguminosarum, R. phaseoli, R. etli and the putative new species (collectively called R. leguminosarum species complex) were not consistent with the housekeeping genes, suggesting symbiotic genes have a common origin which is different from the core genome of the species and indicative of horizontal gene transfer among these rhizobia.