A proposed taxonomy of anaerobic fungi (class neocallimastigomycetes) suitable for large-scale sequence-based community structure analysis.
A proposed taxonomy of anaerobic fungi (class neocallimastigomycetes) suitable for large-scale sequence-based community structure analysis.
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DOI：
10.1371/journal.pone.0036866
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发表时间：
2012
期刊：
影响因子：
3.7
通讯作者：
Janssen PH
中科院分区：
文献类型：
--
作者：
Kittelmann S;Naylor GE;Koolaard JP;Janssen PH
厌氧真菌是瘤胃中纤维植物材料分解的关键参与者，但对反刍动物中真菌群落的组成和稳定性知之甚少。我们分析了53个瘤胃样品中的厌氧真菌从养殖羊（4个不同的羊群），牛，鹿喂养的各种饮食。rrn操纵子的内部转录间隔区1（ITS1）区域的变性梯度凝胶电泳指纹图谱显示，所有样品中厌氧真菌真菌的种类具有高度多样性。ITS 1区域的克隆库是由来自11个具有明显不同真菌群落的瘤胃样本的DNA构建的。总共产生了417个新序列，以扩大可用的ITS1序列的数量和多样性。新西兰反刍动物厌氧真菌的主要系统发育类群属于Piromyces属、Neocallimastix属、Caecomyces属和Orpinomyces属。此外，获得了形成四个新分支的序列，这可能代表了迄今未发现的厌氧真菌属或种。我们提出了一个修订的厌氧真菌的遗传学和实用的分类，这是经过测试，并证明适合于分析来自高通量的下一代测序方法的数据集。将我们修订的分类学与GenBank数据库中保存的序列的分类学分配进行比较，我们认为>29%的来自厌氧真菌分离物或克隆的ITS1序列在属水平上被错误命名。
Anaerobic fungi are key players in the breakdown of fibrous plant material in the rumen, but not much is known about the composition and stability of fungal communities in ruminants. We analyzed anaerobic fungi in 53 rumen samples from farmed sheep (4 different flocks), cattle, and deer feeding on a variety of diets. Denaturing gradient gel electrophoresis fingerprinting of the internal transcribed spacer 1 (ITS1) region of the rrn operon revealed a high diversity of anaerobic fungal phylotypes across all samples. Clone libraries of the ITS1 region were constructed from DNA from 11 rumen samples that had distinctly different fungal communities. A total of 417 new sequences were generated to expand the number and diversity of ITS1 sequences available. Major phylogenetic groups of anaerobic fungi in New Zealand ruminants belonged to the genera Piromyces, Neocallimastix, Caecomyces and Orpinomyces. In addition, sequences forming four novel clades were obtained, which may represent so far undetected genera or species of anaerobic fungi. We propose a revised phylogeny and pragmatic taxonomy for anaerobic fungi, which was tested and proved suitable for analysis of datasets stemming from high-throughput next-generation sequencing methods. Comparing our revised taxonomy to the taxonomic assignment of sequences deposited in the GenBank database, we believe that >29% of ITS1 sequences derived from anaerobic fungal isolates or clones are misnamed at the genus level.
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影响因子：
4.2
作者：
Denman, Stuart E.;McSweeney, Christopher S.
通讯作者：
McSweeney, Christopher S.
DOI：
10.1073/pnas.0807920105
发表时间：
2008-11-18
影响因子：
11.1
作者：
Fierer, Noah;Hamady, Micah;Knight, Rob
通讯作者：
Knight, Rob
DOI：
10.1139/b91-246
发表时间：
1991-09-01
期刊：
CANADIAN JOURNAL OF BOTANY-REVUE CANADIENNE DE BOTANIQUE
影响因子：
--
作者：
DORE, J;STAHL, DA
通讯作者：
STAHL, DA
影响因子：
2.8
作者：
HO, YW;BARR, DJS
通讯作者：
BARR, DJS
影响因子：
2.8
作者：
Brookman, JL;Mennim, G;Tuckwell, DS
通讯作者：
Tuckwell, DS