Evolutionary studies of ectomycorrhizal fungi: recent advances and future directions
Evolutionary studies of ectomycorrhizal fungi: recent advances and future directions
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DOI：
10.1139/b04-021
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发表时间：
2004-08-01
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影响因子：
--
通讯作者：
Shefferson, RP
中科院分区：
文献类型：
--
作者：
Bruns, TD;Shefferson, RP
在过去几年中，真菌分子系统发育的三个最大进展是：(1)数据集的巨大扩展，(2)用于系统发育分析的非核糖体位点的发展，以及(3)越来越复杂的分析类型的使用。此外，并行计算的进步为分析速度的大幅提高带来了巨大的希望。这些变化已经或将通过使用基于序列的鉴定对菌根生态产生直接影响，并通过从这些研究中得出的结论产生间接影响。该领域的一个问题是，通过各种手段，包括聚合酶变化反应污染，意外地将错误序列添加到公共数据库中。我们讨论了几个例子，提出了识别错误的方法，并对序列的第三方注释进行了论证。多项研究已经产生了令人信服的证据，表明在真菌和植物的多个谱系中，外生菌根习惯已经趋同地发展起来。我们重新检查的情况下，失去外生菌根的习惯在真菌和表明，结果是依赖于模型。
The three biggest advances in fungal molecular phylogenetics in the last few years have been (1) the huge expansion in data sets, (2) the development of nonribosomal loci for phylogenetic analysis, and (3) the use of increasingly sophisticated types of analyses. In addition, advances in parallel computing hold great promise for dramatic increases in speed of analysis. These changes have had, or will have, a direct impact on mycorrhizal ecology through the use of sequence-based identification and an indirect impact through the conclusions drawn from such studies. One problem in the field has been the accidental addition of erroneous sequences to the public databases through a variety of means, including polymerase change reaction contamination. We discuss several examples, suggest ways to identify errors, and argue the case for third-party annotations of sequences. Multiple studies have produced compelling evidence that the ectomycorrhizal habit has developed convergently in multiple lineages of fungi and plants. We reexamine the case for loss of the ectomycorrhizal habit in fungi and show that the results are model dependent.