Giribet G, Wheeler W C
Department of Invertebrates, American Museum of Natural History, Central Park West at 79th Street, New York, New York 10024, USA.
Mol Phylogenet Evol. 1999 Oct;13(1):132-43. doi: 10.1006/mpev.1999.0643.
Gaps result from the alignment of sequences of unequal length during primary homology assessment. Viewed as character states originating from particular biological events (mutation), gaps contain historical information suitable for phylogenetic analysis. The effect of gaps as a source of phylogenetic data is explored via sensitivity analysis and character congruence among different data partitions. Example data sets are provided to show that gaps contain important phylogenetic information not recovered by those methods that omit gaps in their calculations. However, gap cost schemes are arbitrary (although they must be explicit) and thus data exploration is a necessity of molecular analyses, while character congruence is necessary as an external criterion for hypothesis decision.
在初步同源性评估期间，长度不等的序列比对会产生空位。空位被视为源自特定生物学事件（突变）的特征状态，包含适合系统发育分析的历史信息。通过敏感性分析以及不同数据分区之间的特征一致性，探讨了空位作为系统发育数据来源的影响。提供了示例数据集，以表明空位包含重要的系统发育信息，而那些在计算中忽略空位的方法无法获取这些信息。然而，空位成本方案是任意的（尽管必须明确），因此数据探索是分子分析的必要条件，而特征一致性作为假设判定的外部标准是必不可少的。
