mothur

A missing reference for the one-gap method

On the wiki page of (https://www.mothur.org/wiki/Dist.seqs), it was mentioned that [The length of the shorter sequence is 10 nt, since the gap is considered as a single position. Therefore the distance would be 3/10 or 0.30. This is the distance calculating method employed by Sogin et al. (1995).]

However, I could not find this article published in 1995. I read the article of (The Effects of Alignment Quality, Distance Calculation Method, Sequence Filtering, and Region on the Analysis of 16S rRNA Gene-Based Studies). The Sogin et al. (1995) does not appear in the references section .

Hi,

That should be this paper…

Sogin ML, Morrison HG, Huber JA, Welch DM, Huse SM, et al. (2006) Microbial diversity in the deep sea and the underexplored “rare biosphere”. Proc Natl Acad Sci U S A 103: 12115–12120.

Pat

Thanks a lot for the clarification!

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