[Taxacom] DNA contamination

[John Grehan]

The problem here is what is a 'weird outlier'. Morphogenetically the
chimpanzee is a weird outlier (i.e. its morphogenetically incongruent
with a close relationship with humans given the virtual absence of
uniquely shared characters) relative to the orangutan, but does that
give anyone pause. Oh No.

John Grehan

-----Original Message-----
From: taxacom-bounces at mailman.nhm.ku.edu
[mailto:taxacom-bounces at mailman.nhm.ku.edu] On Behalf Of Kim van der
Linde
Sent: Friday, April 01, 2011 9:49 AM
To: Lynn Raw
Cc: TAXACOM
Subject: Re: [Taxacom] DNA contamination

Yeah, when I did the supermatrix analysis of the drosophilids, this was 
one of the issues we ran into and that we addressed in the supplementary

ascension code data table,

I think when you get a weird outlier, it is always advisable to 
re-sequence it extra careful to be sure it is correct. I do that with 
reviews as well, suggesting that they double check certain species when 
it looks like a weird outlier.

Another example was recently published in the last Pantera phylogeny 
article, which explained some of the phylogenetic inconsistencies that 
had plagued that genus.

Kim

On 4/1/2011 3:13 AM, Lynn Raw wrote:
> I presume that most people on the Taxacom list are aware of this paper
-
http://www.plosone.org/article/info%3Adoi%2F10.1371%2Fjournal.pone.00164
10 .
>
> I was wondering if contamination is a more general problem affecting
molecular phylogenies. It might explain one that I saw with an African
species nested within a set of apparently unrelated North American
species.
>
> Lynn Raw
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-- 
http://www.kimvdlinde.com

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