<font color="#888888"></font><div><font color="#888888"><p style="margin: 0px;"><font color="#000000">A few weeks ago I went to a talk by David Ussery from Denmark's equivalent of JGI -- he gave a talk on looking for a "protein core" among available sequenced genomes which has recently been published in the attached (2010) paper. It was interesting enough that I thought I'd present his paper to the group on Wednesday. <br>
</font></p><p style="margin: 0px;"><font color="#000000"><br></font></p><p style="margin: 0px;"><font color="#000000">Best, Adina<font color="#888888"> <br></font></font></p><p style="margin: 0px;"><br></p><p style="margin: 0px;">
<font color="#000000"><font color="#888888">============<br></font></font></p><p>There
are now more than 1000 sequenced prokaryotic genomes deposited in
public databases and available for analysis. Currently, although the
sequence databases GenBank, DNA Database of Japan and EMBL are
synchronized continually, there are slight differences in content at the
genomes level for a variety of logistical reasons, including
differences in format and loading errors, such as those caused by file
transfer protocol interruptions. This means that the 1000th genome will
be different in the various databases. Some of the data on the highly
accessed web pages are inaccurate, leading to false conclusions for
example about the largest bacterial genome sequenced. Biological
diversity is far greater than many have thought. For example, analysis
of multiple Escherichia coli genomes has led to an estimate of around 45
000 gene families - more genes than are recognized in the human genome.
Moreover, of the 1000 genomes available, not a single protein is
conserved across all genomes. Excluding the members of the Archaea, only
a total of four genes are conserved in all bacteria: two protein genes
and two RNA genes.</p><p><br></p><p><a href="http://www.ncbi.nlm.nih.gov/pubmed/20093288">http://www.ncbi.nlm.nih.gov/pubmed/20093288</a><br></p></font></div><div class="gmail_quote"><br><div style="word-wrap: break-word;">
<div><p style="margin: 0px;"></p></div></div><br><div style="word-wrap: break-word;"><div><p style="margin: 0px;"></p></div></div><br><div style="word-wrap: break-word;"><div><p style="margin: 0px;"></p></div></div><br></div>
<br>