Hello, I've recently found this forum and I would be glad if someone
could answer my question. I'm just beginning to study phylogenetic
software and it might be quite silly.

I'd like to know if there's a way to bootstrap data entered in the
format of the software STRUCTURE, that is, with each line being one
individual and each column a two-part field specifying the alleles of
one locus.

I've found SEQBOOT on PHYLIP but it seems to be able to handle only
sequence data and gene frequencies in populations.

Tell you the truth, I don't really know if it even makes sense to
bootstrap the kind of data I'm suggesting. Any help would be greatly
appreciated.

Thank you very much!

Helder

There is much evidence that neutral and nearly neutral evolutionary
hypotheses are largely valid, and that genuine adaptive selection is
probably rare. So how rare is rare? It matters since sequences are
supposedly resistant to pressures of evolutionary convegence.
The Tajima D test apparently tests for codon bias, where there is
selection for particular codons among synonymous codons. When there is
no such codon bias (as Kellogg found to be absent in Rubisco large
subunit), then this is evidence of no adaptive selection affecting the
sequences, changes in which are then i.i.d. and track evolution better
than morphology.
But aren't there other kinds of possible sources of convergent
sequences from pressures affecting the whole genome? How about a just
plain change in a gene? Apparently this possibility is passed off as
neutral if it occures and even if adaptive then not reflected in any
other gene. What about a change to a non-coding promoter? How about a
change in numbers of non-coding bases between a cis-acting promoter and
its target gene through insertion or deletion? This would change gene
expression, and indels may be evidence of adaptive selection that may
occur genome-wide.
I ask these because I am interested in sources of uncertainty in ...

Dear Researchers,

As a part of my doctoral studies "Organization of Resources for WWW:
case study of fungi", I have designed a prototype database based on
the information needs of mycologists, working in different areas which
could be used by different user groups to organise and share their
information on the web.

The URL of the project is http://www.fungalspecies.co.in I request you
to kindly visit the site. At present there are very few records
available in the database. I request you to add records and / or
search the records and send your feedback. You will notice that the
objective has been to provide for flexibility and the user has the
authority to freedom to define the data entry as well as search
template.

The time is right for developing, sharing and creating sharable data
resources. My work is part of this trend.

Any comments from you will be extremely helpful in finalising my work
and will be greatly appreciated.

Shubha Nagarkar

I'm struggling with Bali-phy software that analyzes trees and sequences
jointly. I'm trying to make it work on a MSWinXP Pent4 computer using
the Linux emulator. I have finally gotten the program to run, but it
can't deal with data sets, even the ones that come with the package,
giving me error messages that state that the letters in the data sets
are not in the "alphabet," e.g. the DNA nucleotide alphabet. Am I
missing a lookup table?

I have lived in Ankara (TURKEY). My name is Benay ÇAM. I graduated at
Department of Biology of Nigde University in 2003.I completed
master's programme at Department of Biyoloji of Gazi University. I
have researched both botanic and microbiology in my master's thesis.
Subject of my master's thesis was " Pollen Analysis and
Investigation of Antibacterial Effect of Honey Collected from Various
Regions of Ankara".
In this study, I had analyzed pollen grains in honey samples and
determined percent rate of floral source. I had studied analysis of
pollens at the Hacettepe University. And then, I had investigated
antimicrobial effect of the honey samples. When I investigated
antimicrobial effect, I used agar well diffusyon method. I measured
diameter of zones. Seven bacterial species were used in this study.
These were Staphylococcus aureus, Salmonella typhi, Escherichia coli
O157:H7, Shigella sonnei, Klebsiella pneumonia, Listeria monocytogenes
and Helicobacter pylori. These bacteria were obtained from Faculty Of
Art and Science of Department of Microbiology of Gazi University but
Helicobacter pylori was obtained from Faculty of Medical Science of
Microbiology Lab. of Gazi University. In this study, I had compared
pollen analysis results and microbiological results. In final of this ...

The American Genetic Association in conjunction with the National
Cancer Institute, The Laboratory of Genomic Diversity, Frederick,
Maryland, NOAHS-Smithsonian Institution and The Hawaii Institute of
Marine Biology is presenting a 12-day intensive course in conservation
genetics beginning January 7th thru January 20th, 2007 at The Hawaii
Institute of Marine Biology, Coconut Island, Honolulu, Oahu Hawaii.

The course will be directed by Dr. Stephen J. O'Brien and taught by
renowned scientists in methods, interpretation, and applications of
molecular genetic analyses for conservation of endangered species.
Local host, Dr. Brian Bowen, Assistant Researcher, Hawaii Institute of
Marine Biology and his colleagues will also co-teach this course.

Faculty: The 2007 faculty is being assembled but currently includes
such pioneers in conservation genetics as:

* Scott Baker, Ph.D. (Molecular Ecology and Evolution, School of
Biological Sciences University of Auckland)
* Brian Bowen, Ph.D. (SOEST, Hawaii Institute of Marine Biology,
University of Hawaii)
* Richard...

Dear colleagues,

Do you know what is the size of Allomyrrhina pfeifferi.
I would also like to know what is the weight Goliash beetle when is a
life and when is a dry.

I have the smallest beetles Nanosella fungi (Ptiliidaea) any another
ideas?

( I just updating section "What is the biggest beetle and smallest
beetle" on www.coleoptera.org/p888.htm )

Keep care and be of good cheer.

Regards

(name) Vratislav Richard Eugene Maria John Baptist
(surname) of Bejsak (Bayshark)-Colloredo-Mansfeld

websites:
http://www.coleoptera.org. and
http://www.egroups.com/group/coleoptera

Dear colleagues,

The WDC currently has three contributed data sets containing proxy data
from insects.

BUGS, a database of British and Northern European Coleoptera, including
information on habitat, distribution, and fossil occurrence, along with
their bibliographic references, has been contributed by Paul Buckland
(Sheffield University), Phil Buckland (Umeå University) and Jon Sadler
(Birmingham University). The database was updated in 2003 and is
available for download in Microsoft Access2000 or stand-alone formats.
Access version around 21 MB.

http://www.ncdc.noaa.gov/paleo/insect.html

or link on www.coleoptera.org/p13.htm where is list all available
databases.

Keep care and be of good cheer.

Regards

(name) Vratislav Richard Eugene Maria John Baptist
(surname) of Bejsak (Bayshark)-Colloredo-Mansfeld

John Harshman wrote: