Tag Archives: BLAST2GO

Picnics in Peril: Bees, Mosquitoes and Zombie Ants!

My husband loves spending time on our deck & mosquitoes love spending time chewing on me. Maybe that’s why I’ve been taking notice of research on the “Bugs of Summer” a bit more lately. Or maybe there’s just a bunch more of it right now, but I’ve seen what seems like an unusually large number of articles on bees, mosquitoes, and even “zombie ants”.

It’s a given that I’ve got to begin with the zombie ants. I mean, look how much traffic the CDC’s “Zombie Apocalypse” generated. The article is entitled “Behavioral mechanisms and morphological symptoms of zombie ants dying from fungal infection” and it is in the May 9th issue of BMC Ecology, which is open access & therefore free to read. (amusing side note is that the ad on the abstract page when I looked was for Terminix.) The article is an “extended phenotype” study in which ants (Camponotus leonardi) infected by a fungus (Ophiocordyceps unilateralis s.l.) display altered phenotypes – namely they descend from a Thai rain forest canopy, bite leaf veins, and then dying lock-jawed on the vein. The authors explain their use of the term zombies:

The term zombie ants underlines that, while the manipulated individual may look like an ant, it represents a fungal genome expressing fungal behavior through the body of an ant.

The authors followed 21 zombies, all with confirmed fungal infections, and observed changes in their activity and morphological changes in their head cavities. I generally don’t read ecology research but I think I’ve seen the process featured in nature programs that I’ve watched & the paper explained it well. I would like to read further research on the changes in gene expression, etc. that would help complete the story of the process.

I’ve been aware of bee issues, such as Colony Collapse Disorder, for a while now – it is hard not to be when even popular television such as Dr. Who reference it – but it was an article in an alumni magazine that really got me interested in the subject. Turns out last fall a tornado hit Ohio State’s Ohio Agricultural Research and Development Center (OARDC) and did thousands of dollars of damage to the honey bee program’s inventory and equipment, including a comprehensive collection of hive and queen bee production boxes. Today I came across an article describing the Honey Bee PeptidAtlas. I mentioned the PeptideAtlas as an item in a Friday SNPets post, but didn’t go into it further. The article is in BMC Genomics, is free to read, and has the title: “A honey bee (Apis mellifera L.) PeptideAtlas crossing castes and tissues.” It has been a long time since I spent much time with a genome that isn’t associated with a fairly well established proteome, but that was the state (according to the authors) of the bee genome before they built the bee PeptidAtlas.  The authors have built the Honey Bee PeptideAtlas on the backbone of the PeptideAtlas, which they describe as providing

a central, stable resource for mass spectrometry data supporting protein identification information for several species.”

They collected a large set of MS/MS data from A. mellifera, matched peaks to peptides & peptides to a comprehensive protein set compiled from RefSeq, GenBank and Gnomon predictions. The atlas was then constructed & functional predictions were made using BLAST2GO. The Honey Bee PeptideAtlas contains over 3000 proteins and 27,000 peptides, and should be a valuable resource for be proteogenomic studies.

The third “Bug of Summer”, the mosquito, is one that I experience often but do not understand well. My husband & I can be sitting next to each other & he can apparently not get a single bite while I am covered with big itchy bumps – why do they like me so well? I’ve always assumed that it was because of temperature – my skin often feels warmer than his. According to two articles in Nature: “Malaria: Mosquitoes bamboozled” (editor’s summary) and “Ultra-prolonged activation of CO2-sensing neurons disorients mosquitoes” (both require a subscription), there may be another reason – carbon dioxide. Apparently exhaled carbon dioxide is the most important cue for guiding the long-distance host-seeking flight of blood-feeding female mosquitoes, so perhaps my breathing somehow creates a higher CO2 trail. The authors used Drosophila melanogaster as a model organism to study compounds that might inhibit the CO2 detection machinery in mosquitoes. They were able to identify a cocktail of compounds that so overactivated the CO2-sensing neurons of three disease-causing mosquitoes (Anopheles gambiae, A. aegypti and Culex quinquefasciatus) that it greatly reduced their ability to navigate the CO2 train to a potential blood meal. Unfortunately according to the authors the volatile odorants reported in the paper

“…have undesirable safety profiles at high concentrations and are not ideal for human use without further testing.”

I also think such “long range” repellents will need to be paired with nearer-range effectors as well. They may find you through the CO2 in your breath, but once they are in range they seem to no longer need that cue and will bite you anywhere that will itch massively – like around your toenails, on your ankles & at the back of your knees – I’m might be biased from experience though…

PS, here’s another mosquito paper for you: Dissecting gene expression in mosquito

PSS, anyone know if the chemicals that commercial treatment “mosquito removal” companies use harm “good bugs”, humming birds, etc? Inquiring, concerned & itchy minds would like to know…

Ok, say you get a genome. What next?

There may be a lot of opportunity to get one’s genome of interest sequenced in the near future.  And I don’t only mean your own personal genome–I mean your species of interest.  There should be academic centers and service providers who offer genome sequencing at increasingly reasonable pricing soon.

So let’s say you get your favorite sample done: what next?  We have talked about how cool it is to be able to use the GBrowse or WebGBrowse tools to display your data.  But that is missing a step, actually.  To get appropriate data to display you need to annotate your genome.  You need to curate your genome.  The GMOD suite offers some tools to do this–Apollo can be a part of your strategy. JCVI has an annotation service for prokaryotic genomes that uses Manatee. They frequently offer a prokaryotic annotation course around that process as well.

But the other day I heard about another option that I thought I would mention: the BLAST2GO team is announcing a course on Automated Functional Annotation and Genome Mining.  Here is their announcement via the GOFriends mailing listpersonally I would choose the one in Valencia :)


•Are you working in sequencing projects?
(EST projects, Next Generation Sequencing, Microarray desing, etc… )
•Do no have thousands of novel sequences that need functional annotation?
•Do you need a user-friendly tool to functionally analyze your data?
The Blast2GO Team is very pleased to announce:


In this course you will learn tools and tips for functional
annotation, visualization and analysis of novel sequence data making use of Blast2GO.

The course will be offered to 35 participants at 2 locations:
•Valencia, Spain: 28 to 30, September 2009
•Florida, USA: 14 to 16, October, 2009
For more information and registration until the 1 of September please visit:

But Florida in October wouldn’t be a bad option either!

For more information about just the BLAST2GO part, check out this site: http://blast2go.org/