Cancer cells have taught biologists about a lot of wacky things that can happen when things don’t go merrily along for a cell. Entosis is a process in which a living cell is internalized into a neighboring cell, and has been found to occur in some tumors. A recent paper describes exactly what can go wrong here.Aneuploidy refers to a cell having an incorrect number of chromosomes, and is a feature of many cancers. Typically, aneuploidy occurs from a failure in cytokinesis, the physical div........ Read more »
Krajcovic, M., Johnson, N., Sun, Q., Normand, G., Hoover, N., Yao, E., Richardson, A., King, R., Cibas, E., Schnitt, S.... (2011) A non-genetic route to aneuploidy in human cancers. Nature Cell Biology, 13(3), 324-330. DOI: 10.1038/ncb2174
Another dispatch from the outer reaches of GISland. Yesterday’s post on the likely consequences of climate change around my mother-in-law’s farm in Kenya got me thinking that it would be nice to see where that locality fits in the global vulnerability scene. One can actually do that thanks to a recent paper in Global Ecology [...]... Read more »
Samson, J., Berteaux, D., McGill, B., & Humphries, M. (2011) Geographic disparities and moral hazards in the predicted impacts of climate change on human populations. Global Ecology and Biogeography. DOI: 10.1111/j.1466-8238.2010.00632.x
It's one of the most persistent problems in camouflage: how do you hide your eyes?
Skin is not that difficult to disguise. You can change its color, cover it up, match it to your environment. But eyes are tricky. You have to be able to see out of them. And unfortunately, predators are extremely good at looking for eyeballs.
I'm not a predator, but I am a marine biologist, which is kind of the same thing. I've done my time searching through plankton soup for squid larvae--and I can tell you the b........ Read more »
Holt AL, Sweeney AM, Johnsen S, & Morse DE. (2011) A highly distributed Bragg stack with unique geometry provides effective camouflage for Loliginid squid eyes. Journal of the Royal Society, Interface / the Royal Society. PMID: 21325315
It is time I introduce a bit the research I am doing for my PhD, here at the Pompeu Fabra-CSIC university The main area of our research is to study whether there is correlation between the position of a gene … Continue reading →
Related posts:a discussion about node centralities with G.Scardoni Last week we hosted the visit of G.Scardoni, the author...
scripting Cytoscape to plot different Node Centrality measures Finally I have made it: scripting and automatizing Cytoscape with........... Read more »
Montanucci L, Laayouni H, Dall'Olio GM, & Bertranpetit J. (2011) Molecular evolution and network-level analysis of the N-glycosylation metabolic pathway across primates. Molecular biology and evolution, 28(1), 813-23. PMID: 20924085
Very brief review of new Science article showing duel function of CRY protein in Drosophilia circadian rhythms.... Read more »
During the week of March 7, I had the pleasure of attending the AMIA’s (American Medical Informatics Association) summit on Translational Bioinformatics (TBI), at the Parc 55 Hotel in San Francisco.
What is Translational...
[[ This is a content summary only. Visit my website for full links, other content, and more! ]]... Read more »
In Gotham, Batman drives a batmobile that shoots fire out the back and has all sorts of mechanical wizardry so he can catch fiends in style. Or something close to that, unless my childhood was dreadfully misinformed. He isn’t supposed … Continue reading →... Read more »
Aronson RB, Moody RM, Ivany LC, Blake DB, Werner JE, & Glass A. (2009) Climate change and trophic response of the Antarctic bottom fauna. PloS one, 4(2). PMID: 19194490
GILI, J., ARNTZ, W., PALANQUES, A., OREJAS, C., CLARKE, A., DAYTON, P., ISLA, E., TEIXIDO, N., ROSSI, S., & LOPEZGONZALEZ, P. (2006) A unique assemblage of epibenthic sessile suspension feeders with archaic features in the high-Antarctic. Deep Sea Research Part II: Topical Studies in Oceanography, 53(8-10), 1029-1052. DOI: 10.1016/j.dsr2.2005.10.021
Clarke, A., Murphy, E., Meredith, M., King, J., Peck, L., Barnes, D., & Smith, R. (2007) Climate change and the marine ecosystem of the western Antarctic Peninsula. Philosophical Transactions of the Royal Society B: Biological Sciences, 362(1477), 149-166. DOI: 10.1098/rstb.2006.1958
Thatje, S., Anger, K., Calcagno, J., Lovrich, G., Pörtner, H., & Arntz, W. (2005) CHALLENGING THE COLD: CRABS RECONQUER THE ANTARCTIC. Ecology, 86(3), 619-625. DOI: 10.1890/04-0620
by Mary in OpenHelix
Lately we’re getting a lot of questions about ways to analyze the promoters and other regulatory aspects of genes. And for a while we were mostly pointing to the prediction data that was available in the UCSC Genome Browser’s TFBS Conserved track. TFBS Conserved is a track of computationally predicted transcription factor binding sites (TFBS) which are conserved across human/mouse/rat and based on Transfac v7.0 by BioBase. As they say in the track description, it’s important........ Read more »
Griffith, O., Montgomery, S., Bernier, B., Chu, B., Kasaian, K., Aerts, S., Mahony, S., Sleumer, M., Bilenky, M., Haeussler, M.... (2007) ORegAnno: an open-access community-driven resource for regulatory annotation. Nucleic Acids Research, 36(Database). DOI: 10.1093/nar/gkm967
Jesse Bering has responded to criticism—by me, Jon Wilkins, and P.Z. Meyers, among others—of his post about Gordon Gallup's hypothesis that fear of homosexuals is favored by natural selection, in the form of an interview with Gallup. The result is informative, but probably not in the way intended.
To recap: Gallup proposed that homophobia could be adaptive if it prevented gay and lesbian adults from contacting a homophobic parent's children and—either through actual sexual abuse or some ........ Read more »
Arden, N., & Spector, T. (1997) Genetic influences on muscle strength, lean body mass, and bone mineral density: A twin study. Journal of Bone and Mineral Research, 12(12), 2076-2081. DOI: 10.1359/jbmr.1918.104.22.1686
Berenbaum, M., & Zangerl, A. (1992) Genetics of physiological and behavioral resistance to host furanocoumarins in the parsnip webworm. Evolution, 46(5), 1373-84. DOI: 10.2307/2409943
Campbell, D. (1996) Evolution of floral traits in a hermaphroditic plant: Field measurements of heritabilities and genetic correlations. Evolution, 50(4), 1442-53. DOI: 10.2307/2410882
Gallup, G. (1995) Have attitudes toward homosexuals been shaped by natural selection?. Ethology and Sociobiology, 16(1), 53-70. DOI: 10.1016/0162-3095(94)00028-6
Mousseau, T., & Roff, D. (1987) Natural selection and the heritability of fitness components. Heredity, 59(2), 181-97. DOI: 10.1038/hdy.1987.113
One of the largest and most successful vesper bat clades is Myotis, the little brown bats or mouse-eared bats. As you can see from the simplified cladogram shown right down at the bottom of this article, recent work indicates that they form the sister-taxon to the remaining vespertilionine vesper bats (for more discussion of their phylogenetic position, see the vesper bat cladogram article). Myotis occurs virtually worldwide in diverse habitats, contains about 100 species, and has been describ........ Read more »
Ma, J., Jones, G., Zhang, S., Shen, J., Metzner, W., Zhang, L., & Liang, B. (2003) Dietary analysis confirms that Rickett's big-footed bat (Myotis ricketti) is a piscivore. Journal of Zoology, 261(3), 245-248. DOI: 10.1017/S095283690300414X
This weeks journal club was on Cryptococcus neoformans and an odd way it may get of out macrophage some of the time, at least in vitro, maybe. The paper in question is:
The Human Fungal Pathogen Cryptococcus neoformans Escapes Macrophages by a Phagosome Emptying Mechanism That Is Inhibited by Arp2/3 Complex-Mediated Actin Polymerisation by Simon A. Johnston, Robin C. May. PLoS Pathogens 6(8) e1001041.
This work follows up a really cool observation published by t........ Read more »
Johnston SA, & May RC. (2010) The human fungal pathogen Cryptococcus neoformans escapes macrophages by a phagosome emptying mechanism that is inhibited by Arp2/3 complex-mediated actin polymerisation. PLoS pathogens, 6(8). PMID: 20714349
I recently had the opportunity to visit the fabled heart of the USDA-ARS empire: Beltsville.
I heard all about the tornado that knocked down all the campus trees, smashed in the greenhouses and threw doors down hallways a few years ago, visited their food sensory lab (a controlled environment where fruit samples are passed through a wall to waiting taste testers), and saw greenhouses packed full of cacao (where research on one of my favorite fungi, Crinipellis perniciosa, is co-f........ Read more »
Lightbourn, G., Griesbach, R., Novotny, J., Clevidence, B., Rao, D., & Stommel, J. (2008) Effects of Anthocyanin and Carotenoid Combinations on Foliage and Immature Fruit Color of Capsicum annuum L. Journal of Heredity, 99(2), 105-111. DOI: 10.1093/jhered/esm108
Stommel, J.R., & Griesbch, R.J. (2008) Inheritance of Fruit, Foliar, and Plant Habit Attributes in Capsicum. J. Amer. Soc. Hort. Sci., 113(3), 396-407. info:/
Tanaka Y, Brugliera F, Kalc G, Senior M, Dyson B, Nakamura N, Katsumoto Y, & Chandler S. (2010) Flower color modification by engineering of the flavonoid biosynthetic pathway: practical perspectives. Bioscience, biotechnology, and biochemistry, 74(9), 1760-9. PMID: 20834175
by Vincent Racaniello in virology blog
A second virophage has been identified. The name does not signify a virus that infects another virus – it means virus eater. The story of virophages begins with the giant mimivirus, originally isolated from a cooling tower in the United Kingdom. It is the largest known virus, with a capsid 750 nanometers in diameter and [...]... Read more »
Fischer MG, & Suttle CA. (2011) A Virophage at the Origin of Large DNA Transposons. Science (New York, N.Y.). PMID: 21385722
For those of you that may not be able to guess it from reading my blog – here’s a little factiod: I love, rather LOVE, biology. I’m often daydreaming about various organisms or landscapes – thinking about what it would be like to investigate certain phenomena. It would be nice [...]... Read more »
Zhu, B., Pan, K., & Wang, G. (2011) Effects of host starvation on the symbiotic dinoflagellates from the sea anemone Stichodactyla mertensii. Marine Ecology, 32(1), 15-23. DOI: 10.1111/j.1439-0485.2010.00405.x
Portnova, D., Mokievsky, V., & Soltwedel, T. (2011) Nematode species distribution patterns at the Håkon Mosby Mud Volcano (Norwegian Sea). Marine Ecology, 32(1), 24-41. DOI: 10.1111/j.1439-0485.2010.00403.x
Lazar, B., Gračan, R., Katić, J., Zavodnik, D., Jaklin, A., & Tvrtković, N. (2011) Loggerhead sea turtles (Caretta caretta) as bioturbators in neritic habitats: an insight through the analysis of benthic molluscs in the diet. Marine Ecology, 32(1), 65-74. DOI: 10.1111/j.1439-0485.2010.00402.x
2011 may be the year where the last known officially acknowledged stocks of the deadly smallpox virus, variola are destroyed - a virus that claimed over 500 million lives in the 20th century alone. The extensive collection of 'live' virus and DNA stocks totalling over 500 isolates/strains, which are held between the US Centres for Disease Control and the Russian State Research Centre of Virology and Biotechnology may be ordered to be eliminated following World Health Organisation (WHO) recommend........ Read more »
Gubser C, & Smith GL. (2002) The sequence of camelpox virus shows it is most closely related to variola virus, the cause of smallpox. The Journal of general virology, 83(Pt 4), 855-72. PMID: 11907336
Li, Y., Carroll, D., Gardner, S., Walsh, M., Vitalis, E., & Damon, I. (2007) From the Cover: On the origin of smallpox: Correlating variola phylogenics with historical smallpox records. Proceedings of the National Academy of Sciences, 104(40), 15787-15792. DOI: 10.1073/pnas.0609268104
Raymond S. Weinstein. (2011) Should Remaining Stockpiles of Smallpox Virus (Variola) Be Destroyed?. Emerg Infect Dis, 17(Apr). info:/10.3201/eid1704.101865
Rimoin AW, Mulembakani PM, Johnston SC, Lloyd Smith JO, Kisalu NK, Kinkela TL, Blumberg S, Thomassen HA, Pike BL, Fair JN.... (2010) Major increase in human monkeypox incidence 30 years after smallpox vaccination campaigns cease in the Democratic Republic of Congo. Proceedings of the National Academy of Sciences of the United States of America, 107(37), 16262-7. PMID: 20805472
by Lorna Powell in Elements Science
Lorna Powell tunes into new research that suggests our genes could influence our enjoyment of music.
Related posts:Lung cancer gene means risk for non-smokers too
Whose gene is it anyway?
Smoking can be good for you
... Read more »
Ukkola-Vuoti, L., Oikkonen, J., Onkamo, P., Karma, K., Raijas, P., & Järvelä, I. (2011) Association of the arginine vasopressin receptor 1A (AVPR1A) haplotypes with listening to music. Journal of Human Genetics. DOI: 10.1038/jhg.2011.13
Deutsch, D., Henthorn, T., Marvin, E., & Xu, H. (2006) Absolute pitch among American and Chinese conservatory students: Prevalence differences, and evidence for a speech-related critical period. The Journal of the Acoustical Society of America, 119(2), 719. DOI: 10.1121/1.2151799
Geographical edges of species range dispersal are evolutionary focal points.... Read more »
Shine, R., Brown, G. P., & Phillips, B. L. (2011) An evolutionary process that assembles phenotypes through space rather than through time. Proceedings of the National Academy of Sciences. DOI: 10.1073/pnas.1018989108
Aesthetics may have more to do with protecting land as a nature reserve than we would like to admit. Wetlands are a perfect example. Few people would consider wetlands to be “beautiful” landscapes—they offer few vistas, are difficult to navigate, and can appear rather homogeneous to the layperson. To many, a swamp is a swamp [...]... Read more »
Ode, A., & Miller, D. (2011) Analysing the relationship between indicators of landscape complexity and preference. Environment and Planning B: Planning and Design, 38(1), 24-40. DOI: 10.1068/b35084
Allosaurus has one of the dullest names in all of paleontology. The famous dinosaur’s moniker simply means “different reptile”—a bit of a letdown for one of the top predators of Jurassic North America. Early on, the name fit well—Allosaurus was a very unusual dinosaur compared to other large, predatory species—but since 1878 bone hunters have [...]... Read more »
Eddy, D., & Clarke, J. (2011) New Information on the Cranial Anatomy of Acrocanthosaurus atokensis and Its Implications for the Phylogeny of Allosauroidea (Dinosauria: Theropoda). PLoS ONE, 6(3). DOI: 10.1371/journal.pone.0017932
The common cuckoo is such a lazy parent that brood parasitism—laying its eggs in the nests of other birds—is built into its biology.
No bird will willingly adopt cuckoo chicks, which usually out-compete, and sometimes kill, their adoptive siblings. Given any hint that one of the eggs in her nest isn't hers, a bird will eject the intruder. So cuckoos have evolved eggs that mimic the coloring of their hosts' eggs—dividing the species into "host races" that specialize on a single host speci........ Read more »
Stoddard, M., & Stevens, M. (2011) Avian vision and the evolution of egg color mimicry in the common cuckoo. Evolution. DOI: 10.1111/j.1558-5646.2011.01262.x
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