Mark-recaptured pikes

Tagging and mark-recapture experiments are quite typical methods to monitor size and phenotypic diversity of natural populations, especially those of particular conservation or scientific interest. In the present paper we applied a Bayesian hierarchical model on pike mark-recapture data collected by experimental fishing over four years. The pike monitoring belongs to KESKALA research project and using a range of fishing methods the aim of the data collection was to observe all pikes in the study lakes. Thus, it becomes an interesting question to ask, how well this goal is reached.

The modeling suggested that despite intensive fishing over several years with a large variety of methods, a good fraction of pikes are likely to go unnoticed. From a life-history monitoring perspective, the results thus suggest that it is very difficult to reliably monitor all life-histories in the targeted populations. If unnoticed fish differ from those observed via fishing, then inference made about phenotypic trends based on observed fish are likely to be biased.

From a more applied perspective, the model presented in the study provides a method to do stock assessment in small populations targeted e.g. by recreations fishing. While from a fisheries research perspective these populations would be of small interest, from a conservation perspective small isolated populations are often quite important, not to mention economic and societal values associated to recreational fishing.

Kuparinen A, Alho J, Olin M, Lehtonen H. Estimation of northern pike population sizes via mark recapture monitoring. Fisheries Management and Ecology (in press)

Summer work for dogs

A Finnish company located in Espoo – a ghetto bordering Helsinki – has put out a job announcement looking for “a summer dog”. The rationale behind this is that the company has figured out that by hiring a furry friend into to the office, the working morale goes up. One would wish that this would be spirit at the UH too, only that the effect might be actually mixed, if not the opposite judging from few recent encounters in the hallways.

More about the summer dog here.

Similar but so different

There have been many studies in genetic structuring of the Baltic Sea organism, and people have made ad hoc attempts compare similarities and differences in patterning of genetic variability across the species. The problem faced by such studies is that the sampling schemes for different species have often been quite different.

In a paper to appear soon in Marine Biology we sampled three- and nine-spined sticklebacks from the same areas across the Baltic Sea basin to compare patterns of genetic differentiation, variability and gene flow in comparable fashion. The results reveal contrasting population structures for the two species in neutral marker genes: the nine-spined stickleback is much more structured than the three-spined stickleback.

DeFaveri J., T. Shikano, I.N. Ab Ghani & J. Merilä (2012) Contrasting population structures in two sympatric fishes in the Baltic Sea basin. Marine Biology, in press.

A lifespan little longer

Looking to live forever? Common frogs might have a lesson to provide, at least if you are an ectotherm. Namely, as reported in paper to appear in Oecologia soon, there is a strikingly linear and tight positive correlation between mean age and the latitude of origin in these creatures. Frogs in southern Sweden complete their hectic lives in 2-3 years, whereas the northern ones enjoy – or endure – lifespans about four times longer. Most of this in hibernation though: as shown in the enclosed picture, the number active active days is reduced from 209 days in south to only 98 days in north. Hence, while the frogs in north are chronologically older than those in south, physiologically (e.g. in terms of energy burnt), they might strike about the same note as the their southern conspecifics.

Whatever the ultimate explanation for the differences in lifespan along the latitudinal gradient (reduced predation rate in north is the prime suspect), it is striking that the life history within a single species can vary this much over the relatively short geographic distances covered by this study. Consider two frogs born in the same year in south and north: once the frog born in south is about die, the northern conspecific has not yet matured sexually.

Hjernquist M.B., F. Söderman, K.I. Jönsson, G. Herczeg, A. Laurila & J. Merilä (2012) Seasonality determines patterns of growth and age structure over a geographic gradient in an ectothermic vertebrate. Oecologia, in press.

Polar frogs

Scott, Amundsen, Shackleton, Laurila, Patrelle and Herczeg – what do these people have in common? Facial hair? Ability to endure prolonged psychological torture of cross-country skiing in a flat, shapeless landscape? Not so – as far as I know. But all of them have made great contributions to scientific advances in matters relating to our understanding of hardship of life in polar regions. Most recently, Patrelle et al (2012) – in a article published in Polar Biology – reveal that subarctic common frogs (Rana temporaria) live up to ages of 18 years or even beyond.

The remarkable longevity of frogs in Northern Scandinavia relates to the reduced pace of life in north – being able to be active only fraction of the year, the frogs in north take longer to mature than their conspecifics in south. Due to their lower per year mortality rates – either due to shorter activity period per se (lowered physiological costs), or due to reduced predation risk (or both) – the northern frogs also live about 4-5 times longer than their conspecifics in south.

Interesting is also the difference between sexes: males mature earlier than females, and their growth rates wind down soon after that. Females continue and even speed up their yearly growth rates the older they get. Read more from pages of Polar Biology.

Patrelle C, MB Hjernquist, A Laurila, F Söderman & J Merilä (2012) Sex differences in age structure, growth rate and body size of common frogs Rana temporaria in the subarctic. Polar Biology, in press.

Luckily lost in translation?

When a French person talks about vulgarizing one’s research, the question is actually about communicating it to public. Someone might think that they are the same thing anyway. On the same note, I have been wondering whether I should be thrilled or shaken by the pictured sign I can choose to hang in my door knop.

Swording the words

Flabby writing is not healthy – it may put your career to grave prematurely. I came across an interesting book about academic writing after being directed to this article. The article linked to a web page where one can test how stylish one’s writing is: it is here. Running few of our abstracts through it, I learned that we must be hovering at the heart attack zone.

Sword H. 2012. Stylish Academic Writing. Harvard University Press.

Eye of the stickleback

Not perhaps as cool as the eye of the tiger, but nevertheless, a pretty intricate system of rods, cones and chromophores. Not only that, but the recent work suggests that selective processing or different pathways for chromophore uptake in different photoreceptor types may be occurring. If so, this may have have ecological and functional implications, and this opens the door for future evolutionary studies. Read soon more from the article to be appear in Journal of Experimental Biology.

Saarinen PK, Pahlberg J, Herczeg G, Viljanen M, Karjalainen M, Shikano T, Merilä J & K Donner (2012) Spectral tuning by selective chromophore uptake in rods and cones of eight populations of nine-spined stickleback (Pungitius pungitius). Journal of Experimental Biology, in press.

Increasing the n

Young, E (2012) Stickleback genome reveals detail of evolution’s repeated experiment. Discover Maganize Blog

Is the best yet to come?

Who knows, but something good landed today at the right address. Namely, Scott McCairns was awarded a hard-to-get personal Academy of Finland postdoctoral project to fiddle with his beloved, oddly-plated freak three-spined sticklebacks. With this distinction in his back-pocket, Scott becomes the 8th EGRU postdoc to comb home this award. We are all proud of you Scott.

Blame the humans…

After genotyping all of four* microsatellite markers, a recent study concluded that extinction of the last woolly mammoth population on Wrangel Island was not due to an inbreeding-related loss of genetic diversity, but was rather a result of a change in their environment – either directly or indirectly caused by humans. The estimated effective population size (approx 500 individuals) was deemed small but sufficient, as genetic diversity appeared to be maintained over the last 5000 years before the final extinction, at which point, a sudden environmental change (aka humans) wiped them out.

For a “more detailed picture of the genetic changes that occurred in woolly mammoths over time” check out the “from the cover” story:

NYSTRÖM et al. 2012. Microsatellite genotyping reveals end-Pleistocene decline in mammoth autosomal genetic variation. Molecular Ecology

*Perhaps I should reserve judgement on the number of markers used – they were, after all, screening 20 000 year old DNA…. (and they did attempt to amplify 15 loci)

Dance of charrs

Taka recently genotyped a whole bunch of arctic charrs from Northern Finland as a collaborative project with Antero Järvinen from Kilpisjärvi Biological Station. Here is an under water clip about some the study subjects: video.

Another opportunity – sans basement experience

Department of Biosciences, University of Helsinki, invites applications for

POST-DOCTORAL POSITION

in Evolutionary Genomics.

The postdoctoral researcher will be a part of the Ecological Genetics Research Unit (EGRU; http://www.helsinki.fi/biosci/egru/index.html) lead by Prof. Juha Merilä. The assignment can start in April 2012 (start date is flexible – early start preferred) and continue until April 2014, possibly longer.

The post-doctoral fellow to be employed is expected work with projects focused on application of next-generation sequencing technologies to address broad and generally interesting problems relating to population differentiation and genetics of adaptation. The model systems in these studies will be the nine-spined (Pungitius pungitius) and three-spined (Gasterosteus aculeatus) sticklebacks. Leeway and funds be will be provided to pursue side-projects as long as the general goals of these are aligned with the general goals of the main project.

An ideal candidate for this position would have a broad interest in evolutionary biology and a background in one or several of the following fields: bioinformatics, evolutionary genomics, statistical or population genetics/genomics, animal or plant breeding sciences.

We are looking for an individual who is highly motivated and can work both independently and in a team. Capacity to face intellectual challenges, willingness to learn new skills, and to explore new intellectual territories are qualities expected from a strong candidate. A demonstrated track-record in research, doctoral degree and experience in bioinformatics analysis of next-generation sequencing data are required.

The working language will be English. An overview of our past and current research can be found at http://www.helsinki.fi/biosci/egru/index.html.

The salary will be based on level 5 of the demands level chart for teaching and research personnel in the salary system of Finnish Universities. In addition, the appointee will be paid a salary component based on personal work performance (total salary will be approximately 3050-3400 EUR per month).

Help will be provided in relocation to Helsinki.

The application should include (i) CV, (ii) Publication list, (iii) statement of research interests and motivation for applying this position not exceeding two pages and (iv) contact information of two reference persons who have agreed to provide a written statement on behalf of the applicant.

Applications should be addressed to the Department of Biological Sciences, P. O. Box 65 (Viikinkaari 1), FIN-00014 University of Helsinki, and sent to egru-mail@helsinki.fi. The review of application starts immediately and the position will be filled when a suitable candidate has been found. More information on this position is available from Prof. Juha Merilä (e-mail: juha.merila@helsinki.fi).

More information about Helsinki, University of Helsinki, and Department Biosciences can be found from the following links:
http://www.helsinki.fi/en/index.html (city)
http://www.helsinki.fi/university/ (university)
http://www.helsinki.fi/biosciences/ (department)
http://www.helsinki.fi/intstaff/ (University of Helsinki International Staff Services)

Opportunity of the life-time

Want to travel to interesting places, meet interesting people and enjoy life in a pleasant climate? Then this is not for you. Namely, this is about PhD-opportunity in Helsinki which involves what we call a ‘basement experience’ topped with a ‘bioinformatics/phenomics experience’, both mostly in places where the sun does not shine. However, these experiences are balanced off by opportunity to do inspiring cutting-edge science with dedicated people in most livable city in the World. And get paid for it!

If you are a highly dedicated, driven and numerically non-challenged individual willing to do a PhD in evolutionary genetics and genomics in one of the World’s top universities, please read the advertisement from here:

http://www.helsinki.fi/biosci/egru/pdf/doctoralstudent_egru.pdf

Multiplication of frogs

Finally, fruits of all the hard fieldwork in India (see enclosed photo) have being harvested with a paper pushed to Animal Conservation. This literary gem reports number of cryptic species in the frog genus Indirana endemic to Western Ghats biodiversity hotspot. The results high-light the fact the number of vertebrate species in World’s biodiversity hotspots is still likely to be grossly underestimated, and that the current species delimitations may be of little use for making sensible management decisions: what appears to one species might turn out to be number of cryptic and largely allopatric species.

Nair A., S.V. Gopalan, S. George, K.S. Kumar, A.G.F. Teacher & J. Merilä.
High cryptic diversity of endemic Indirana frogs in the Western Ghats biodiversity hotspot. Animal Conservation, in press.

Differently bred

Sometimes one is truly surprised by data. Once we started to dig into to fairly extensive and long (collected since 1958) pedigree of the Kaikoura population of Red-billed gulls, we were geared to study inbreeding depression. Jaws were dropping when not a single inbreeding event was recovered from the massive data. The dreams about uncovering the penalties of incest came to a abrupt halt and poking the idea of inbreeding avoidance was swiftly brought forth to explain the lack of forbidden love. Getting the story published turned out to take few years longer than the hatching of the study, but finally, the story has appeared in the pages of Behavioural Ecology.

Alho JS et al. (2012) No evidence for inbreeding avoidance through active mate choice in red-billed gulls. Behavioural Ecology, in press.

Correlates of recovery and extinction risk

The main aims of the conservation are 1) to avoid extinction of local populations and even entire species, and 2) to support the recovery of populations and species that have declined owing to, for example, environmental changes, habitat destruction or harvesting. Typically only limited amount of information is available, often because more close population monitoring is only started at the time the population has already declined dramatically. Nonetheless, conservation decisions and actions are required promptly, so decisions often need to be based on limited amount of data available. On the other hand, detecting populations and species at an elevated risk is a precautionary way to avoid declines and extinctions of natural populations. To these ends, some ‘rules of thumb’ are needed for estimating extinction risk and recovery ability.

The study by Hutchings et al. (in press) responds to this need by indentifying life-history correlates of maximum per capita population growth rate (rmax) across taxa. This rate is directly related to recovery ability of a population and inversely related to its extinction risk. The findings of the study show that age at maturity is the primary correlate of rmax, so that higher age at maturity is linked to lower rmax. Interestingly, the study also showed that rmax does not differ between fishes and terrestrial mammals, even though the high fecundity of fishes is often suggested to imply that their recovery ability is be better.

Hutchings JA, Myers RA, Garcia VB, Lucifora LO, Kuparinen A. Life-history correlates of extinction risk and recovery potential. Ecological Applications (in press)

The Best is Yet to Come

I think we're going to need a bigger champagne cup

I’ve never been one to brag about personal accomplishments, but I have no problem doing so on behalf of others. So it’s a great pleasure to share the news that our friends and colleagues here at EGRU made a big showing at the annual Spring Symposium. This event allows graduate students in evolution, ecology and systematics to come together with faculty to share their research. This is a great opportunity for many students to get their first experience presenting their work to people outside their immediate circle, and prizes are awarded for the best poster and oral presentation. This year, Niina Nurmi won the poster prize for her MSc work on lek dynamics of Capercaillie, and Jacquelin DeFaveri has the honour of becoming the first EGRU member to win Olli’s Prize for the best oral presentation.

Congratulations to you both!  You do us all proud.

Conservational consequences of fisheries-induced evolution might remain minor

Evolutionary responses to size-selective, intensive fishing have often been hypothesized to negatively affect population recovery from overfishing, mainly because evolutionary shifts associated to fishing are assumed to reduce age and size at reproduction and adult body size. However, while these life-history shifts are likely to reduce the success of one reproductive event, lifetime reproductive success is another story: early and small maturing fish may be able to compensate the disadvantages of small body size by starting to reproduce earlier.

In the article published in Proceedings of the Royal Society B today, we addressed this question by the means of simulation modeling, using Atlantic cod (Gadus morhua) as the study system. Despite the evolutionary shifts in cod life-histories caused by fishing, the per-capita population growth rates remained very similar in an evolved population as compared to a population in which evolutionary responses to fishing were not allowed for. The reason for this was that in the absence of fishing fitness functions were markedly flat over a wide range of life-history types.

Per-capita population growth rate is positively linked to the recovery ability of a population and negatively linked to the extinction risk – the two processes of primary interest in conservation biology. The study implies that fisheries-induced evolution might not have as clear-cut an effect on population persistence and recovery as previously anticipated, and further suggest that reasons other than fisheries-induced evolution might underlie the slow recovery of Atlantic cod from overfishing.

Kuparinen A, Hutchings JA. Consequences of fisheries-induced evolution for population productivity and recovery potential. Proceedings of the Royal Society B (in press)

Adaptation of forests to climate change

Climate change has been hypothesized to affect biological organisms, populations and ecosystems. While some animals may be able to migrate along with the moving species ranges, plants are doomed to spend their lifetime at one place, and migration is only possible during the stage of seed dispersal. Therefore, lots of attention over the pasts years has been focused on the ability of plants, particularly long-lived forest trees, to adapt to climate change at their home range. The review paper just published in Ecology Letters provides insights into this process, and evaluates the possibilities, threats and gaps in knowledge in this respect.

Kremer A, Ronce O, Robledo-Arnuncio JJ, Guillaume F, Bohrer G, Nathan R, Bridle JR, Gomulkiewicz R, Klein EK, Ritland K, Kuparinen A, Gerber S, Schueler S. Long distance gene flow and adaption of forest trees to rapid climate change. Ecology Letters (in press)

 

Colorful behavior

Our collaboration with lab of Gonzalo de Polavieja has now taken the first practical steps towards quantifying stickleback behavior using the tracking systems they have developed.

See a clip of sticklebacks swimming here.

Going cockonuts

Following up the story about search for best coconut climber, it looks as if the climbers have gone for more lucrative prizes: Kerala plans to train monkeys to pick coconuts after failing to develop a coconut-picking machine. Read whole story from The Telegraph here.

How to be invisible

The old classroom strategy to hide from a teacher seldom works – teachers have evolved sharp eye on spotting the wannabe invisibles. European cuttlefish do better: check out the amazing picture above: it is almost too funny to be true.

The original article can be found here, and news piece from Nature from here.

Barbosa A et al. 2011.Cuttlefish use visual cues to determine arm postures for camouflage. Proc. R. Soc. 279: 84-90

Shoddy science

Would you try to publish population genetic analyses based on average sample size of six individuals per population? I would expect that such attempts would quickly bounce back from any respectable journal and remain dusting in drawers forever. Apparently not so. If you pick up a recent issue of Current Biology, you will discover it sporting a fishy tale in population genetics with n=6, on average. Interesting is also the authors’ reading around the subject area: we might have the cuts in library budgets, challenges with communication technology, or who knows, perhaps shoddy science done in Europe, to blame. I was also left to wonder what the jolly (anonymous of course) referee who once wrote, “I found this paper underwhelming and to be of poor quality. The conceptual setup is weak, the scholarship is shoddy, the data are insufficient, and the inferences extended in the discussion go way beyond the data presented” have penned about this paper?

Jones et al (2011) A genome-wide SNP genotyping array reveals patterns of global and repeated species-pair divergence in sticklebacks. Current Biology 22:83-90.

Hazards at work

The question about genetic vs environmental determination common diseases and medical conditions is a pressing and thorny issue. According to a Swedish study, the environmental determinants might be sometimes easier to identify than causal SNPs underlying the risks. At least if the clip below has some truth to it. The cause of your next (first? last?) heart attack might be sitting right next – or perhaps – front of you.