Variation allows phytoplankton to go global

Sea surface UKOA  Consortium participants, Jeremy Young (UCL) and Declan Schroeder (MBA) are between the authors of a research paper, which is published today in Nature.

Titled “Pan genome of the phytoplankton Emiliania drives its global distribution“, the paper compares the reference genome of one strain of Emiliana huxleyi to sequences from 13 other strains. The scientists found a pan genome composed of a set of core genes, along with genes that were unequally distributed between different strains. The findings indicate extensive genome variability and demonstrate that  E. huxleyi, which has long been considered a single species, harbours extensive genome variability reflected in different metabolic repertoires.

Figure: Emiliania huxleyi and its position in the eukaryotic tree of life. a, E. huxleyi has five well-characterized calcification morphotypes and an overcalcified state1. b, Cladogram showing the distinct branch occupied by the haptophyte lineage on the basis of RAxML analysis of concatenated, nuclear-encoded proteins after addition of homologues from CCMP1516 and a pico-prymnesiophyte-targeted metagenome8. Lineages with algal taxa are indicated (symbol). Filled circles represent nodes with ≥70% bootstrap support. The tree is rooted for display purposes only. Nature ISSN: 0028-0836 EISSN: 1476-4687

The findings also underpin  the capacity of E. huxleyi to thrive both in habitats ranging from the equator to the subarctic and to form large-scaleepisodic blooms under a wide variety of environmental conditions.

Betsy A. Read, et al “Pan genome of the phytoplankton Emiliania drives its global distribution” Nature doi:10.1038/nature12221

Press Release:

 Variation allows phytoplankton to go global

The reference genome of a marine phytoplankton called Emiliania huxleyi is reported this week in NatureE. huxleyi has a direct influence on the global carbon cycle, and the genomic plasticity of this species may provide insight into speciation and how organisms adapt to global climate change.

E. huxleyi can thrive in a range of dramatically different habitats, and have the capacity to form large-scale blooms from the equator to the subarctic. By comparing the reference genome of one strain of E. huxleyi to sequences from 13 other strains, Betsy Read and colleagues found a pan genome composed of a set of core genes, along with genes that were unequally distributed between different strains. The findings indicate extensive genome variability reflected in different metabolic repertoires, explaining in part how E. huxleyi has adapted to a wide variety of environments. E. huxleyi was thought to be a single species, but the high level of diversity uncovered in this study indicates a single strain is unlikely to be typical or representative of all strains.

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Arctic photo in the final Ocean Exploration 2020 Photo Contest

Helen’s Smith Arctic photo made the final 5 of the Ocean Exploration 2020 Photo Contest category Scenic Seascapes. Congratulations Helen!

Arctic Reflection @Helen Smith, Southampton, Hampshire, UK

A stunningly blue and calm Arctic reflection of sea and sky divided by distant bright white ice and interrupted by ripples created by the ship. Taken June 15, 2012, on the RRS James Clark Ross in the Arctic sea ice between Svalbard and Greenland.

Source: Ocean Exploration 2020

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Diatom and Coccolithophore SEM imaging by Helen Smith

Helen is a PhD student at the National Oceanography Centre studying phytoplankton community structure and carbon export.  She shares, for some time now, her ZEISS LEO 1450VP SEM imaging via Twitter; you can actually follow her work on Twitter with hashtag #PhytoplanktonID.

This is her Diatom and Coccolithophores SEM imaging Facebook Page, where you can have a look at some very beautiful images and share with the rest of the world your perfect ZEISS moments!

Diatom Asteromphalus hyalinus (false colour SEM) from 60oS Indian Ocean. Funding support from NERC, Defra and DECC to the pelagic consortium of the UK Ocean Acidification programme @Helen Smith

 

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Coccoliths thrive despite ocean acidification

21 May 2013, by Harriet Jarlett – Planet Earth Online

Ocean acidification is damaging some marine species while others thrive, say scientists.

An international team studied the effect of ocean acidification on plankton in the North Sea over the past forty years, to see what impact future changes may have.

The study, published in PLoS One found that different species react in different ways to changes in their environment. As carbon dioxide emissions dissolve in seawater they lower the pH of the oceans making them more acidic and more corrosive to shells.

Limacina helicina. Credit: Planet Earth

Foraminifera and coccoliths, which are small shelled plankton and algae, appear to be surviving remarkably well in the more acidic conditions. But numbers of pteropods and bivalves – such as mussels, clams and oysters – are falling.

‘Ecologically, some species are soaring, whilst others are crashing out of the system,’ says Professor Jason Hall-Spencer, of Plymouth University, who co-authored the paper.

The scientists are unsure whether this drop in certain species is because of changing pH levels, or whether it is due to a combination of stress factors like warming, overfishing and eutrophication -which results from a build up of excess nutrients in water.

‘We found no statistical connection between the abundance of calcifying plankton and the changes in pH. If pH is affecting calcifying plankton in the area then its effect is being masked by other climatic effects. What we do know is that laboratory experiments have shown pH changes affect pteropods adversely,’ he says.

Scientists had previously thought the reason species react so differently to ocean acidification was due to variations in the mineral composition of the shells.

‘The aragonite skeleton of pteropods dissolves more easily in corrosive waters than the low-magnesium calcite that typifies many clams and other molluscs,’ explains Hall-Spencer. ‘But now we think that it’s not as simple as that. It depends partly on how stressed organisms are by other factors, such as lack of food. It also depends on their shape and their ability to protect their skeletons.’

It is possible that the rising levels of CO2 are boosting coccolith numbers by causing them to photosynthesise more and produce more energy.

The scientists used a database collected by the Sir Alaistair Hardy Foundation for Ocean Science, which has been continuously recording levels of plankton in the North Sea since 1931. But, despite being the best database available, it fails to monitor chemical changes, like acid levels, alongside ecological ones, like shifts in pteropod numbers.

Plankton sits at the bottom of the food chains, where it underpins all of our marine food sources. So if numbers drop significantly it could lead to food shortages, particularly in countries where people eat lots of seafood and fish.

Without improved monitoring , researchers say they will struggle to accurately test the consequences of ocean acidification.

‘CO2 is driving down the pH of water, but finding evidence for that and its ecological effects is proving tricky. Most work is done in the lab, so there’s not much good long term data on changes in the water,’ says Hall-Spencer.

Coccoliths appear to be able to cope with recent changes to their environment, the scientists don’t know how they will fare in the future.

‘We need an observing network to keep track of the effects of ocean acidification both chemically and biologically. Ecosystems are going to change, and if we want to protect fisheries, food sources and jobs we need to be forewarned,’ he concludes.

Read more: Beare D, McQuatters-Gollop A, van der Hammen T, Machiels M, Teoh SJ, et al. (2013) Long-Term Trends in Calcifying Plankton and pH in the North Sea. PLoS ONE 8(5): e61175. doi:10.1371/journal.pone.0061175
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The UKOA Cruises’ Journals

Now you can read online all three scientific journals of the UKOA cruises in full, page by page, and it is exactly the same as the print edition.

First UKOA Cruise in the NW European Seas – June / July 2011

Read the blog here

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Second UKOA Cruise in the Arctic – June / July 2012

UKOA Arctic Cruise website

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Third UKOA Cruise in the Southern Seas January /February 2013

UKOA Antarctic Cruise website

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As levels of CO2 are approaching 400 parts per million, Scripps Launches Daily Keeling Curve Update

Press Release: Scripps Institution of Oceanography / University of California, San Diego
Tuesday, April 23, 2013

For the first time in human history, concentrations of the greenhouse gas carbon dioxide (CO2) could rise above 400 parts per million (ppm) for sustained lengths of time throughout much of the Northern Hemisphere as soon as May 2013.

To provide a resource for understanding the implications of rising CO2 levels, Scripps Institution of Oceanography at UC San Diego is providing daily updates of the “Keeling Curve,” the record of atmospheric CO2 measured at Hawaii’s Mauna Loa. These iconic measurements, begun by Charles David (Dave) Keeling, a world-leading authority on atmospheric greenhouse gas accumulation and Scripps climate science pioneer, comprise the longest continuous record of CO2 in the world, starting from 316 ppm in March 1958 and approaching 400 ppm today with a familiar saw-tooth pattern. For the past 800,000 years, CO2 levels never exceeded 300 parts per million.

“I wish it weren’t true, but it looks like the world is going to blow through the 400-ppm level without losing a beat,” said Scripps geophysicist Ralph Keeling, who has taken over the Keeling Curve measurement from his late father. “At this pace we’ll hit 450 ppm within a few decades.”

The website keelingcurve.ucsd.edu offers background information about how CO2 is measured, the history of the Keeling Curve, and resources from other organizations on the current state of climate. An accompanying Twitter feed, @keeling_curve, also provides followers with the most recent Keeling Curve CO2 reading in a daily tweet.

Dave Keeling began recording CO2 data at Mauna Loa and other locations after developing an ultraprecise measurement device known as a manometer. Ralph Keeling took over the program in 2005 and also heads a program at Scripps to measure changes in atmospheric oxygen. The Scripps O2 and CO2 programs make measurements of CO2 and other gases at remote locations around the world, including Antarctica, Tasmania, and northern Alaska. The Scripps programs are complementary to many other programs now measuring CO2 and other greenhouse gases worldwide.

Scientists estimate that the last time CO2 was as high as 400 ppm was probably the Pliocene epoch, between 3.2 million and 5 million years ago, when Earth’s climate was much warmer than today. CO2 was around 280 ppm before the Industrial Revolution, when humans first began releasing large amounts of CO2 to the atmosphere by the burning of fossil fuels. By the time Dave Keeling began measurements in 1958, CO2 had already risen from 280 to 316 ppm. The rate of rise of CO2 over the past century is unprecedented; there is no known period in geologic history when such high rates have been found. The continuous rise is a direct consequence of society’s heavy reliance on fossil fuels for energy.

Each year, the concentration of CO2 at Mauna Loa rises and falls in a sawtooth fashion, with the next year higher than the year before. The peak of the sawtooth typically comes in May. If CO2 levels don’t top 400 ppm in May 2013, they almost certainly will next year, Keeling said.

“The 400-ppm threshold is a sobering milestone, and should serve as a wake up call for all of us to support clean energy technology and reduce emissions of greenhouse gases, before it’s too late for our children and grandchildren,” said Tim Lueker, an oceanographer and carbon cycle researcher who is a longtime member of the Scripps CO2 Group.

Read more: Scripps Institution of Oceanography / University of California, San Diego

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Ocean acidification top ranked in “Research Fronts 2013″

“Ocean acidification and marine ecosystems” is identified as #1 research front in Ecology and Environmental Sciences in “Research Fronts 2013: 100 top-ranked specialities in the sciences and social sciences”.

When scientists cite each other’s work, they—sometimes unknowingly—link related or identical topics within their scientific research. These “invisible colleges” identify emerging trends and specialty areas—providing a distinct advantage for world policymakers tasked with furthering research in the face of limited resources.

Read the report: King C. & Pendlebury D. A., 2013. Research Fronts 2013: 100 top-ranked specialities in the sciences and social sciences. 32 p. Thomson Reuters. Report.

 

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Annual Science Meeting and International Workshop of the Global Ocean Acidification Observing Network

The third Annual Science Meeting of the UK Ocean Acidification Research Programme (UKOA ASM) will be on 22-24 July 2013 at the University of St Andrews, North Haugh, St Andrews, Scotland, KY16 9TF.

The second international workshop of the Global Ocean Acidification Observing Network (GOA-ON) will be on 24-26 July 2013 at the same location.

Completion of our online registration form is necessary for your participation in either of the above meetings, with attendance by invitation only (details below). You will be informed within one week of registering whether your registration has been accepted and the outcome of any request for accommodation at St Andrews (in hotel-standard, university rooms), with such costs being covered by the UKOA programme.

Early registration (preferably by 31 May 2013) is advised, due to the limited availability of accommodation. Online registration will close on 30 June 2013, or earlier if maximum numbers have been reached before then.

All researchers currently (or until recently) supported by the UKOA programme are invited to the 3rd UKOA ASM, also those with formal links to the programme (eg as PAG or PEB members). Travel support is likely to be available for UKOA researchers providing oral or poster presentations as lead authors. Please discuss your proposed contribution with your consortium lead principal investigator (where appropriate). Consortium lead PIs are expected to coordinate their team’s involvement in the ASM, on the basis that the scale of that representation will be similar to previous ASMs.

UK and international participation in the 2nd GOA-ON workshop is limited to those who have received individual invitations. GOA-ON workshop participants who also wish to attend the 3rd UKOA ASM should indicate that on the relevant part of the registration form, to include the additional nights’ accommodation that will be required.

The outline schedule for both meetings is as follows:

Monday 22 July        10:00-17:30            UKOA ASM: Overview presentations, short (poster) presentations, poster sessions, discussions
Tuesday 23 July       09:00-17:30            UKOA ASM – continued
Wednesday 24 July 09:00-12:30            UKOA ASM – continued
13:30-17:00            Joint session of GOA-ON and UKOA ASM: “Observing ocean acidification and its ecosystem impacts at regional and global scale”
Thursday 25 July      09:00-18:00           GOA-ON workshop
Friday 26 July           09:00-16:00           GOA-ON workshop

For travel information, see the University of St Andrews website. Note:

Leuchars is the nearest rail station, 8km from St Andrews. There are frequent rail services from London (including overnight sleeper) and Edinburgh. From Leuchars, use a bus or taxi to complete your journey.
From Edinburgh airport, it is suggested that the airport bus is taken to the city centre (around 30 minutes, frequent service), then a train journey of around one hour from the main Edinburgh station (Waverley) to Leuchars. International participants may wish to consider spending a night in Edinburgh on their arrival and/or departure days

Queries regarding eligibility for attendance at either the UKOA ASM or GOA-ON workshop should be raised with the UKOA Science Coordinator, p.williamson(at)uea.ac.uk (+44 1603 593111). For information on other aspects, please contact Jodie Clarke.

Natural Environment Research Council, April 2013. More information.

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