Simons, James | 23 May 19:31 2016

Update about release of new version of GoMexSI webpage and video

Hi to all,

 

  Just a quick note on one of my infrequent updates to let you know that we officially released the GoMexSI ver 2.0 webpage (finally), on Friday, 20 May 2016.  This will be followed by a press release in the US,  Mexico, and hopefully Cuba as well.

 

  Briefly, the updated release will:

 

--             Contain much more data that when first released on 3 Sep 2013 (and we have much more in the pipeline for release in the near future)

--             Have both English and Spanish versions

--             Highlight a new video that is in both English and Spanish

--             Show our new logo at the top of the page

--             Contain some new features on the query pages (such as the ability to open multiple windows on the Explorer page)

--             Additional items that have been live on the page for a while now, such as results of Texas fish gut round-up from last summer.

--             And more….

 

  In the near future we are expecting to have a greatly expanded number of parameters available on the csv download. We are also planning to have a teacher workshop in the coming months as a precursor to developing some content and tools for teachers (K-12) to use in their classrooms. That work will be in conjunction with the Texas State Aquarium and the Center for Coastal Studies Education/Outreach programs.  We are also now working with Fishbase/SeaLifeBase IT personnel to build close linkages between those internationally known databases/webpages and GoMexSI.  And talks are underway to build linkages between the UT Fishes of Texas database/website and GoMexSI.  Look for all this and more in the future.

 

  Recently, several journal articles have cited and used data from GoMexSI.  This is great news, and what we are all about.  These articles will be cited on the GoMexSI website in the near future.

 

  As always, please contact us if you have questions, concerns, or ideas to improve the webpage and/or database.

 

  We continue to look for new partners, especially experts in taxa other than fishes, although we would like those as well.  Assistance with data acquisition, extraction, and editing is always needed.  We are also in need of a new person to assist with maintaining and improving our webpage.  Our previous webmaster, Reed Hewitt, has moved on to a new position in Florida.  He will be missed!!!

 

Thanks to all who have supported our efforts.  Check us out at:  gomexsi.tamucc.edu.

 

Take care,

 

The GoMexSI team

 

 

James D. Simons, Ph.D.

Associate Research Scientist

 

Center for Coastal Studies

Natural Resources Center 3200

6300 Ocean Drive, Unit 5866

Corpus Christi, Texas 78412-5866

O 361.825.3223  *  F 361.825.2770

 

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Axel G. Rossberg | 6 Jan 15:10 2016
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Two fully funded PhD studentships

Dear Colleagues

Queen Mary University of London is currently advertising two fully
funded PhD studentships related to food webs, one on

* Competition and coexistence in complex ecological communities

the other on 

* Spatially explicit theoretical community ecology

Would you please be so kind and circulate this widely among those who
might be interested?

Best wishes,

Axel Rossberg

PROJECT 1:

COMPETITION AND COEXISTENCE IN COMPLEX ECOLOGICAL COMMUNITIES

This project addresses a fundamental unsolved ecological problem: how
many species will typically coexist in an ecological community
structured by an interaction network (e.g. a food web)? Using a bit of
matrix trickery, one can reduce this problem to a question about the
eigenvalues of an effective competitive overlap matrix, which has ones
on the diagonal and off-diagonal elements distributed depending on
details of the underlying system (Rossberg 2013, ISBN
9-780470973-55-4). Observations, simulations, and heuristic arguments
suggest that, through species turnover, the number of species
eventually adjusts itself such that the area in the complex plane
covered by the eigenvalues of that matrix touches zero. Aim of the
project is to derive, for increasingly realistic community models,
analytic predictions of the species richness where this happens, and
to map out the full extent to which the theory explains existing field
data.

Application deadline is 31 January, for details see http://www.sbcs.qmul.ac.uk/postgraduate/research/projects/168107.html

PROJECT 2:

SPATIALLY EXPLICIT THEORETICAL COMMUNITY ECOLOGY

Community ecology, metacommunity theory, and environmental niche
modelling are three of many established approaches designed to predict
the probability of presence or absence of species at sites. This PhD
project will aim to unify these approaches through the study of
minimal, spatially explicit community models. This will involve
constructing such models, simulating them on a high-throughput
cluster, identifying emerging patterns, and confronting these with
patterns in empirical data. Improvement of existing mathematical
theories to explain observed patterns mechanistically is another
desired outcome. The research will contribute to filling knowledge
gaps in predicting the response of the biosphere to climate change,
intensive land use, and other pressures.

Application deadline is 31 January, for details see http://www.sbcs.qmul.ac.uk/postgraduate/research/projects/168108.html
Darren M Evans | 1 Jul 16:36 2015
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2nd international symposium on ecological networks | Bristol, UK

Ecological Networks: Theory, Empiricism and Practice in a Changing World

2nd international symposium on ecological networks | Bristol, UK

Monday 7 and Tuesday 8 September 2015

Registration extended to 10 July:  http://www.brc.ac.uk/networksymposium/

........................................................

 

Dr. Darren M. Evans

Reader in Conservation Biology

 

School of Biological, Biomedical and Environmental Sciences

Room 317 Hardy Building

University of Hull

Cottingham Road

Hull

HU6 7RX

 

Website

Tel +44 (0)1482 465187

Twitter: <at> DarrenMarkEvans

 

..........................................................................

 

ZSL Animal Conservation

Top 10 journal in Biodiversity Conservation

Website

 

..........................................................................

 

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Darren M Evans | 24 Jun 09:21 2015
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2nd International Symposium on Ecological Networks

FRIDAY REGISTRATION DEADLINE for the 2nd international symposium on ecological networks, Britsol http://t.co/PJOf3f5sMo

Darren Evans
Hull Network Ecology Group
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Darren M Evans | 8 Jun 10:27 2015
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Ecological Networks symposium, Bristol 7/8 September

Online registration is now open for:

 

Ecological Networks: Theory, Empiricism and Practice in a Changing World 2nd International Symposium on Ecological Networks Bristol, UK, 7 and 8 September 2015

 

The Keynote Speakers are:

 

     Professor Jason Tylianakis, University of Christchurch, New Zealand

     Professor Pedro Jordano, Estacion Biologica de Donana, CSIC, Spain

     Dr Anna Traveset, Mediterranean Inst. of Adv. Studies, Terrestrial Ecology Group, Mallorca, Spain

     Dr Thilo Gross, Department of Engineering Mathematics, University of Bristol

     Dr Michael Traugott, Institute of Ecology, University of Innsbruck

 

Please see the symposium webpage here:

http://www.brc.ac.uk/networksymposium/

 

Registration and payment is via Bristol University's online shop, here:

http://shop.bris.ac.uk/browse/extra_info.asp?compid=1&modid=2&catid=71&prodid=109

*Registration closes on 26 June*.

 

Please forward this email to anyone who may be interested, and don't hesitate to contact me if you have any questions.

 

I look forward to meeting you in September,

 

Nancy Jennings

Symposium Secretary

 

on behalf of the hosts:

Professor Jane Memmott, University of Bristol Dr Michael Pocock, CEH Dr Darren Evans, University of Hull Dr Daniel Montoya, University of Bristol

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Toshiyuki Namba | 31 Mar 06:54 2015
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Special Feature on Complexity-Stability Relations

Dear Colleagues,

A Special Feature on

Unravelling ecological networks: complexity-stability relations
and diversity of interaction types

was recently published in Population Ecology.

http://link.springer.com/journal/10144/57/1/page/1

The authors are Kondoh and Mougi, Fontaine and Thébault, Toju,
Tokita, and Allesina and Tang.

As a preface for the special feature, I briefly reviewed the
history of research on complexity-stability relationship till
the idea of diversity of interaction types appears.

I hope some list members are interested in the special feature.

All the best,
Toshi

_/_/_/_/_/_/_/_/_/_/_/_/_/_/_/_/_/_/_/_/_/_/_/_/_/_/_/_/_/_/
      Toshiyuki NAMBA
      Osaka Prefecture University,
      Graduate School of Science
      Department of Biological Science
      Gakuen-cho 1-1, Naka-ku, Sakai, 599-8531 JAPAN
      Tel/Fax: 072-254-9183
      email: tnamba <at> b.s.osakafu-u.ac.jp
_/_/_/_/_/_/_/_/_/_/_/_/_/_/_/_/_/_/_/_/_/_/_/_/_/_/_/_/_/_/
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Tak Fung | 29 Mar 06:42 2015
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New paper on effects of biodiversity loss in complex marine food webs


Dear Food-webbers,

Our new food web paper was published earlier this week, and we hope that it may be interesting and useful to members of this list:

Title and authors: Impact of biodiversity loss on production in complex marine food webs mitigated by prey-release. Tak Fung, Keith Farnsworth, David Reid, Axel Rossberg.

URL: http://www.nature.com/ncomms/2015/150323/ncomms7657/full/ncomms7657.html

Abstract: Public concern over biodiversity loss is often rationalized as a threat to ecosystem functioning, but biodiversity-ecosystem functioning (BEF) relations are hard to empirically quantify at large scales. We use a realistic marine food-web model, resolving species over five trophic levels, to study how total fish production changes with species richness. This complex model predicts that BEF relations, on average, follow simple Michaelis–Menten curves when species are randomly deleted. These are shaped mainly by release of fish from predation, rather than the release from competition expected from simpler communities. Ordering species deletions by decreasing body mass or trophic level, representing ‘fishing down the food web’, accentuates prey-release effects and results in unimodal relationships. In contrast, simultaneous unselective harvesting diminishes these effects and produces an almost linear BEF relation, with maximum multispecies fisheries yield at ≈40% of initial species richness. These findings have important implications for the valuation of marine biodiversity.

Best regards,

Tak

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Simons, James | 24 Jan 18:57 2015

FW: Afterthoughts . . . Re: gomexsi workshop wrap-up

Hi to all,

 

  I am forwarding the email concerning the recent GoMexSI/GloBI workshop.  I apologize to those who have already received the below email.

 

  Please feel free to communitcate with us if you have questions or are interested to know more about another workshop.

 

Thanks,

 

GoMexSI team

 

From: jorrit poelen [mailto:jhpoelen-qWit8jRvyhVmR6Xm/wNWPw@public.gmane.org]
Sent: Thursday, January 22, 2015 12:39 PM
To: Simons, James; Brian Hayden (brian.hayden-kQW2Dzt44JA@public.gmane.org); Yuan, May (myuan-DNmUmOh1Rg72fBVCVOL8/A@public.gmane.org); Dave Reed; Skyler Sagarese (s.sagarese1-6ft+5RaVQuW1zw4bZebV9Q@public.gmane.org); Jennifer Hammock; Bradley Ennis; rebeca.qp-Re5JQEeQqe8AvxtiuMwx3w@public.gmane.org; Kalen Rice; Mitchell, Theresa; Tracy Weatherall; Cai, Xiaopeng
Subject: Afterthoughts . . . Re: gomexsi workshop wrap-up

 

Hey y’all,

 

As you might know, we had a GloBI / GoMexSI workshop review session yesterday (Jan 21, 2015). You can find the notes here: https://github.com/GoMexSI/workshop/wiki/Post-workshop-Review .

 

One of the many take-aways I had is that folks are eager to learn more about GitHub and R for managing and accessing interaction data. I think the great thing about these tools is that a large community actively uses this tool combo to help with their scientific explorations, so many online resources are available. And . . . I am excited to see that the GoMexSI team is now actively using GitHub for data management (see https://github.com/gomexsi/interaction-data) and discussions (e.g. https://github.com/GoMexSI/interaction-data/issues/1). 

 

Here’s just two of the many R and GitHub introductions that are available online:

 

Hope this was useful and let me know if you have any questions,

-jorrit

 

PS Picture take during workshop at Texas A&M Corpus Christi in Dec 2014 (see https://github.com/GoMexSI/workshop/wiki/participants).

 

 

On Jan 17, 2015, at 2:41 PM, Simons, James <James.Simons-at6qt1C6Z5Y3uPMLIKxrzw@public.gmane.org> wrote:



Hi to all.

 

  Sorry for the short notice but we wanted to have a gomexsi post-workshop call for an hour or so this coming week on Wednesday, Jan 21st.  Please let us know if you are able/interested to attend.  We are thinking of doing it at 1300 Corpus time (CST).

 

  If this is too short of notice for most of you perhaps we can re-schedule, but it would have to be Feb 2,3 or 6.

 

Thanks,

 

Jim

 

 

James D. Simons, Ph.D.

Associate Research Scientist

 

Center for Coastal Studies

Natural Resources Center 3200

6300 Ocean Drive, Unit 5866

Corpus Christi, Texas 78412-5866

O 361.825.3223  *  F 361.825.2770

 

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Simons, James | 24 Jan 18:54 2015

GoMexSI update

Hi to all,

 

  I have been meaning to send this out for some time now.

 

  We currently have 62,759 lines of data from 103 references in the GoMexSI database, up from about 40K a short time ago.  In addition we have many thousands of lines of extracted data awaiting editing and mostly awaiting spatial data. We are working on both of these fronts now.

 

  Recently TAMUCC became a member of the Ecopath Consortium, in large part due to the efforts on the GoMecSI database and the leadership of Francisco Arreguin Sanchez who cited our work in a recent Fisheries Centre publication. I was able to attend the Ecopath 30 Years meeting in Barcelona and made some good contacts for the GoMexSI project.

 

  In early December we held a 2.5 day GoMexSI.GloBI workshop in which we discussed the database structure, use of R and Cypher to access data, and other topics.  I will forward a short email synopsis of the workshop wrap-up we held a couple of days ago.  We hope to have future workshops if there is interest.  Please let us know if you would like more info.

 

  We are busy with our MARFIN project and will soon be working on the gut contents of over 1000 fish specimens to add to the data collected by our collaborators at USF in Florida.

 

Thanks again to all of you for your interest and time.

 

The GoMexSI team,

 

 

James D. Simons, Ph.D.

Associate Research Scientist

 

Center for Coastal Studies

Natural Resources Center 3200

6300 Ocean Drive, Unit 5866

Corpus Christi, Texas 78412-5866

O 361.825.3223  *  F 361.825.2770

 

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Darren M Evans | 6 Jan 14:30 2015
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Funded PhD: ecological network robustness

Dear All

 

I have a funded PhD studying the robustness of ecological networks available in my lab. Would suit a numerate ecologist. Closing date is 2 Feb 2015. More details at: tinyurl.com/nrqu98b

 

Do forward this to anyone you know who might be interested.

 

Many thanks

 

Darren Evans

 

........................................................

 

Dr. Darren M. Evans

Senior Lecturer in Conservation Biology

 

School of Biological, Biomedical and Environmental Sciences

Room 317 Hardy Building

University of Hull

Cottingham Road

Hull

HU6 7RX

 

Website

Tel +44 (0)1482 465187

Twitter: <at> DarrenMarkEvans

 

..........................................................................

 

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Christian Mulder | 20 Nov 12:58 2014
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Novel soil food web in American Naturalist

Dear All

Please pass on to anyone you think might be interested.

Many thanks and regards

Christian


 


Dr. Christian Mulder
Quantitative Macroecology, head
Centre for Sustainability, Environment and Health
National Institute for Public Health and Environment
P.O.Box 1, NL-3720 BA Bilthoven, The Netherlands
https://www.researchgate.net/profile/Christian_Mulder2?ev=hdr_xprf
Phone Office: ++31 (0) 30 274 31 48 - Skype: christian.mulder.traitnet


Proclaimer RIVM http://www.rivm.nl/Proclaimer
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