See these posts for more detail:
Another great post doc opportunity at #UCDavis
Great opportunity: Postdoc Fellowship at #UCDavis in Population Biology
And if you want to apply and want more information contact the people in the ads or me or comment here. And furthermore if you are thinking of applying and want to work with me … well … definitely let me know.
New Biology Postdoctoral Fellowships
College of Biological Sciences
UC Davis
The College of Biological Science at UC Davis announces the New Biology Postdoctoral Fellowship program that will bring outstanding young researchers to campus to conduct highly integrative research addressing major societal challenges. Fellows will have a home in a sponsoring CBS laboratory and will conduct research that leverages the tools and approaches represented by at least one additional laboratory at UC Davis.
A 2011 report by the National Research Council champions the power of deep integration of traditionally distinct research approaches and methods. The essence of the New Biology, as defined by this report, is integration – re-integration of the many sub-disciplines of biology, and the integration into biology of physicists, chemists, computer scientists, engineers, and mathematicians to create a research community with the capacity to tackle a broad range of scientific and societal problems.
Application: Interested early career individuals should establish communications with at least one host laboratory in the UC Davis College of Biological Sciences
(http://biosci.ucdavis.edu/the_college/index.html) and a second bridge laboratory from throughout the UC Davis community that can be from CBS or any other campus department. Applicants should submit a cover letter that includes names and addresses of three letter writers, with their CV, statement of research accomplishments (1-2 pages) and a project summary of not more than 4 pages describing the research goals, the proposed integration of approaches, and explains how the work will lead to progress on a major societal challenge in nutrition, energy, health or the environment. Applications must be made electronically at: https://recruit.ucdavis.edu/apply/JPF00168.
Duration: Fellows are awarded a two year appointment.
Duties of the Fellow: In addition to conducting new research, the fellow would engage the community at UCD on three levels throughout the term of the fellowship:
The fellow would give a research seminar near the inception of their tenure as an introduction of themselves and their research to the life sciences community at UCD.
During the course of their tenure the fellow would offer a workshop or discussion series aimed at graduate students and others involving the transferal of new methods, tools, techniques or concepts to the UCD community. This might take the form of a focused workshop to demonstrate the utility of new analytical techniques or a more distributed discussion group that stretched over the course of fellow’s tenure. This activity will be defined in collaboration with the primary host PI and normally will take place during the second year of the postdoc.
The fellow would engage the non-academic community in some form of public outreach activity. This could be a lecture aimed at the general public, an outreach event at local schools, picnic day, etc.
Together with the development of a fellow’s research program these three activities will help prepare the fellow for the multiple demands of academic life: research, teaching, and outreach.
Salary and Research Support: Awardees will be paid a salary of $50,000 per year ($34K from CBS, $8K from the hosting department, and $4K from each of the two sponsoring faculty members plus 15.6039% for benefits and GAEL). While some research infrastructure will be supported by the host labs, to allow the scholar to pursue his or her research independent of grant funding from the host labs, a $10,000 per year research and travel budget will be provided by the college.
Selection Criteria:
Ph.D. in biological sciences or related field at the time of appointment (but not necessarily at the time of nomination, as we would want to consider very recent PhDs.)
Publication and prior research record that shows strong evidence of independent thinking and “superstar” potential
Proposed research agenda / project that capitalizes on different research strengths of the two sponsoring faculty at UC Davis.
EFFECTIVE: October 14, 2013
APPLICATION DEADLINE: January 6, 2014
NEW BIOLOGY POSTDOCTORAL FELLOWSHIP Ad Final.docx
Forwarding this …
“Registration is now open for Bioinformatics Bootcamps in December!
We’re excited to announce our next offering of Bioinformatics Bootcamps, which will be held on the UC Davis campus December 10-13.
These focused one-day courses are perfect for the student, postdoc, faculty, or industry professional looking to get up to speed quickly on the latest technologies and techniques in bioinformatics. Students will work on their own laptops and have continued access to software and example data used in the exercises through our public Amazon Web Services virtual machine (details here). The first three bootcamps will use the Galaxy platform, and the final bootcamp will use both Galaxy and the command-line. The Alignment and Assembly bootcamps (Dec. 11th & 12th) require you to know Galaxy, so if you are unfamiliar with Galaxy, you should also take the Introduction bootcamp on Dec. 10th.
Tuesday, December 10:
Introduction to Next-Generation Sequence Analysis with Galaxy
Wednesday, December 11:
Next-Generation Sequence Alignment and Variant Discovery
Thursday, December 12:
Genome Assembly using Next-Generation Sequence Data
Friday, December 13:
Introduction to the Amazon Cloud for Galaxy and the Command-Line
Daily instruction will run from 9am until 5pm. Lunch, light breakfast, and snacks will be provided. Enrollment for each bootcamp will be capped at 24 students. Please enroll early to be assured of a seat, as these bootcamps usually fill up quickly!
More information, including full descriptions of each bootcamp can be found at https://training.bioinformatics.ucdavis.edu/bootcamps/
Pricing and Payment
The cost for each bootcamp is $200 (academic/government) or $250 (non-academic/industry). We now accept credit cards. UC Davis attendees can also charge their registration directly to a DaFis account.
Questions
If you have any questions, please don’t hesitate to contact us:
· Training email: training.ucdbio@gmail.com
· Core email: ucdbio@gmail.com
· Core main telephone line: 530-752-2698
We hope to see you in December!
– The UC Davis Bioinformatics Core Team
http://training.bioinformatics.ucdavis.edu
http://bioinformatics.ucdavis.edu/
Uggh … now Google+ is taking a page out of the crappy parts of Facebook.
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Got interviewed last week by Victoria Schlesinger about open science and open data issues and she has now posted her article: Scientists threatened by demands to share data | Al Jazeera America. The article includes a discussion primarily about the push for more open release of data (and also a bit about papers) and some of the challenges associated with this push. There are some good quotes in the article both from Schlesinger’s text and from some key players in the field of data access including:
Cool story on Radio New Zealand featuring one of my favorite microbiologists (Kyria Boundy-Mills) and one of my favorite microbiology related things at UC Davis (the Phaff Yeast Collection).
http://www.radionz.co.nz/audio/remote-player?id=2570012
Dear Colleague,
British Biotechnology Journal (BBJ) is an OPEN peer-reviewed, OPEN access, INTERNATIONAL journal, inspired from the great OPEN Access Movement. We offer both Online publication as well as Reprints (Hard copy) options. Article Processing Charge is only 50 US$ as per present offer. This journal is at present publishing Volume 4 (i.e. Fourth year of operation).
2. Transparent and High standard Peer review:
In order to maintain highest level of transparency and high standard of review, this journal presently follows highly respected and toughest Advanced OPEN peer-review system(Example Link1, Link2, Link3, Link4, Link5, Link6, Link7, Link8, Link9, Link10,Link11, etc). We hope that you will appreciate this Advanced OPEN peer-review system, which is expected to give doubtless scholarly benefit and impact to the authors in long run. Additionally we strongly encourage and promote “Post-publication Peer review” by ourcomment section.
As per a recent report (Link) of Science journal (present Impact factor 31), one of our journal passed a stringent test of quality of Peer review by rejecting a fake article (Link1,Link2, Link3). We applaud the dedication and hard-work of our peer reviewers and editors to maintain the high standard of our journals. It was reported that only few journals (20), out of total 304 journals tested, rejected the fake article after substantial peer review. We are happy that our journal was among these few successful journals along with industry leaders like PLoS One, Hindawi, etc. We believe that the result of this experiment also proved the efficacy of our Advanced OPEN peer review and ‘post publication’ peer review system. Though the report is debated, as it did not include subscription journals, we normally support any effort to improve the quality and transparency of peer review.
3. Proposed Time Schedule:
Submission to first editorial decision with review comments: 3 weeks
Submission to publication: 6 weeks
State-of-the-art ‘running issue’ concept gives authors the benefit of ‘Zero Waiting Time’ for the officially accepted manuscripts to be published.
4. Abstracting/indexing:
Many respected abstracting/indexing services covered our journals.
- ISI Thomson Reuters
(Only for ARRB)
- HINARI
(United Nation’s Database)
- CAB abstract
(UK)
- EBSCOhost (USA) (Mail confirmation link)
- AGORA
(United Nation’s FAO database)
- SHERPA/RoMEO
(UK)
- OARE
(United Nations Environment Programme (UNEP), Yale University, etc.)
- Zentralblatt MATH
(only for BJMCS)
- Chemical Abstracts Service (“CAS”) (Mail confirmatiom link)
- For more information please visit here.
5. Authors’ profile:
Considering high peer review standard, quality control, etc. our journals have been chosen by academicians of many famous universities, institutes, etc. A glimpse of authors’ profileis provided here.
6. Testimonials:
Appreciation of our esteemed satisfied authors is the greatest inspiration behind the hard-work of our editorial team. Some of the testimonials are available here.
7. Article Processing Charge (or Publication Charge):
Article Processing Charge (or Publication Charge): Manuscript submitted within 1st July, 13 — 30th September, 2013 will be eligible for 90% discount on normal Article Processing Charge (APC) of 500 USD. (i.e. Effective APC: 50 USD). For more information visit here.
7.1. Reprints (Hard copy):
Reprints (Hard copy) are also available at extra cost. For detailed information please see here (Reprint information link).
8. Sample papers:
- Antibacterial and Antiviral Activities of Essential Oils of Northern…..
- African Cassava: Biotechnology and Molecular Breeding to the Rescue
- Growth Inhibition of Some Phytopathogenic Bacteria by Cell-Free Extracts fromEnterococcus sp
- Primary Somatic Embryos from Axillary Meristems and Immature Leaf Lobes of Selected ..
- Effects of Initiating Antihypertensive Therapy with Amlodipine or Hydrochlorothiazide on Creatinine Clearance in Hypertensive Nigerians with Type 2 Diabetes Mellitus
- Preparation of Protein Extraction from Flower Buds of Solanum lycopersicum for Two-Dimensional Gel Electrophoresis
- Diversity of Bacterial Community in Fermentation of African Oil Bean Seeds (Pentaciethra macrophylla Benth) by comparison of 16S rRNA Gene Fragments
- The Application Development of Plant-Based Environmental Protection Plasticizer
- Genetic Variability, Heritability and Genetic Advance in Pearl Millet (Penisetum glaucum [L.] R. Br.) Genotypes
9. Highly qualified Editors:
- Prof. Y. Dai,
Associate Director of Research, Revivicor Inc. Blacksburg, USA
- Prof. Viroj Wiwanitkit, Department of Laboratory Medicine, Faculty of Medicine, Chulalongkorn University, Bangkok, Thailand
- Dr. Jean-Marc Sabatier, Université de la Méditerranée-Ambrilia Biopharma inc., France
- Dr. Robert L. Brown, Food and Feed Safety Research Unit, USDA-ARS-SRRC, New Orleans, USA
- Dr. Giuseppe Novelli, Università di Roma Tor Vergata, Rome, Italy
- Dr. Juan Pedro Navarro – Aviñó, Technical University of Valencia, Spain
- Dr. Nikolaos Labrou, Department of Agr. Biotechnology, Agricultural University of Athens, Greece.
10. Manuscript submission
Option 1:
Online submission (recommended): Subcentral (http://www.sciencedomain.org/login.php)
Option 2:
Email attachment to the editorial office at submission@sciencedomain.org.General Guideline for Authors: http://www.sciencedomain.org/page.php?id=general-guideline-for-authors
To download MS word SDI paper template click here
To download SDI Manuscript Submission form click here
To download Latex paper template click herewith regards,
Ms. Samapika Mondal
British Biotechnology Journal : An OPEN peer reviewed journal
www.sciencedomain.org; E-mail: editor.60@sciencedomain.org
Reg. Office:
UK: SCIENCEDOMAIN international, Third Floor, 207 Regent Street, London, W1B 3HH,UK,Registered in England and Wales, Company Registration Number: 7794635, Fax: +44 20-3031-1429
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India: SCIENCEDOMAIN international, U GF, DLF City Phase-III, Gurgaon, 122001, Delhi NCR, Corp. Firm Registration Number: 255 (2010-11), Fax: +91 11-66173993
I just love this paper … The human gut and groundwater harbor non-photosynthetic bacteria belonging to a new candidate phylum sibling to Cyanobacteria | eLife from the labs of Ruth Ley and Jill Banfield (1st author is the co-first authors are Sara C. Di Rienzi and Itai Sharon). It represents a landmark study in something that has intrigued many microbial diversity / human microbiome researchers for many years. Early in the history of sequencing rRNA genes from human microbiome samples, researchers discovered something a bit weird – quite a few sequences were coming from what appeared to be close relatives of Cyanobacteria. This was weird because all known Cyanobacteria were thought to be photosynthetic and – well – there is not too much light in the human gut.
Now – one possible explanation for this was that these sequences were coming from photosynthetic bacteria but these bacteria were not residents of the human gut but came via consumable items (i.e., food and drink). Perhaps they were actually from chloroplasts of something in the diet (after all – chloroplasts are derived versions of cyanobacteria). This idea was discussed at many meetings I attended. But there was no evidence for this. Another possibility was that there was in fact some light in the human gut – leaking through from the outside or being produced from the inside. And perhaps this was enough to do a little photosynthesis. Sound crazy? Well, not so crazy after reports of photosynthesis in the deep sea. A third possibility was that these sequences were coming from residents of the human gut that were related to (or even within) cyanobacteria but were not photosynthetic. More detail on possible explanations are in this new paper and in some of the material cited therein.
Anyway – Ruth Ley has been discussing these unusual sequences for years and now in this paper her group and the group of Jill Banfield at Berkeley (along with some others) has used metagenomics and detailed assembly and phylogenetic analysis to reveal many new insights into these sequences. I could write much more about this. But, I think the paper really speaks for itself. And it is open access so anyone and everyone can check it out. And you should. It is wonderful.
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| Fig 2 from Di Rienzi et al. |
UPDATED 10/9/2013 to correct that there were co-first authors
https://static.googleusercontent.com/external_content/picasaweb.googleusercontent.com/slideshow.swf
See full screen slideshow via Picasa here. Individual pics below: 
Jonathan Eisen's Lab 
