Job Postings

CMI & Danone Nutricia Research- Postdoctoral Fellow - Nutrition

The Center for Microbiome Innovation seeks applications for a motivated Postdoctoral research fellow with a strong background in nutrition and dietary assessment to work into a collaborative program between UC San Diego-American Gut and Danone Nutricia Research.

The appointee will provide dietary assessment and analysis expertise for a multidisciplinary team working to understand the food factors influencing the gut microbiota.

Scope of research:

  • Investigate the links between dietary patterns, foods and gut microbiome in collaboration with bio-computationists, microbiologists, data scientists and nutritionists involved in the program. Evaluate and scope potential adaptation of existing or in development food questionnaire tools adapted to different countries.

Qualifications & requirements:

  • Ph.D. in nutrition
  • Strong skills in quantitative assessment techniques and interpretation of dietary intake data. Experience collecting and processing food records, 24-hour dietary recalls and/or food frequency questionnaires including data cleaning, data management and data analysis.
  • Statistical analysis good basic knowledge in order to be able to work in collaboration with data managers & biostatisticians.
  • Previous programming experience would be a plus.
  • Basic knowledge on gut microbiome
  • Ability to work independently in a very strong collaborative environment Excellent communication skills:
    • good spoken and written English
    • ability to communicate at different levels and in different environments including meetings and conferences: exchanges with the CMI, the private partner and with scientists from different fields: microbiologists, nutritionists, statisticians
    • scientific writing skills.

Host faculty include Rob Knight (Pediatrics and Computer Science & Engineering), and Sandrine Miller-Montgomery (Bioengineering).

Please email a completed application form (http://cmi.ucsd.edu/PostDocApplication) and support documents to CMIInfo@ucsd.edu to apply.

Note: If you have relatives employed at UC San Diego, you must include the name, relationship, and department where employed in your resume or cover letter. This information is used only for the purpose of complying with the University’s nepotism policy.

CMI & Danone Nutricia Research- Postdoctoral Fellow - Bioinformatician

The Center for Microbiome Innovation seeks applications for a bioinformatician for a collaborative program between UC San Diego-American Gut and Danone Nutricia Research  

Scope of research:

  • Lead a bioinformatic project focus on diet impact on microbiome
  • Develop microbiome analysis tools to assess the significant relationships between diet and microbiome data (16S and shotgun)
  • Apply machine learning concepts to microbiome data for feature extraction

Qualifications:

  • Ph.D. in a relevant discipline, including in the areas of computer science, computational biology, or a related field
  • Experience with programming in Python and/or R
  • Strong research record and background in computational science, statistics and/or biology
  • Proficiency with relational databases is a plus
  • Undergraduate or graduate coursework or degree in Biology or a related field is a plus
  • Undergraduate or graduate coursework or degree in Statistics is a plus
  • Experience with Qiime, and Qiita is a plus 
  • Good communication skills (exchanges with the CMI and the private partner, and with scientists from different fields: microbiologists, nutritionists, statisticians, ability to work in a transversal project mode…)

Host faculty include Rob Knight (Pediatrics and Computer Science & Engineering), and Sandrine Miller-Montgomery (Bioengineering).

Please email a completed application form (http://cmi.ucsd.edu/PostDocApplication) and support documents to CMIInfo@ucsd.edu to apply.

Note: If you have relatives employed at UC San Diego, you must include the name, relationship, and department where employed in your resume or cover letter. This information is used only for the purpose of complying with the University’s nepotism policy.

CMI - Postdoctoral Fellow - Microbiome Technology Development at UC San Diego

The Center for Microbiome Innovation (CMI) seeks applications for a postdoctoral position in multi-omic technology and methods development. The candidate will be responsible for designing, developing, and testing of novel tools, methods, and instruments that will enable breakthroughs in the field of microbiome research. Activities will include metagenomics-focused projects as well as metatranscriptomics, metabolomics, proteomics, and microbiology.

Scope of research:

  • Next-generation sequencing technique development using Illumina sequencing technology as well as novel long-read techniques
  • Evaluation of novel tools, instruments, and methods for multi-omic characterization of microbiome samples
  • Analysis of microbial communities in the gut, oral, skin, and tumor microbiome
  • Exposure to world-class bioinformatics and biostatistics teams
  • Close interaction with industry partners
  • Effectively communicate data and results at internal and external meetings/conferences.
     

Qualifications:

  • Ph.D. in a relevant discipline, including in the areas of microbiology, biochemistry, immunology, biology, systems biology or a related field
  • Experience working with next-generation sequencing library preparation, hybridization technologies, nucleic acid extraction, qPCR/RT-PCR, flow cytometry, ELISA, western blot mammalian cell/tissue and bacterial culture, conjugation chemistry and host nucleic acid depletion are highly desired
  • Excellent communication and organizational skills
  • Strong research record
  • Experience with Python, Qiime, and Qiita is a plus
     

Host faculty includes Sandrine Miller-Montgomery (Bioengineering) and Rob Knight (Pediatric, Bioengineering, and Computer Science & Engineering).

Please email a completed application form (http://cmi.ucsd.edu/PostDocApplication) and support documents to CMIInfo@ucsd.edu to apply.

Note: If you have relatives employed at UC San Diego, you must include the name, relationship, and department where employed in your resume or cover letter. This information is used only for the purpose of complying with the University’s nepotism policy.

UC San Diego - Assistant or Associate Project Scientist - Microbiome

The University of California, San Diego, Department of Pediatrics is seeking a PhD scientist with a background in bioinformatics and microbiome research to support research activities in the laboratory of Dr. Jack Gilbert (Pediatrics and SIO). The Project Scientist will be expected to conduct independent research in collaboration with Dr. Gilbert, as well as working on existing and new research programs led by Dr. Gilbert.

The Project Scientist will be responsible for working on grant applications, coordinating research programs in the lab, mentoring graduate students and postdoctoral researchers, and other junior personnel, in addition to taking part in departmental meetings, research travel, messaging and communication associated with lab activities, delivering upon publications, funding reports to sponsors, and presentations at local, national and international conferences. Candidates must be willing to explore diverse research opportunities, and be able to provide references to back their commitment to supporting and enabling a diverse and safe laboratory environment for all personnel.

Candidates must have a PhD in the general area of microbiome science with at least 2 years of postdoctoral experience. Candidates must be able to provide evidence of collaborative research,

A demonstrated ability to obtain funding (including fellowships, travel awards, and funding proposals) is preferred.

Appointment will be at Assistant or Associate Project Scientist level based on background and years of experience. Salary is commensurate with qualifications and based on University of California pay scales.

A link to full description of the Project Scientist series is provided for
your review:

Applications must be submitted through the University of California San
Diego’s Academic Personnel RECRUIT system at:
https://apol-recruit.ucsd.edu/apply/JPF02019.

References may be requested from all finalists.

The University of California is an Equal Opportunity/Affirmative Action Employer. All qualified applicants will receive consideration for employment without regard to gender, race, color, religion, sex, national origin, disability, age or protected veteran status.

REQUIREMENTS

Document requirements

  • Curriculum Vitae - Your most recently updated C.V.

  • Statement of Contributions to Diversity - Applicants should summarize their past or potential contributions to diversity. See our Faculty Equity site for more information.

  • Misc / Additional (Optional)

Reference requirements

  • 3 required (contact information only)

UC San Diego - Assistant Professor, Joint Appointment - Signal Processing in Applied Ocean Science

The Scripps Institution of Oceanography (SIO) and the Department of Electrical and Computer Engineering (ECE) in the Jacobs School of Engineering at the University of California San Diego (http://scripps.ucsd.eduhttp://ece.ucsd.edu) invite applications for the joint faculty position listed below. We seek a motivated, broad-thinking scientist-educator to establish a vigorous research program and provide intellectual leadership in their field while complementing existing expertise at SIO, ECE, and other UC San Diego departments. We are committed to academic excellence and diversity within the faculty, staff, and student body. The departments are interested in candidates who have demonstrated commitment to excellence by providing leadership in teaching, research, and service towards building an equitable and diverse scholarly environment.

We invite applications for a joint Assistant Professor position with a research focus on signal processing in applied ocean sciences. Of interest are all aspects of signal processing in the ocean including but not limited to: the development of innovative signal processing and parameter estimation approaches for use with data collected from arrays of marine sensors (acoustic, seismic, electromagnetic), environmental inversions, data assimilation, and marine environment sensing technology development. Preferred candidates will have demonstrated the potential capacity to develop/maintain an innovative sea-going research program along with mentorship of both graduate and undergraduate students and an established record of exceptional classroom instruction.

Applicants are required to have a PhD or advancement to candidacy at the time of application in Engineering, Physics, Oceanography or a related field, a competitive record of publication and service, as well as evidence of ability or strong potential to secure extramural funding and conduct an active research program. The position requires teaching of University studies at the undergraduate and graduate level. Salary will be consistent with the applicant’s qualifications and experience and with University of California pay scales.

UCSD is an equal opportunity/affirmative action employer with a strong institutional commitment to excellence and diversity (http://diversity.ucsd.edu).

 

REQUIREMENTS
Document requirements

  • Curriculum Vitae - Your most recently updated C.V.

  • Cover Letter

  • Statement of Research

  • Statement of Teaching

  • Statement of Contributions to Diversity - Applicants should summarize their past or potential contributions to diversity. See our Faculty Equity site for more information.

  • Misc / Additional (Optional)
     

Reference requirements

  • 3 letters of reference required

UC San Diego - Assistant Professor - Systems Engineering

The University of California, San Diego, Jacobs School of Engineering (http://jacobsschool.ucsd.edu/), invites applications for a tenure-track faculty position (Assistant Professor) in our dynamic and rapidly growing engineering school. The Jacobs School of Engineering is committed to building an excellent, diverse and inclusive faculty, staff and student body. Partnership with industry and our community is at the core of the University's mission; the successful applicant will be expected to establish a vigorous program of high quality research that complements existing collaborative research programs and reflects UC San Diego's leadership as a research university. Faculty in the Jacobs School of Engineering benefit from the presence of numerous major research centers at UC San Diego and the Jacobs School's leadership in fostering interdisciplinary basic research and collaborations with industry.

The appointment will be in the Jacobs School of Engineering, within one or more of our six departments:

  • Bioengineering (BENG),
  • Computer Science and Engineering (CSE),
  • Electrical and Computer Engineering (ECE),
  • Mechanical or Electrical Engineering (MAE),
  • Nanoengineering (NANO), and/or
  • Structural Engineering (SE).

The open position is in the fields of

  • Designing systems at scale
  • Analysis, control and design optimization of complex systems
  • AI for complex systems designs
  • Model based engineering
  • Uncertainty in complex systems design
  • Computational methods for multiphysics, multiscale and multifidelity analysis and optimization of interconnected systems

This position requires teaching of university students and applicants are required to have a PhD or advancement to candidacy at the time of application. The degree should be in bioengineering, computer science, electrical engineering, engineering physics, computer engineering, mechanical engineering, aerospace engineering, nanoengineering, structural engineering, or a related area. Candidates with experience with or willingness to engage in activities that contribute to diversity and inclusion are especially encouraged to apply.

UC San Diego - Postdoctoral Fellow – Thackray Lab - Gut Microbiome, Reproduction, and Metabolism

 

A postdoctoral fellowship position is available to employ a PCOS mouse model to gain mechanistic insight into the role of the gut microbiome in PCOS. Recent studies from the Thackray lab demonstrated that changes in the gut microbiome are correlated with PCOS in women and in rodent models of the disorder and that these changes are linked with hyperandrogenism. The Thackray Lab (repro.ucsd.edu/thackray) is affiliated with the Department of Obstetrics, Gynecology and Reproductive Sciences, the Center for Reproductive Science and Medicine at UC San Diego and the Center for Microbial Innovation. Candidates should have a PhD and a strong background in mouse physiology, endocrinology or reproductive biology is preferred.

An opening on the Postdoctoral Training Program in Reproductive Sciences funded by NIH/NICHD is available for one year (U.S. Citizen or Green card status required) and further support is available through an R01 grant and a K12 Institutional Research and Academic Career Development Award (IRACDA). Salary is commensurate with UCSD pay scale. Start date is negotiable.

If interested, please contact Dr. Varykina G. Thackray at vthackray@ucsd.edu and provide a full CV and contact info for three references.

US Air Force - Research Scientist - Microbiome

UES, Inc. has an opportunity available for a Research Scientist with expertise in microbiome sample processing and analyses in support of current research efforts investigating the role of the gut microbiome in deployment-associated conditions for the US Air Force. A significant part of this effort will involve sample preparation and sequencing followed by analyses using bioinformatics tools designed to analyze microbial communities (e.g., amplicon analyses (QIIME/Mothur), metagenomics interpretation and visualization, shotgun analyses (MetaPhlAn/humann2), RNAseq, etc.). Experience with R programming or similar for statistics and data visualization would be preferable. The projects may expand to include metabolomics and thus experience with the associated sample handling and analyses for NMR and/or mass spectrometry would also be beneficial.

Requirements:

  • Ph.D. in microbiology, microbial ecology, bioinformatics, systems biology, or related field, is required.
  • Knowledge and experience in microbiome sample handling, processing, and analyses using bioinformatics tools.
  • Experience with R programming or similar for statistics and data visualization.
  • Excellent technical writing skills, proficiency in data review, and attentiveness to detail.
  • Ability to interact with team members from different research fields and in different locations.
  • This position is working within a government facility and requires U.S. Citizenship

Vanderbilt University - 2 Postdoc Positions - Personalized Medicine and Multi-omic Analyses or Animal-Microbe Interactions

Two postdoctoral positions are offered to join the Bordenstein Lab in the Departments of Biological Sciences and Pathology, Microbiology and Immunology at Vanderbilt University in Nashville, TN. The candidates will join one of two projects. 

  • The first project seeks applicants with interests and/or skill sets in personalized medicine and multi-omic analyses (genome, metabolome, metagenome, and metallome) to investigate the consequences of diet, ethnicity, and genetic variation on the human microbiome (recent paper). The candidate will join and have the opportunity to take a leading role in the fast growing, trans-institutional Vanderbilt Microbiome Initiative.  Strong computational expertise (data analysis, coding, and bioinformatics) will be important in this position.
  • The second project seeks applicants with interests and skill sets in animal-microbe interactions, evolution, endosymbiosis, phylosymbiosis, quantitative genetics, transcriptomes, fluorescent microscopy, or gene knockdowns/knockouts. The candidate will in part join a National Science Foundation project to study the genetic basis of symbioses between insects (Nasonia parasitoid wasps) and endosymbiotic bacteria (Wolbachia). The candidate will also participate in launching a second project (related paper) on the genetic basis of phylosymbiosis (host phylogenetic signal in the gut microbiome) and speciation. 

More information about the lab, topics, and systems can be found at the lab website: lab.vanderbilt.edu/bordenstein/

Additional information and resources for postdocs at Vanderbilt can be found at the Office of Postdoctoral Affairs and Postdoctoral Resources pages. 

If interested, please contact Seth Bordenstein immediately with a single pdf including (i) earliest start date (ii) a full curriculum vitae noting at least three references (iii) a statement of intent, career goal, research experience, and areas of growth and (iv) two example publications or other writings.

University of Costa Rica - Postdoctoral Position - Microbial Ecology

A postdoctoral position is available in the field of microbial ecology at the University of Costa Rica. Given its location in the middle of a Biodiversity Hotspot, its political and economic stability, and its extensive and well-connected national park system protecting more than 25% of its landmass, Costa Rica represents an ideal location for conducting research in this field. The University of Costa Rica is the leading academic institution in Central America and is offering this position for the first time in its history. This position has been awarded to the Host-Microbe Symbiosis Research group, led by Dr. Adrián A. Pinto-Tomás (https://scholar.google.com/citations?user=n5XIueMAAAAJ&hl=es).

The successful candidate will participate in an ongoing research project aimed at understanding the contributions of symbiotic gut microbes to the eco-physiology of several iconic species of wild herbivorous mammals and xylophagous insects, including peccaries, sloths, tapirs, ants, beetles and termites. Our project will describe the microbial communities of these herbivores using a combination of metagenomics and confocal and electron microscopy to establish the key players in these systems with the goal of cultivating these microbes. This will allow for the establishment of the first collection of ecologically-relevant, herbivore-associated anaerobic microbes in this biodiversity-rich country.

The successful candidate should have a PhD in Biological Sciences or in a related field, experience in culture-dependent and culture-independent microbiological methods, a working knowledge of bioinformatics analyses for the study of microbial communities, and a desire to advance the field of Tropical Microbial Ecology. This position is for 1-2 years and the successful candidate should be able to start as soon as possible at the University Main Campus located in San José, Costa Rica.

Interested individuals should send an application package to Dr Adrian Pinto-Tomás by email (adrian.pinto@ucr.ac.cr), consisting of:

  1. Cover letter describing your interest in this position.
  2. Your resume including key publications related to this position.
  3. A copy of your PhD transcript and degree.
  4. The names and contact information for three references.

UC Davis - Assistant Professor - Quantitative Biological Sciences

As part of a campus-wide initiative to hire leading research faculty with a strong commitment to teaching, research and service that will promote the success of underrepresented minority students (African-American, Latino (a)/Chicano (a)/Hispanic, and Native American) and address the needs of our increasingly diverse state, UC Davis announces an assistant professor faculty position in the College of Biological Sciences. Applications are encouraged from candidates with a strong disciplinary background in computational biology, bioinformatics, modeling, biostatistics or related discipline that will fit within one of the College’s departments and/or centers.

In addition to a strong record of research and teaching excellence, the successful candidate will demonstrate an understanding of the barriers preventing full participation of underrepresented minorities in higher education. The successful candidate also will have an accomplished track record (calibrated to career stage) of teaching, research or service activities addressing the needs of underrepresented minorities, and a clearly articulated vision of how their work at UC Davis will continue to contribute to the University’s mission of serving the needs of our diverse state and student population. Applicants’ track record of engagement and activity related to diversity, equal opportunity, and inclusion as well as their plans for future engagement will be a significant part of the overall evaluation of the candidate’s qualifications for a faculty appointment.


Minimum Qualifications

Ph.D. or equivalent degree awarded by time of hire, where the topic of the work is in or related to computational biology, bioinformatics, modeling, biostatistics, or in biological sciences with demonstrated expertise in at least one of these topics.


Additional Qualifications

We desire applicants who have identified strengths and experiences in the following areas:

  • Excellence in research that complements or extends existing research strengths in the college and the potential to attract extramural funding.
  • Evidence of commitment to or strong potential for commitment to the advancement of diversity, equity, and inclusion for underrepresented minority students and groups (African-American, Latino (a)/Chicano (a)/Hispanic, and Native American), and how this commitment integrates with teaching, research, and service.
  • Commitment to excellence in teaching. Must demonstrate potential or evidence of ability to perform well at both graduate and undergraduate levels and to develop and teach undergraduate and graduate courses or seminars.

We encourage applications from candidates with strong disciplinary background in any current or emerging area that will fit within one of the following departments and/or centers:

  • Department of Evolution & Ecology
  • Department of Microbiology & Molecular Genetics
  • Department of Molecular & Cellular Biology
  • Department of Neurobiology, Physiology, & Behavior
  • Department of Plant Biology
  • Genome Center
  • Center for Neuroscience
  • Center for Population Biology

Please explore these departments at https://biology.ucdavis.edu/research/departments and these centers at https://biology.ucdavis.edu/research/centers.

Appointment will be as an academic year (9-month) tenure-track Assistant Professor. Applicants must have earned a Ph.D. or equivalent degree awarded by time of hire, where the topic of the work is in or related to computational biology, bioinformatics, modeling, biostatistics, or in biological sciences with demonstrated expertise in at least one of these topics. Participation in department, college, and university service is an expectation under our faculty shared governance model.


Application Requirements

We strongly recommend that all candidates visit our website dedicated to this search for additional information about how their application materials, including their Statement of Contributions to Diversity, will be used by the Search Committee in our screening and review process. The link is https://academicaffairs.ucdavis.edu/advancing-faculty-diversity-pilot-project.

For full consideration applications must be completed by February 28, 2019; the position will remain open until filled through April 30, 2019. Application packages should be submitted online through https://recruit.ucdavis.edu/apply/JPF02600 and should include the following documents: current Curriculum Vitae, cover letter, Research Statement, Statement of Contributions to Diversity, Statement of Teaching Accomplishments and Philosophy, and 3-6 letters of recommendation.

Arkansas Children's Hospital - Post Doctoral Fellowship

Applications are invited from outstanding, driven individuals for a post-doctoral fellowship focused on understanding the mechanisms involved in short and long-term health consequences of neonatal diet. Ongoing projects are aimed at determining the role of infant diet on gastrointestinal tract development and immune responses. Candidates will work in both experimental and clinical domains. Animal studies will involve working with piglets and mice. The specific focus is to understand the role of microbiota, microRNAs and metabolites in gut development and immune responses. To this end, candidates will utilize histomorphometric analyses, real-time PCR, Westerns, ELISA, next-Gen sequencing-based approaches, and other relevant techniques, and will be able to leverage the ACNC’s existing strengths in bioinformatics, transcriptomics, epigenemocis and microbiome characterization. A recent PhD or MD degree with training in fields of Microbiology, Physiology, Immunology or Nutrition is preferred. Candidates will work as a part of interdisciplinary team and participate in the design and implementation of studies, analyses, and communication of research findings. U.S. citizenship is not required; however, fluency in English and demonstrated ability to write scientifically is a must. Working knowledge in molecular biology is a requisite. This position provides a rich environment to learn novel methodologies in a collaborative fashion.  Compensation is negotiable based on experience. Please send a copy of your CV and names of three professional references via E-mail to Dr. V. Laxmi Yeruva at:  vlyeruva@uams.edu. For more information visit the ACNC website (http://acnc.uams.edu/).

The Arkansas Children’s Nutrition Center is one of six national Human Nutrition Research Centers (HNRCs) funded by the United States Department of Agriculture-Agricultural Research Service (USDA-ARS), and is affiliated with the Arkansas Children’s Hospital in partnership with the Arkansas Children’s Research Institute and the University of Arkansas for Medical Sciences. The ACNC is located in Little Rock, the capital of the State of Arkansas, which is among America’s most affordable cities and offers a vibrant nightlife, active community and many natural attractions for activities.

Josephine Bay Paul Center for Comparative Molecular Biology and Evolution - Faculty Position in Evolutionary Genomics and Molecular Evolution

The Josephine Bay Paul Center at the Marine Biological Laboratory (MBL) invites applications for a faculty position at the Assistant Scientist level in the area of evolutionary and functional genomics. The successful candidate will apply experimental and computational approaches to research areas including but not limited to: microbiome interactions, functional studies of host-associated marine microbial communities, evolutionary and ecological changes in marine systems, or genomic and transcriptomic studies of marine organisms. The Bay Paul Center and the MBL have strengths in molecular evolution, functional genomics, microbial diversity and ecology, advanced imaging, and marine animal husbandry. The Center maintains state-of-the-art facilities for high throughput sequencing and computational analysis. The MBL, an affiliate of the University of Chicago, has a distinguished history in fundamental biological discovery, now with a renewed focus on marine organisms, microbiomes, and the impact of environmental change on coastal ecosystems.

Qualifications
Applicants must hold a Ph.D. (or equivalent advanced degree) in a relevant field. The successful candidate will demonstrate strong potential for establishing a vigorous extramurally supported research program that can complement existing areas of strength across the institution’s research and educational programs.

Applications
The MBL is an Affirmative Action/Equal Opportunity/ Disabled/Veterans Employer and strongly encourages applications from candidates who would contribute to the diversity of its research community. Applications will be reviewed immediately upon receipt and will continue on a rolling basis until the position is filled. Those interested in the position should submit an application, including a CV, short summary of accomplishments and future research interests, and the names and contact information of at least three references to research@mbl.edu.

Deadline:
For full consideration, applications should be submitted by March 1, 2019

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