Positions in the Knight Lab

 

We currently have a range of positions open at multiple levels, and on both the bioinformatics and wet lab side. If interested, please email an enquiry containing your current CV and a statement of how you’d see yourself fitting into the lab’s current research projects (reading our recent publications can give a sense of this) to Rob Knight. At the moment, we are especially interested in finding additional people to work on Qiita (qiita.microbio.me), which supports several projects including the Earth Microbiome Project and American Gut.

 

Other opportunities

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  • Research Scientist/Engineer 4 position in new Genetics and Genomics Group Lab at NOAA PMEL in Seattle
  • The Joint Institute for the Study of the Atmosphere and Ocean at the University of Washington has a position for a Research Scientist Engineer 4 working on marine fish and invertebrate environmental DNA genetics/genomics/bioinformatics in the new G3 (Genetics and Genomics Group) at NOAA Pacific Marine Environmental Laboratory.

    The duties require overall planning and executing laboratory research as follows:
    • Conducts bioinformatics and next-generation sequencing DNA assays and analyses
    • Supervises Research Scientist/Engineer 2 and oversees lab activities
    • Collects and statistically analyzes data, insuring accuracy and data security
    • Writes peer-reviewed scientific publications
    • Presents invited papers at scientific conferences; participates in external seminars, workshops, professional societies and committees
    • Updates website on progress of projects
    • Manages regulatory documentation/paperwork
    • Writes or assists with grant proposals
    • Oversees, mentors, supervises and monitors graduate and undergraduate student researchers
    • Plans and conducts work requiring independent judgment in the evaluation, selection, and substantial adaptation/modification of standard techniques, procedures and criteria
    • Devises new approaches to problems encountered
    • Uses a wide application of complex principles, theories and concepts in the fields of genetics and genomics
    • Works on complex problems of diverse scope where analysis of data requires in-depth evaluation of identifiable factors
    • Serves as a resource to research group
    • Possesses and applies a comprehensive knowledge of genetics and genomics and advances state-of-the-art research in these areas
    • Helps to manage the group’s significant projects, requiring project management skills and experience
    • Provides innovative problem-solving approaches to enhance group capabilities
    • Uses peer network to expand technical capabilities and identify new research opportunities

  • For more information, see job posting here.

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  • Tenure-Track Faculty Position in Translational Microbiome Science – Duke University School of Medicine
  • The Duke University School of Medicine Departments of Pediatrics, Medicine and Molecular Genetics and Microbiology are jointly seeking a translational microbiologist tenure-track faculty member whose research focuses around the impact of the human microbiome on health and disease across the age spectrums.
  • We are seeking a School of Medicine faculty candidate scientist (PhD) or physician-scientist (MD or MD-PhD) who focuses on mechanisms of how the human microbiome affects disease outcome in unique human populations, including (but not limited to) preterm and term neonates, elderly, pregnant women, pediatric and adult transplant recipients, immunocompromised pediatric and adult patients, patients with chronic infections (e.g., C. difficile colitis and HIV), patients with obesity and metabolic disease, and patients who have received fecal transplants.
  • We are seeking faculty candidates at the Assistant, Associate, or Full Professor level (tenure-track), and particularly interested in candidates who have an interest in collaborating with both basic scientists and clinicians to explore the interaction of the microbiome and human disease.
  • The primary appointment for this faculty recruit will be within the Departments of Pediatrics, Medicine, or Molecular Genetics and Microbiology, and he/she will become an integral member of the Center for Genomics of Microbial Systems (GeMS). This faculty member will also play an integral role as a member of the new Center for Early Life Influences on Health and Disease within the Department of Pediatrics, which has a goal of assessing the role of the early life microbiome on long-term health outcomes. This hire is being pursued as a partnership between two clinical departments (Pediatrics and Medicine) and one basic science department (Molecular Genetics and Microbiology) that will facilitate collaboration between basic scientists and clinicians, leveraging available sample repositories and patient populations as well as the extensive sequencing and bioinformatics resources already in place at Duke.
  • The successful applicant will be expected to utilize and strengthen the existing microbiology and microbiome resources and faculty networks at Duke. Duke School of Medicine include a strong microbiome faculty network comprised of internationally-recognized experts. Existing relevant unique resources also include world-class core facilities for sequencing and metabolomics, bioinformatics resources and support staff through GeMS, gnotobiotic mouse and zebrafish colonies, and an ongoing clinical protocol for sample collections and stool transplants in the Divisions of Adult and Pediatric Infectious Diseases.
  • Duke University is an Affirmative Action/Equal Opportunity Employer committed to providing employment without regard to an individual’s age, color, disability, genetic information, gender, gender identity, national origin, race, religion, sexual orientation or veteran status.
  • Interested candidates should send (i) a cover letter, (ii) a current CV, and (iii) a brief description of research accomplishments and goals for future research (please limit to three pages) to Christy.Dixon@duke.edu by May 1 2017, when candidate review will commence

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  • Postdoctoral scientists in microbial single cell genomics and horizontal gene transfer
  • Bigelow Laboratory for Ocean Sciences
  • Two postdoctoral positions are available in Dr. Stepanauskas’ research group. Hired scientists will be engaged in a major effort to improve our understanding of the composition, functional capacity and microevolution of the marine microbiome, by taking advantage of the recent advances in single cell genomics, metagenomics and other cutting-edge technologies. One of the key goals is a quantitative analysis of horizontal gene transfer – a major evolutionary process that is expected to be important in ocean’s response to environmental changes but remains poorly understood. Candidates must have a PhD degree in a revant field and significant experience in microbiology, evolution and bioinformatics. Excellent written and verbal communication skills and ability to work harmoniously in a collaborative research team are crucial. Anticipated employment duration: 2 years, with potential extension. Bigelow’s Laboratory’s new campus is located in scenic, coastal Maine with abundant opportunities for outdoor and cultural activities. It is about an hour drive from Portland and a 3-hour drive from Boston.
  • Applicants should send their CV; a letter of intent describing candidate’s motivation, qualifications, skills, and experience relevant to this position, and contact information for three references to jobs@bigelow.org. Please reference PD-2016-5 in the subject line. For full consideration, the application should be received by January 15, 2017. Bigelow Laboratory is an Equal Opportunity/Affirmative Action Employer.

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      • EpiBiome is looking for: a qualified scientist/engineer with a strong bioinformatics background/experience to aid in accelerating our sequencing pipeline and a qualified scientist with liquid handling robotics and automation experience to aid in accelerating product and automated pipeline development.
      • EpiBiome is a great place to work. We are a fast-growing organization with a global focus located in the heart of South San Francisco’s biotech scene—ground zero for innovation in the life sciences. We take pride in our collaborative and high-performing environment where every team member is enabled to make an impact and grow professionally. We offer an intellectually engaging work environment with a competitive compensation and benefits package. Our team is our greatest asset, and our people and their ideas inspire what we do and how we do it.Our mission is to surveil microbial populations and to develop the technologies that will protect humanity against the rising global threat of antibiotic resistance. Our team is working at the cutting edge of science and engineering to revolutionize the way we approach problematic bacteria in humans, animals, and the environment. Humanity’s continuing survival depends on it!
      • EpiBiome, Inc. is an equal opportunity employer & prohibits unlawful discrimination based on race, color, religion, gender, sexual orientation, gender identity/expression, national origin/ancestry, age, disability, marital & veteran status. 
Interested candidates please send resume and cover email to: careers@epibiome.com

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      • A Postdoc or PhD research position in environmental epidemiology and neuropsychological development is open from September 1st 2015, or as soon as possible, at the Norwegian Institute of Public Health (NIPH) in the area of Infectious Diseases and Environmental Medicine. The PhD position lasts 36 months, the Postdoc period 26 months with possibility for extension.
      • Note: command of Norwegian is not necessary.
      • Follow link for more information and to apply: Here

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      • Biodiversity and Metagenomics of the Herbivore Microbiome
      • The Dearing lab at the University of Utah invites applications for a postdoctoral fellow to participate in a collaborative study to understand the gut microbiome of mammalian herbivores with respect to detoxification of plant defensive compounds. Our investigations suggest 1) the microbiome in the foregut of woodrats is critical for the ingestion of dietary toxins, 2) microbial biodiversity is important in this process and 3) previous exposure to toxins shapes the microbiome.  For more information on previous research, see:
        http://biologylabs.utah.edu/dearing/Lab/publications.html
      • This postdoctoral position will focus on the influences of host evolutionary history and diet in sculpting the diversity and function of the mammalian microbiome.  One component of this will be a broad survey of microbiomes and phylogeny across the woodrat genus (Neotoma).  The ideal candidate will have a strong interest and experience in microbial ecology and metagenomics, with experience in gut systems preferably of vertebrates.  Basic bioinformatic and molecular skills are required.  Fieldwork for small mammal collection will be necessary; prior experience preferred but not required. The candidate should have a demonstrated record of publication with at least one first authored publication in press, and will be expected to work well in a collaborative environment.  The Dearing lab provides a strong training and career development environment for candidates interested in academic positions.
      • Applications will be reviewed as they are received until the position is filled.  The preferred start date is June 15, 2015.  Please send cover letter, C.V., statement of research experience and interests that includes career goals (1-2 pgs), pdfs of papers, and contact information (emails, phone numbers and professional relationship) for at least 3 professional references to Dr. Denise Dearing,  denise.dearing@utah.edu; please put “Microbiome Postdoctoral Applicant” in the Subject Line.

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      • Faculty Positions in Microbial Pathogenesis, Washington University School of Medicine in St. Louis
      • We are seeking outstanding candidates for multiple TENURE-TRACK faculty positions at the Assistant Professor level in the Department of Molecular Microbiology at Washington University in St. Louis School of Medicine. Ideal applicants will be creative scientists pursuing fundamental aspects of microbial pathogenesis using innovative combinations of genomics, genetics, cell biology, computational biology and biochemistry. We especially encourage applicants with bold new perspectives and ‘outside the box’ approaches. We welcome applications from members of groups that are typically underrepresented in science. Washington University offers an intellectually exciting, collegial, and supportive environment with robust graduate and post-doctoral programs and extensive opportunities for interdepartmental collaboration. Resources include outstanding core facilities for genomics, screening, imaging, and high performance cluster computing, and BSL3 space including animal facilities. Additional information can be found at wwww.microbiology.wustl.edu. Applicants should be committed to teaching graduate and professional students and establishing a vigorous, cutting-edge, externally funded research program. Requirements include a Ph.D. or equivalent degree in a relevant discipline, postdoctoral training, and a strong publication record. To apply, please send a single pdf document containing a curriculum vitae, selected reprints, and a 2-3 page description of current and planned research interests to microsearch2014@wusm.wustl.edu. Three letters of recommendation should be sent separately. All materials should be received by December 1, 2014; applications thereafter will be considered on a rolling basis.
      • WUMS is an equal opportunity/affirmative action employer. Women and minorities are especially encouraged to apply.

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      • Faculty Position in Virology, Washington University School of Medicine in St. Louis
      • We are seeking an outstanding candidate for a TENURE-TRACK faculty position at the Assistant Professor level in the Department of Molecular Microbiology at Washington University School of Medicine in St. Louis. Ideal applicants will be creative scientists pursuing fundamental aspects of viral pathogenesis using innovative combinations of genomics, genetics, cell biology, computational biology and biochemistry. We especially encourage applicants with bold new perspectives and ‘outside the box’ approaches.  We welcome applications from members of groups that are typically under-represented in science. Washington University offers an intellectually exciting, collegial, and supportive environment with robust graduate and post­doctoral programs and extensive opportunities for interdepartmental collaboration. Resources include outstanding core facilities for genomics, screening, imaging, and high performance cluster computing, and BSL3 space including animal facilities. Additional information can be found at www.microbiology.wustl.edu. Applicants should be committed to teaching graduate and professional students and establishing a vigorous, cutting-edge, externally funded research program. Requirements include a Ph.D. or equivalent deggre in a relevant discipline, postdoctoral training, and a strong publication record. To apply, please send a single PDF document containing a Curriculum Vitae, selected reprints, and a 2-3 page description of current and planned research interests to microsearch2014@wusm.wustl.edu. Three letters of recommendation should be sent separately. All materials should be received by December 1, 2014; applications thereafter will be considered on a rolling basis.
      • WUMS is an equal opportunity/affirmative action employer. Women and minorities are especially encouraged to apply.

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      • Senior lab tech in Microbial Ecology
      • The Taylor Lab in the Department of Biology at the University of New Mexico is seeking a Senior Lab Tech in Microbial Ecology. The lab investigates fungal biodiversity and the evolutionary ecology of plant-microbe interactions, particularly mycorrhizae and biological nitrogen fixation, using field and molecular methods. This position will involve molecular analyses related to two recent NSF grants, one investigating climate-change related disruption of grass-endophyte interactions along elevational gradients in the Rocky Mountains, the second investigating the potential for associations with mycorrhizal fungi to underlie niche-partitioning in hyperdiverse epiphytic orchid communities of Costa Rican rainforest (see award IDs 1354972 and 1355155). For more information about the lab, please see taylorlabunm.weebly.comand borealfungi.uaf.edu.
      • The senior technician will be involved in various aspects of laboratory management, including student mentoring. The main duties will be to push forward cutting-edge plant microbiome molecular analyses. A core duty will be the preparation of amplicon libraries for NGS sequencing. There may also be opportunities to participate in fieldwork in Costa Rica and Alaska. Leadership and success in bringing projects to fruition will be rewarded with numerous opportunities for authorship on scientific publications.
      • A bachelors degree in biology, biochemistry, microbiology or related field is required, an MS is preferred. Experience beyond the classroom with standard microbiological and molecular methods including DNA extraction, PCR and sequencing is essential. Skills in more advanced methods, especially NGS methods such as RADseq, RNAseq, or anchored-hybrid-enrichment-sequencing are desirable. Strong organizational skills and basic data management experience are also essential, while scripting/programming skills (e.g. linux system administration, Perl, PHP, python) would be a major plus.
      • For additional information and to apply for the position, please follow this link:
        unmjobs.unm.edu/applicants/Central?quickFind=80401
        Applications should include a cover letter, resume, unofficial transcripts and contact information for at least three references. Start date is flexible and position is open until filled; for best consideration, applications should be received before December 15th.
      • The University of New Mexico is the flagship university in the state with 36,000 students and 40 PhD programs. Interactions with Los Alamos and Sandia National Labs contribute to a vigorous research climate. The main UNM campus is located in Albuquerque, a city of ~800,000 situated on the Rio Grande River at 5000 feet in elevation. Days are sunny and warm while nights are cool. At the transition between the Sonoran Desert and the Great Plains Grasslands and surrounded by mountains, Albuquerque is ideally situated for both cultural and outdoor explorations. The 10,000 foot Sandia Crest is only a 40 minute drive, while the epicurean, cultural and artistic delights of Santa Fe are only an hour away. Numerous other attractions may be found in all directions, such as Chaco Canyon, Bandolier National Park, White Sands National Monument, and many mountain ranges and ski resorts.
      • If you have questions about the position, please email Lee Taylor at fflt@unm.edu.

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      • Postdoctoral scientist in genomics of microbial symbionts
      • Nicole Dubilier, Director of the Symbiosis Department at the Max Planck Institute for Marine Microbiology in Bremen, Germany (http://www.mpi-bremen.de/en/Department_of_Symbiosis.html) invites applications for a postdoctoral scientist to work on the genomics of chemosynthetic symbionts. We are looking for highly motivated candidates with a strong background in microbial physiology, geomicrobiology, or symbiosis research. Experience in comparative genomics or metagenomics is essential, as are solid bioinformatics skills. Experience in transcriptomics or proteomics would be an advantage. The candidate should have completed a PhD degree in Microbiology or related field with excellent skills in spoken and written English.
      • At the Max Planck Institute for Marine Microbiology, microbiologists, molecular biologists and biogeochemists work together to understand basic principles of marine microbial ecology and beneficial interactions. The MPI offers state-of-the art research infrastructure and a highly collaborative working atmosphere. The language of the Max Planck Institute is English.
      • We initially offer a 2 year full-time appointment. The salary is according to the German system for public employees (E 14 TVöD).
      • Please send your application including curriculum vitae, a list of publications and the contact details of at least two references as a single pdf file to bewerbung@mpi-bremen.de. Applications will be accepted until August 1st, 2014. The position is available immediately, but will remain open until filled.
      • The Max Planck Society is committed to employing more people with disabilities, and also seeks to increase the number of women in those areas where they are currently underrepresented. We therefore particularly encourage applications from these groups.

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      • Temasek Life Sciences Laboratory, Singapore – Principal/Young Investigator positions
      • Temasek Life Sciences Laboratory (TLL) is seeking independent group leaders who will develop innovative and internationally competitive research programs within a highly supportive core-funded institute. Individuals employing multidisciplinary approaches, developing new and unconventional model systems, and interested in bridging basic and applied sciences are especially encouraged to apply.
      • Areas of interest are:
        • Microbiome composition and function in animal model systems
        • Metabolic engineering and synthetic biology in plant and microbial systems
      • TLL provides a supportive environment for outstanding science, with generous core-funding, state-of-the-art facilities, and an intellectually stimulating and collegial atmosphere. Each appointment comes with full core-funded support for research costs, equipment and a number of funded positions. Qualified candidates will receive a comprehensive package including competitive salaries, housing, medical and other benefits.
      • Singapore is an exciting, cosmopolitan, modern Asian city. English is one of the official languages, so it is a very accessible place in which to work and live. Interested individuals should send their curriculum vitae, three reference letters and a statement of research intent to:Executive Director, Temasek Life Sciences Laboratory
        1 Research Link, National University of Singapore, Singapore 117604
        E: pi.recruit@tll.org.sg Website: www.tll.org.sg
        (Please note that only shortlisted candidates will be notified)
      • About Temasek Life Sciences Laboratory (TLL)
        Established in 2002, TLL undertakes bio-molecular science research and applications to benefit people in Asia andbeyond. TLL strives to develop its people and provide opportunities for them to be leaders in their own fields by challenging them to achieve breakthrough discoveries and impactful applications.
      • TLL is affiliated to the National University of Singapore (NUS) and Nanyang Technological University (NTU). It islocated within the NUS campus and is situated alongside other research institutes and academic departments of the university. In addition, TLL enjoys close interactions with other research institutes on the nearby NUS.

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      • Postdoctoral position in Petroleum Reservoir Metagenomics with secondment to Shell Research Centre in Houston
      • Postdoctoral position available to study the microbial ecology of petroleum reservoirs using metagenomic approaches.  The research is a collaboration with Shell and the position would involve substantial periods of time in Shell’s Westhollow research centre in Houston.
      • For further details on the position please go to https://www15.i-grasp.com/fe/tpl_newcastle02.asp?newms=se and search with the reference: D1457. Applications for the position can also be submitted at this site.

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      • Bioinformatician vacancy at SCGC
      • SCGC is  seeking a Bioinformatician to provide computational support to the Bigelow Laboratory Single Cell Genomics Center (SCGC) and research projects conducted by Stepanauskas’ group and collaboratingscientists.
        Requirements:
        * BS or higher in bioinformatics or life sciences with strong bioinformatics component and 2 years of relevant, post-degree experience
        * Solid knowledge of next-generation sequencing and common bioinformatics tools
        * Experience with Unix/Linux, SQL, XML, Python, R, HTML5, JavaScript, version control and shell scripting
        * Willingness to work in a team composed of field, laboratory and computational biologists
        For more information and method of application, please see http://www.bigelow.org/index.php/about-bigelow-laboratory/position_openings/bi-2014-1-bioinformatician
      • Job #BI-2014-1. For more information about SCGC, please see https://scgc.bigelow.org.

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      • Biodiversity Genomics Postdoctoral Research Scientist
      • The Field Museum of Natural History in Chicago, Illinois, USA is searching for a postdoctoral scientist with expertise in Next Generation Sequencing (NGS) methods and analysis.  A Ph.D. in bioinformatics, evolutionary genomics, or a related field is required.
      • The position will be based in the museum’s Pritzker Laboratory, a core multi-user facility dedicated to genetic studies of the world’s biodiversity.  At any given time there are roughly 30 scientists working in the lab on a wide range of taxa and evolutionary questions.  While research to date has emphasized Sanger sequencing, we are moving rapidly into new areas of genomic analysis, and with the acquisition of an Illumina MiSeq system we are now searching for someone with relevant expertise to enhance our genomics research capabilities.
      • The ideal candidate will have experience in bioinformatics and NGS, as well as the organizational and interpersonal skills needed to assist and collaborate with a diverse group of scientists.  We are especially interested in candidates with expertise in some or all of the following: genome assembly and analysis, reduced-representation genome sequencing (RAD, GBS, etc.), and RNA-seq.
      • The laboratory is overseen by the Pritzker Lab Management Committee (Drs. John Bates, Kevin Feldheim, Shannon Hackett, Thorsten Lumbsch, Corrie Moreau, and Richard Ree) and the postdoc will report to the members of this committee. This position is a one-year term (with a possibility of extension, conditional on funding).  Start date is flexible.  Please include your preferred start date in your cover letter.
      • Responsibilities:
        1) Instruction and training in bioinformatics analysis (70% of time).
        These duties will include:
        - Develop and lead informational/instructional tutorials on the analysis of NGS data (genome assembly, GBS, RNASeq)
        - Training Field Museum scientists in NGS laboratory methods for varied biodiversity studies
        - Installation, administration, and deployment of NGS software on Linux and MacOS systems
        - Consulting on the experimental design and assist in the execution of NGS-based studies by Pritzker lab members (with opportunities for co-authorship when appropriate)
        - Assist the lab in long range planning for bioinformatics that leverages the museum’s extensive biological collections
        2) Opportunities for independent research with $10K in research funding (30% of time).
      • Application Instructions:
        Your application submission must include 1) a CV/resume, 2) a short cover letter outlining your motivation and relevant experience for the position, your preferred start date, and the names and contact information for three professional references. Documents should be in PDF format. Qualified candidates will be contacted for an interview.  Application deadline is April 18, 2014.
      • Applications will only be accepted through the online submission system. To apply search for the position “Postdoctoral Research Scientist, Biodiversity Genomics”:http://fieldmuseum.org/about/employment

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      • Postdoctoral Research Associate
      • Microbial Genomics and Ecology of Aquaculture Systems
      • A postdoctoral research position is available starting June 1, 2014 in the laboratory of Dr. Sandra McLellan located at the University of Wisconsin-­‐Milwaukee, School of Freshwater Sciences in Milwaukee, WI. Research for this position will focus on the community analysis and genomic comparisons from isolates and enrichments of microorganisms in natural and built freshwater systems.
      • The primary responsibilities for this position will be to develop pipelines for microbial genome analysis and integrate innovative experimental approaches into projects investigating the microbial ecology of recirculating aquaculture and aquaponic systems. The individual filling this position could also potentially interface with additional projects that utilize metagenomic and genomic data from beach sands, sewage, and Lake Michigan.
      • Candidates must have a PhD in microbiology, bioinformatics, or a related field. Experience with next generation sequencing data and genomic analysis is highly preferred.
      • The initial appointment period will be for two years with salary commensurate with experience. Applicants should send a single PDF file with cover letter with a statement of research experience and goals as it relates to the described research projects, a CV, and names of three references.
      • The UWM School of Freshwater Sciences is the first graduate school in the nation dedicated solely to the study of freshwater. The University of Wisconsin‐Milwaukee is an equal opportunity employer with a strong institutional and academic commitment to diversity.
      • Please send materials to:
        Sandra L. McLellan, Professor, School of Freshwater Sciences, University of Wisconsin-­‐Milwaukee, 600 E. Greenfield Ave., Milwaukee, WI 53204, Email: mclellan@uwm.edu, Website: (http://www.glwi.freshwater.uwm.edu/research/genomics/ecoli/)

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