Postdoctoral Researcher - Single Cell Microbial Genomics

To apply for this job

Either
  • Download, Save and Complete a copy of the application form using Microsoft Word
Or
  • Submit a CV with a supporting statement that clearly demonstrates how you meet the essential requirements in the job description selection criteria. If a supporting statement is not provided your application may not be progressed

Earlham Institute

Earlham Institute is a vibrant, contemporary research institute and registered charity, working in an area of rapid technological development and innovation.

Earlham Institute is strategically funded by the BBSRC to lead the development of a skill base in bioinformatics and a genomics technology platform for UK bioscience. The Institute is located on the Norwich Research Park, together with its partners: the John Innes Centre, the Institute of Food Research, The Sainsbury Laboratory, the University of East Anglia and the Norfolk and Norwich University Hospital. The research park has an excellent reputation for research in plant and microbial sciences, interdisciplinary environmental science and food, diet and health, to which Earlham Institute contributes strengths in genomics and bioinformatics. Close links exist between the NRP partners and new opportunities for collaboration in exciting new initiatives are under development. The NRP recently received £26M of government investment to facilitate innovation and further develop infrastructure to attract science and technology companies to the Park to enhance the vibrant environment and realise economic impact from research investment.

Earlham Institute is a UK hub for innovative Bioinformatics through research, analysis and interpretation of multiple, complex data sets. It hosts one of the largest computing hardware facilities dedicated to life science research in Europe. This has been boosted recently by an e-Infrastructure grant to expand the data storage capacity to a multi-petabyte unit, deploying a high performance cluster and large-memory server enabling the allocation of processes requiring several terabytes of computing memory.

Earlham Institute’s state of the art DNA sequencing facility operates multiple complementary technologies for data generation that provide the foundation for analyses furthering our fundamental understanding of genomes and how they function. We aim to be at the forefront of technological advances and are developing and implementing technologies to generate and analyse new types of data. We also develop novel platforms to provide access to computational tools and processing capacity for multiple academic and industrial users and promoting applications of computational bioscience. Earlham Institute has one fully owned subsidiary, Genome Enterprise Ltd (GEL) via which it offers genomic and bioinformatics services on a trading basis and works with commercial providers on a partnership basis. Earlham Institute also receives specific funding to enable knowledge exchange programmes which are supported across the institute teams.

Post Details

Job Title
Postdoctoral Researcher - Single Cell Microbial Genomics
Post Number
1003491
Closing Date
24 Jul 2018
Grade
SC6
Starting Salary
£31,250 - £38,100
Hours per week
37
Project Title
Development of single-cell sequencing technology for microbial populations
Expected/Ideal Start Date
01 Oct 2018
Months Duration
12

Main Purpose of the Job

Develop methodologies for single cell sequencing of microbes and test these against a number of different use cases. Using Fluorescence Activated Cell Sorting (FACS), cells will be separated for individual analysis and also to develop protocols to analyze hundreds or thousands of cells in parallel using molecular barcoding methods. During the method development phase, mock bacterial communities will be used for testing and once suitable methods are in place, the project will explore the development of anti-microbial resistance in Salmonella at the single-cell level.

Department

Engineering Biology

Advert Text

The Earlham Institute (EI) is seeking an enthusiastic and focused postdoctoral researcher to lead the development of single microbial sequencing platforms.

The role:

Funded by a BBSRC Tools & Resources Grant, this position will be based in the groups of Prof. Neil Hall and Dr. Iain Macaulay. This is an exciting opportunity to explore genomic and transcriptomics heterogeneity in individual bacterial cells.

Building on recent advances in single-cell sequencing at EI, the successful applicant will adapt and develop approaches for the isolation, amplification and sequencing of individual cells from complex populations of bacteria. The project aims to use FACS and combinatorial indexing based approaches to deliver both proof-of-principle and real-world examples of the applicability of single-cell sequencing in bacterial populations, including the study of the emergence of anti-microbial resistance in Salmonella enterica under selection from subinhibitory concentrations of antibiotics.

The ideal candidate:

The successful applicant should have a PhD in genomics or cell/molecular biology and have experience of method development for next-generation sequencing platforms. Experience in cell sorting (FACS) and/or running informatics pipelines would be desirable.

The position would suit a molecular/cellular biologist with extensive experience of next generation sequencing (ideally at the single cell level) who is comfortable performing some bioinformatics analyses.

The institute has extremely well-equipped laboratories, including multiple sequencing platforms (NovaSeq, HiSeq, MiSeq, Oxford Nanopore (Minion/Gridion) and Pacific Biosciences RSII & Sequel), cell isolation platforms (BD FACSMelody, 10x Genomics Chromium) and several automated liquid handling platforms. The successful candidate will also have access to the extensive high-performance computing platform at EI.

Additional information:

Salary on appointment will be within the range £31,250 to £38,100 per annum depending on qualifications and experience. This is a full-time post for a contract of 12 months.

For further information and details of how to apply, please visit our web site http://jobs.earlham.ac.uk/ or contact the Human Resources team on 01603 450462 or nbi.recruitment@nbi.ac.uk quoting reference 1003491.

As a Disability Confident employer, we guarantee to offer an interview to all disabled applicants who meet the essential criteria for this vacancy.

Key Relationships

INTERNAL: reporting to the group leaders, and interacting on a daily basis with members of the Hall/Macaulay groups as well as the Platform and Pipelines group, EI’s Science Faculty and Research Teams. EI’s Deputy Directors and Director.

EXTERNAL: Visitors to EI, Collaborators, in particular groups at the nearby Quadram Institute, potential employees, Health and Safety co-ordinators, NGS Suppliers, Conference attendees, Training and Outreach Contacts. BBSRC and other stakeholders.

Main Activities & Responsibilities

Percentage
Identify, plan, carry out and modify experiments to meet the objectives of the project - this will include bacterial culture, cell sorting (FACS), preparation of next-generation sequencing libraries (including method development and some data analysis)
70
Prepare results, reports and manuscripts for publication in leading scientific journals and other relevant media
10
Disseminate research findings though presentations to various audiences at internal, national and international meetings
5
Collaborate with colleagues within the Institute in the development of original and world-class research, including contributing to research proposals and grant applications
5
Ensure research and record keeping is carried out in accordance with good practice, Scientific Integrity and in compliance with local policies and any legal requirements
5
Contribute to the smooth running of the group, including the effective use of resources, supervision of visitors to the laboratory and assisting with training others, encouraging scientific excellence
5
As agreed with line manager, any other duties commensurate with the nature of the role

Education & Qualifications

Requirement
Importance
PhD or equivalent in genomic, molecular or cell biology
Essential
Postdoctoral experience in NGS technology development or microbial genomics
Desirable

Specialist Knowledge & Skills

Requirement
Importance
Demonstrable experience of method development for next-generation sequencing
Essential
Proven problem solving skills and an interest in tackling challenging technical problems
Essential
A willingness to develop new approaches to single cell sequencing and apply them to tackle complex biological problems.
Essential
Practical working knowledge of many aspects of next generation sequencing
Essential
Working knowledge of cell sorting (FACS) and laboratory automation platforms
Desirable

Relevant Experience

Requirement
Importance
Demonstrable and significant contribution to peer-reviewed publications
Essential
Demonstrable experience with next generation sequencing technologies (Illumina) and single cell analysis platforms (including FACS)
Essential
Experience of working on technical or method development projects
Essential
Demonstrable experience in single-cell or low input sequencing techniques
Desirable
Demonstrable experience in microbial genomics
Desirable
Significant publications in the field of cellular genomics/single cell sequencing
Desirable
Preparing data / information for grant proposals
Desirable

Interpersonal & Communication Skills

Requirement
Importance
Excellent interpersonal skills, with the ability to work as part of a team
Essential
Demonstrated ability to work independently, using initiative and applying problem solving skills
Essential
Excellent time management and organisational skills
Essential
Excellent communication skills, both written and oral, including the ability to present complex information with clarity
Essential
The ability to clearly and routinely document research work so that others can easily understand/repeat it.
Essential
Open to collaboration and willing to train others when required
Essential
An interest in outreach activities and communication of science to wider audiences
Desirable

Additional Requirements

Requirement
Importance
Promotes equality and values diversity
Essential
Willingness to embrace the expected values and behaviours of all staff at the Institute, ensuring it is a great place to work
Essential
Willingness to work outside standard working hours when required
Essential
Ability to undertake occasional travel (national and international) related to collaborations and/or seminars
Essential