DPB – Plant Biology

Bioinformatics postdoc position to study plant host-pathogen relationships

Department: DPB – Plant Biology

Salary:

Location:

A postdoctoral researcher position is available immediately in the laboratory of Dr. Sue Rhee at the Carnegie Institution for Science, Department of Plant Biology, to analyze metabolic networks and models of plants and fungal plant-pathogens and their interaction with each other. Pathogens impact growth and productivity of plants and thus are a supreme target in a future of scarce food resources due to changes in climate with subsequent changes in pathogen prevalence. The successful candidate will lead the curation of metabolic reactions of pathogen metabolism and development of computational tools and methods for predicting the interaction between plants and fungal pathogens. The successful candidate will have opportunities to investigate novel questions regarding evolution, co-evolution, and emergence of pathogenicity and biotrophy by leveraging the tools and data generated at the Plant Metabolic Network (PMN, www.plantcyc.org) and the Rhee lab, in collaboration with research groups at Berkley and Lawrence Berkley National labs.

Qualified candidates must have a Ph.D. or equivalent in Bioinformatics, Computational Biology, Biology, Plant biology, Microbiology, Systems Biology, Biochemistry or a related field, and a strong background in applying constraint based metabolic models, statistics and programming, as well as a strong interest in metabolism and its biochemistry and in development of new computational approaches to address interesting biological problems. Candidates with experience in programming in MATLAB and/or the use of the COBRA toolbox are especially encouraged to apply. Working experience (either wet lab or dry lab) with fungal pathogens or plants, and proficiency in programming languages of Python and/or Perl are pluses. The successful candidate should also have demonstrated ability for independent and critical thinking, excellent communication and teamwork skills, and enthusiasm for learning new things.

The Carnegie Institution, a private, nonprofit organization engaged in basic research and advanced education in biology, astronomy, and the earth sciences, was founded and endowed by Andrew Carnegie in 1902 and incorporated by an act of Congress in 1904. Andrew Carnegie conceived the Institution’s purpose “to encourage, in the broadest and most liberal manner, investigation, research, and discovery, and the application of knowledge to the improvement of mankind.” The Department of Plant Biology engages in basic research on the mechanisms involved in the growth and development of plants and algae. The Department of Plant Biology is co-located with the Carnegie Department of Global Ecology on a seven-acre site on the campus of Stanford University.

Bioinformatics postdoc position to develop semi-automatic pipelines to create genome-scale metabolic models of plants and other organisms

Department: DPB – Plant Biology

Salary:

Location:

A postdoctoral researcher position is available immediately in the laboratory of Dr. Sue Rhee at the Carnegie Institution for Science, Department of Plant Biology, to create and analyze metabolic models with a focus on plants covered at Plant Metabolic Network (PMN, www.plantcyc.org). Plants are the foundation of many industrial sectors and a better understanding of their metabolism by simulation will impact our way on how we use plants for our benefit. The successful candidates will lead the development of computational tools and methods for converting the present tools and databases at Plant Metabolic Network (PMN, www.plantcyc.org) for metabolic modeling with subsequent large-scale analysis of the created networks and models testing hypotheses regarding the evolution of plants and their metabolic pathways.

Qualified candidates must have a Ph.D. or equivalent in Bioinformatics, Computational Biology, Biology, Plant biology, Microbiology, Systems Biology, Biochemistry or a related field, and a strong background in reconstructing constraint based metabolic models, statistics and programming, as well as a strong interest in plant metabolism and its biochemistry and in development of new computational approaches to address interesting biological problems. Candidates with experience in programming in MATLAB and/or the use of the COBRA toolbox are especially encouraged to apply. Working experience (either wet lab or dry lab) with plants, phylogenomics, use of high performance computers (clusters), and proficiency in programming languages of Python and/or Perl are pluses. The successful candidates should also have demonstrated ability for independent and critical thinking, excellent communication and teamwork skills, and enthusiasm for learning new things.

The Carnegie Institution, a private, nonprofit organization engaged in basic research and advanced education in biology, astronomy, and the earth sciences, was founded and endowed by Andrew Carnegie in 1902 and incorporated by an act of Congress in 1904. Andrew Carnegie conceived the Institution’s purpose “to encourage, in the broadest and most liberal manner, investigation, research, and discovery, and the application of knowledge to the improvement of mankind.” The Department of Plant Biology engages in basic research on the mechanisms involved in the growth and development of plants and algae. The Department of Plant Biology is co-located with the Carnegie Department of Global Ecology on a seven-acre site on the campus of Stanford University.

Biological Laboratory Technician

Department: DPB – Plant Biology

Salary: TBD Competitive

Location: Stanford, CA

Immediate openings are available for full-time or part-time laboratory technicians in laboratory of Dr. Jose Dinneny in the Department of Plant Biology located on the Stanford University campus at Carnegie Institution for Science. This is an opportunity to work in an outstanding academic environment and to gain experience in biological sciences.

Responsibilities:

  • Prepare chemical solutions, such as bacterial and plant growth media
  • Maintain lab inventory, restocking and ordering as required
  • Autoclave and discharge waste reagents
  • Grow plants (Arabidopsis, tobacco) and harvest seeds
  • Other duties as assigned

 

Qualifications:

  • Strong academic record in Molecular Biology, Plant Biology, or equivalent
  • Experience growing and harvesting plants
  • Familiarity with sterile technique and preparing chemical solutions
    Excellent communication and organizational skills
  • Specific opportunities to develop independent research projects. Lab duties will involve keeping track of lab orders, lab organization, maintaining cultures and other stocks. Assisting and interacting with lab members on specific projects.
  • Good judgment and common sense as well as critical thinking and attention to detail are required. Must possess excellent analytical, presentation, and written/verbal communication skills.

CV should include GPA if applicant is a recent graduate.  Cover Letter should indicate earliest joining date possible.

Carnegie Institution for Science (http://carnegiescience.edu/) is a private, nonprofit organization for scientific discovery founded by Andrew Carnegie in 1902. He intended the institution to be home to exceptional individuals with imagination, intelligence and enjoyment capable of creating and expanding the cutting edge of their fields. Today, Carnegie scientists work in six scientific departments on the West and East Coasts. The Department of Plant Biology engages in basic research on the mechanisms involved in the growth and development of plants and algae. The Department of Plant Biology is located on the campus of Stanford University. Carnegie is an equal opportunity employer.

Gardener & Greenhouse Associate

Department: DPB – Plant Biology

Salary: $15-$18/hour DOE

Location: Stanford, CA

The Carnegie Institution for Science’s Plant Biology and Global Ecology has an immediate opening for a part-time gardener and greenhouse associate. We are located on the Stanford campus.  This position reports to the Greenhouse Manager, is a non-exempt, hourly position and may include weekends and holidays as needed.

JOB SUMMARY:  

The Carnegie Institution grounds contain 2+ acres of gardens, much of which are dedicated to California or Bay Area native species. We are looking to hire a part-time gardener to maintain and develop the grounds, including but not limited to routine weeding and watering. We prefer someone who would like to take on a personal interest in this garden, to care for existing species and develop new areas with limited budget and limited water. It is essential that the candidate have knowledge of California native and drought tolerant species, commonly grown horticultural plants, and noxious weeds, as well as experience pruning and fertilizing shrubs for optimal plant health.

Gardening Duties:

  • Watering, raking, trimming, sweeping and maintaining Carnegie grounds.
  • Use general outdoor gardening tools.
  • Maintains and uses all tools according to Carnegie’s safety policy.
  • Assists with site setup of plant materials.
  • Ensures indigenous plants are maintained and protected.
  • Planning plant removal or replacement within the Carnegie site.
  • Ensures that job site staging area is clean and well organized. Complies with Carnegie’s safety policy at all times.
  • Ecological removal and disposal of debris and fertilization.

General description of seasonal tasks:

  • Summer & early fall: watering (turn on irrigation and hand watering).
  • Late Fall: pruning salvias and other shrubs, fertilizing, watering (if necessary)
  • Winter: sowing seeds in flats and in ground for spring/summer flowers, purchase and transplant new plants
  • Early spring: Purchase and distribute mulch
  • Spring: Hand weeding in garden beds, weed whacking mature weed grasses, thistles, etc.

Greenhouse duties:

  • Greenhouse facility supports both plant biology and global ecology. Help to maintain greenhouses, growth rooms and growth chambers.
  • Responsible for watering all plants in the greenhouses.
  • Checking soil bins and adding soil as needed.
  • Operating the greenhouse autoclave to sterilize plant waste.
  • Dumping soil in the compost area.
  • Wash and stack flats, pots and propagation domes as needed.
  • General housekeeping including sweeping greenhouses and surrounding pavement, bundling stakes, restocking supplies and cleaning communal areas.
  • Dump garbage bins from the greenhouse walkway in the dumpster.
  • Clean greenhouses, growth rooms, and growth chambers.
  • Clean the greenhouse autoclave.
  • Prepare and place pest traps throughout the growth facility.
  • Use of pesticides: Must receive and maintain a QAC (Qualified Applicators Certificate) through CDPR (California Department of Pesticide Regulation) within two months of employment to apply pesticides (expense for certification to be paid by Carnegie).

Requirements:

  • Must be able to read, legibly write, speak and understand English.
  • Evidence of reliable work attendance and attention to detail.
  • Ability to be work cooperatively with co-workers and follow directions.
  • Ability to work autonomously on weekends, holidays, and as needed.
  • Self-starter, time management, and handle feedback.

Work Environment: The duties of this job, the employee is regularly exposed to outdoor weather conditions. The noise level in the work environment is usually moderate.

Physical Demands: The physical demands described here are representative of those that must be met by an employee to successfully perform the essential functions of this job.

While performing the duties of this job, the employee is regularly required to have full range of mobility in upper and lower body; be able to reach overhead; be able to work in various positions, including stooping, standing, bending over, sitting, kneeling and squatting for extended periods of time; be able to lift, pull and push materials and equipment to complete assigned job tasks; climb a ladder; and be able to frequently lift 50 pounds of weight throughout the assigned workday.

The Carnegie Institution of Washington is a non-profit organization that conducts basic scientific research. It has a strong institutional commitment to the principle of diversity. In that spirit, we particularly encourage applications from women, members of ethnic minorities, and individuals with disabilities. This position offers competitive salary and benefits in a dynamic, stimulating environment.

Bioinformatics postdoc position to develop computational pipelines to identify and annotate enzymes in plant genomes

Department: DPB – Plant Biology

Salary:

Location: Stanford, CA

A postdoctoral researcher position is available immediately in the laboratory of Dr. Sue Rhee at the Carnegie Institution for Science, Department of Plant Biology, to create and analyze metabolic networks of plants. Plant metabolism is the biological engine that feeds the world, not only humans but also microbes and animals. The successful candidate will lead the development of computational tools and methods for predicting plant metabolic enzymes as a part of a team called the Plant Metabolic Network (PMN, www.plantcyc.org). The successful candidate will have opportunities to investigate novel questions regarding evolution, function, or regulation of enzymes and transporters as well as metabolic networks in plants by leveraging the tools and data generated at the PMN and the Rhee lab.

Qualified candidates must have a Ph.D. or equivalent in Bioinformatics, Computational Biology, Biology, Biochemistry or a related field, with a strong background in machine learning or phylogenomics. Working experience in large-scale amino acid sequence analysis and proficiency in programming languages such as Python and/or Perl are highly desired. The successful candidate should also have a demonstrated ability for independent and critical thinking, excellent communication and teamwork skills, and enthusiasm for learning new things.

The Carnegie Institution, a private, nonprofit organization engaged in basic research and advanced education in biology, astronomy, and the earth sciences, was founded and endowed by Andrew Carnegie in 1902 and incorporated by an act of Congress in 1904. Andrew Carnegie conceived the Institution’s purpose “to encourage, in the broadest and most liberal manner, investigation, research, and discovery, and the application of knowledge to the improvement of mankind.” The Department of Plant Biology engages in basic research on the mechanisms involved in the growth and development of plants and algae. The Department of Plant Biology is co-located with the Carnegie Department of Global Ecology on a seven-acre site on the campus of Stanford University.

Post Doctoral Fellow – Department of Plant Biology (Wang Lab)

Department: DPB – Plant Biology

Salary:

Location: Stanford, CA

The Carnegie Institution for Science is a non-profit, world-class research institution. Carnegie’s Plant Biology is located on Stanford University campus, California. Website: www.dpb.carnegiescience.edu.

A postdoctoral fellow position is available in the laboratory of Dr. Zhi-Yong Wang at the Carnegie Institution for Science, Department of Plant Biology, to study plant growth regulation mechanisms. The Wang lab uses a wide range of approaches, including genetics, proteomics and genomics, to elucidate the signaling networks through which plants respond to hormonal, environmental, and nutritional signals. The lab focuses on the model organism Arabidopsis, but is also interested in other model systems such as Chlamydomonas, maize, and sorghum. The specific research projects for the new postdoctoral fellow will be determined based on the interest and expertise of the candidate as well as the ongoing research of the lab. To learn more about our research, please visit our website at: https://dpb.carnegiescience.edu/labs/wang-lab

Qualified candidates must have a Ph.D. degree in a field broadly related to life science. To apply, please send email to zywang24@stanford.edu your CV and a brief statement of your experience, research interest, and how you may contribute to our science and how such training experience may advance your career goal.

The Carnegie Institution, a private, nonprofit organization engaged in basic research and advanced education in biology, astronomy, and the earth sciences, was founded and endowed by Andrew Carnegie in 1902. Andrew Carnegie conceived the Institution’s purpose “to encourage, in the broadest and most liberal manner, investigation, research, and discovery, and the application of knowledge to the improvement of mankind.” The Department of Plant Biology engages in basic research on the mechanisms involved in the growth and development of photosynthetic organisms. The Department of Plant Biology is co-located with the Carnegie Department of Global Ecology on a seven-acre site on the campus of Stanford University.

Carnegie is an Equal Opportunity Employer.  The Carnegie Institution for Science has a strong institutional commitment to the principle of diversity. In that spirit, we particularly encourage applications from women, members of ethnic minorities, veterans and individuals with disabilities.

Computational biology postdoc position to develop algorithms for creating and analyzing plant metabolic networks

Department: DPB – Plant Biology

Salary:

Location: Stanford, CA

A postdoctoral position is available immediately in the laboratory of Dr. Sue Rhee at the Carnegie Institution for Science, Department of Plant Biology, to create and analyze metabolic networks of plants. Plant metabolism is the biological engine that feeds the world, not only humans but also microbes and animals. The successful candidate will lead the development of novel computational algorithms for annotating subcellular localization of plant metabolic reactions as a part of a team called the Plant Metabolic Network (PMN, www.plantcyc.org). The successful candidate will have opportunities to develop other algorithms addressing a broad array of questions regarding evolution, function, or regulation of metabolic networks in plants by leveraging the tools and data generated at the PMN and the Rhee lab, including standard molecular genetic tools and resources.

Qualified candidates must have a Ph.D. or equivalent in Computer Science, Bioinformatics, Computational Biology, Biology, Mathematics, Engineering or a related field, and a strong background in algorithm development, statistics, machine learning as well as a strong interest in applying computational approaches to address biological problems. The successful candidate should also have a demonstrated ability for independent and critical thinking, excellent communication and teamwork skills, and enthusiasm for learning new things. Proficiency in Matlab, R and Python is a plus.

The Carnegie Institution, a private, nonprofit organization engaged in basic research and advanced education in biology, astronomy, and the earth sciences, was founded and endowed by Andrew Carnegie in 1902 and incorporated by an act of Congress in 1904. Andrew Carnegie conceived the Institution’s purpose “to encourage, in the broadest and most liberal manner, investigation, research, and discovery, and the application of knowledge to the improvement of mankind.” The Department of Plant Biology engages in basic research on the mechanisms involved in the growth and development of plants and algae. The Department of Plant Biology is co-located with the Carnegie Department of Global Ecology on a seven-acre site on the campus of Stanford University.

Postdoctoral Research Associate

Department: DPB – Plant Biology

Salary: DOE

Location: Stanford, CA

Postdoctoral Research Associate

A postdoctoral position is available immediately to work on a project with the long term objective to re-engineeralgal and (crop) plant plastids for N2fixation. A combination of bioinformatics, molecular and synthetic biology tools will be used to design and re-engineer the N2 fixation gene cluster into a non-N2 fixing cyanobacterium along with other significant modifications.

A highly motivated and creative person, with strong training in molecular biology/bioinformatics and preferably experience working with cyanobacteria/microbes or synthetic biology will be ideal. Postdoctoral fellows will have the unique opportunity to work closely with other members of the multi-disciplinary international team.

The Carnegie Institution for Science is on the Stanford campus, in the San Francisco Bay area, with opportunities for extensive social and scientific interactions. The project is funded by NSF and the contract will be for one year at time and renewable based on performance.

The Carnegie Institution of Science is an equal opportunity employer.

Lab Assistant – Part Time

Department: DPB – Plant Biology

Salary:

Location: Stanford, CA

The Grossman lab is seeking a highly motivated, detail-oriented undergraduate student to assist in various aspects of algal biological research.  Projects in the lab are focused on improving our understanding of photosynthesis and metabolism in Chlamydomonas reinhardtii (model alga).

 The undergraduate student research assistant will be expected to help with the following:

-Media preparation

-General lab upkeep and maintenance

-Strain propagation and cryopreservation

-Strain genotyping and phenotyping

-Data analysis

A strong candidate will have previous laboratory research experience and be familiar with a molecular biology lab setting.  Student candidate will be trained to grow Chlamydomonas and to conduct experiments in molecular biology, genetics, and biochemistry.  Student will initially work together with a group, but will also be given the opportunity to work independently.

This is a 10-20 hour per week position, no benefits.

The position could be filled as soon as March 15, 2014.  Please provide cover letter and at least one letter of reference.   Preference will be given to candidates expressing interest in continuing to work during the summer of 2014 and into the fall.

Computational quantitative genetics postdoc position

Department: DPB – Plant Biology

Salary:

Location: Palo Alto, CA

A bioinformatics/computational biology postdoctoral research position is available immediately in the laboratory of Dr. Sue Rhee at Carnegie Institution’s Plant Biology Dept (Palo Alto, CA). The main goal of the project is to develop an algorithm to predict causal genes from QTL regions in plants, particularly in the model C4 grass Setaria. This project has opportunities to use genomics and functional genomics data in plants, both publicly available and newly generated in our consortium, to build an algorithm that can accelerate the discovery of genes that are responsible for phenotypic variation in metabolic and developmental traits in response to drought and high-density planting in Setaria. This is a collaborative project among several pioneering labs in plant physiology, genetics, engineering, and computational biology (www.foxmillet.org).

Qualifications: Qualified candidates must have: 1) a Ph.D. or equivalent in Computer Science, Biology, Bioinformatics, Mathematics, Engineering or related field; 2) expertise or fluency in large-scale data analysis, statistics, genomics, machine learning, and/or related field; and 3) proficient in programming. Candidates with experience in developing machine learning algorithms and/or trained in quantitative genetics, evolutionary biology, or population genetics are especially encouraged to apply. The successful candidate should have a demonstrated ability for independent and critical thinking, ability and initiative to learn new things, excellent communication and teamwork skills and passion for biological research.

Responsibilities: The successful candidate will develop a computational method/algorithm to rationally prioritize causal genes underlying QTLs from GWAS and QTL mapping studies using functional genomics data such as RNAseq, sequence
polymorphisms, evolutionary signatures, and functional annotations. The candidate will also work with scientists in the consortium who are generating the mapping and functional genomics data as well who will test the predicted causal genes using state of the art molecular biology, genetics, plant physiology, and genome editing tools.

Carnegie Institution for Science (http://carnegiescience.edu/) is a private, nonprofit organization for scientific discovery founded by Andrew Carnegie in 1902. He intended the institution to be home to exceptional individuals with imagination, intelligence and enjoyment capable of creating and expanding the cutting edge of their fields. Today, Carnegie scientists work in six scientific departments on the West and East Coasts. The Department of Plant Biology engages in basic research on the mechanisms involved in the growth and development of plants and algae. The Department of Plant Biology is located on the campus of Stanford University. Carnegie is an equal opportunity employer.

Computational biology postdoc position to study plant metabolism

Department: DPB – Plant Biology

Salary:

Location: Palo Alto, CA

A postdoctoral position is available immediately in the laboratory of Dr. Sue Rhee at the Carnegie Institution for Science, Department of Plant Biology, to create and analyze metabolic networks of plants. Plant metabolism is the biological engine that feeds the world, not only humans but also microbes and animals. The successful candidate will lead the development of computational tools and methods for predicting plant metabolic enzymes, transporters, and regulators as a part of a team called the Plant Metabolic Network (PMN, www.plantcyc.org). The successful candidate will have opportunities to develop novel questions regarding evolution, function, or regulation of metabolic networks in plants by leveraging the tools and data generated at the PMN and the Rhee lab, including standard molecular genetic tools and resources.

Qualified candidates must have a Ph.D. or equivalent in Computer Science, Statistics, Engineering, Mathematics, Biology, Biochemistry, Bioinformatics, Computational Biology, or a related field, and a strong background in algorithm development, statistics and programming, as well as a strong interest in applying machine learning and other computational approaches to address interesting biological problems. Candidates with experience in developing machine learning algorithms are especially encouraged to apply. Working experience in large-scale sequence analysis, and proficiency in programming languages of Python and/or Perl are pluses. The successful candidate should also have a demonstrated ability for independent and critical thinking, excellent communication and teamwork skills, and enthusiasm for learning new things.

The Carnegie Institution, a private, nonprofit organization engaged in basic research and advanced education in biology, astronomy, and the earth sciences, was founded and endowed by Andrew Carnegie in 1902 and incorporated by an act of Congress in 1904. Andrew Carnegie conceived the Institution’s purpose “to encourage, in the broadest and most liberal manner, investigation, research, and discovery, and the application of knowledge to the improvement of mankind.” The Department of Plant Biology engages in basic research on the mechanisms involved in the growth and development of plants and algae. The Department of Plant Biology is co-located with the Carnegie Department of Global Ecology on a seven-acre site on the campus of Stanford University.

Part-Time Laboratory Technician

Department: DPB – Plant Biology

Salary: DOE

Location: Stanford, CA

Part-Time Laboratory Technician

 

Immediate opening for a 1-year half-time technician in the laboratory of Dr. Devaki Bhaya at the Carnegie Institution for Science, Department of Plant Biology at Stanford.

 

Qualifications:

– Strong academic record and Bachelor’s degree in molecular biology/ or equivalent.

– 1-2 years of lab experience (outside of coursework) and familiarity with common molecular biology techniques such as PCR and cloning. Familiarity with computers/programming/ bioinformaticsstrongly preferred.

– Specific opportunities to develop independent research projects. Lab duties will involve keeping track of lab orders, lab organization, maintaining cultures and other stocks. Assisting and interacting with lab members on specific projects.

– Good judgment and common sense as well as critical thinking and attention to detail are required. Must possess excellent analytical, presentation, and written/verbal communication skills.

CV should include GPA if applicant is a recent graduate and 2-3 references will be required.  Cover Letter should indicate earliest joining date possible. 

The Carnegie Institution of Science is an equal opportunity employer.