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Molecular Biology

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Country: United States
State: Maryland
City: Columbia
Salary: $60000
Posted date: 2/27/2011   all resumes
Email: p0ryzs@r.postjobfree.com
Contact Info: ***********@*****.***
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Douglas W. Fadrosh
**** ******** ***** #****, *** Diego, CA 92122 240-***-**** E-mail: p0ryzs@r.postjobfree.com
Objective
To contribute a strong background in molecular biology and biodefense, along with an extreme drive for excellence and success, to your department in a Research Scientist capacity.
Professional Profile
• Results-driven scientist with extensive experience in cutting edge molecular biology and genomics based laboratory settings.
• Highly organized individual having a superior ability to multitask while maintaining a professional demeanor and meeting company goals and deadlines.
• Creative problem-solver with a proven track record in producing high quality publication worthy data from complicated experiments.
• Motivated hard-worker who exceeds goals, has been promoted on a regular basis, and has consistently received praise for work performance.
• Articulate communicator that excels at giving written and oral scientific presentations.
• Enthusiastic technically-savvy individual well versed in Microsoft Office, UNIX/Linux systems, Macintosh and PC-based systems

Areas of Expertise

• Traditional and Next-Generation DNA Sequencing
• Manipulation of low concentrations of DNA
• Multiple Displacement Amplification (MDA)
• Biodefense History and Theory

• DNA Shotgun Library Construction
• DNA/RNA Extraction Techniques
• Molecular Techniques
• Microbial Ecology

Professional Experience
Research Associate III – Viral Library Construction The J. Craig Venter Institute, San Diego, CA 2006-Present
• Performs molecular biology-based techniques including, but not limited to, standard gel electrophoresis, pulse field gel electrophoresis (PFGE), field inversion gel electrophoresis (FIGE), polymerase chain reaction (PCR) amplification, multiple displacement amplification (MDA), qPCR, reverse transcription PCR, molecular cloning, restriction enzyme digestion, linker-amplified shotgun library (LASL) construction and DNA sequencing.
• Conceives of and carries out complicated scientific experiments to optimize, validate and obtain scientific data in areas such as DNA/RNA extraction, nucleic acid fractionation using hydroxyapatite chromatography, microbial isolation and purification from air, soil, seawater, and hypersaline ponds, DNA shotgun library construction and next-generation DNA sequencing.
• Analyzes microbial (bacterial and viral) metagenomic DNA sequence and protein data using modern methods and DNA sequence databases (BLAST, Pfam, TIGRfam, ACLAME, Metagene, COG, KEGG, clustal, etc.) to determine taxonomic/phylogenetic affiliations and functional/metabolic capacities.
• Participates in field sampling (R/V Sorcerer II, R/V Hugh Sharp, R/V Atlantis) to collect, preserve and conduct initial experiments involving environmental bacteria and viruses.
• Conducts experiments using sterile techniques in a BSL-2 setting with potential human bacterial and viral pathogens.
Research Associate III – Project Leader The Institute for Genomic Research, Rockville, MD 2006
• Promoted from Research Associate III- Molecular Biology
• Performed molecular biology-based techniques to construct DNA shotgun libraries from genomic and BAC-based bacterial and viral samples for a service-oriented laboratory group.
• Researched and developed the existing methodologies and pipelines in order to make it cheaper, more reliable and less time consuming.
• Managed, mentored, trained, produced standard operating procedures (SOPs) and validated methodologies for a group of three individuals.
• Received, assigned, tracked, and prepared reports for sample progress including frequent one on one communications with individual principal investigators.
• Prepared budget and accounting reports.

Research Associate III – Molecular Biology The Institute for Genomic Research (TIGR), Rockville, MD
• Promoted from Research Associate II- Molecular Biology
• Performed molecular biology techniques to close gaps present in genomic sequence data.
• Interacted heavily with Sybase, UNIX/Linux, PC and Macintosh-based systems to organize, query for and manipulate sequence data.
• Assembled, manipulated, edited and confirmed quality of sequence data.
• Monitored and communicated project progress to peers, supervisors, and principal investigators.
• Created, edited and modified standard operating procedures (SOPs)
• Trained and mentored junior members of the group.
Research Associate II – Molecular Biology The Institute for Genomic Research (TIGR), Rockville, MD
• Promoted from Research Associate I - Molecular Biology
• Performed molecular biology techniques to close gaps present in genomic sequence data including template DNA preparation (plasmid purification), transformation, isolation and purification of bacterial artificial chromosome (BAC) based plasmids and nuclease treatment in addition to those techniques outlined as part of the Research Associate I – Molecular Biology position independent of close supervision.
• Analyzed sequence data to identify low quality and repetitive areas as well as data containing contaminating or plasmid vector-based sequence

Research Associate I – Molecular Biology The Institute for Genomic Research (TIGR), Rockville, MD
• Designed primer sequences and performed molecular biology techniques including PCR, transposon-mediated library construction, molecular cloning, and DNA sequencing to close gaps present in genomic sequence data under close supervision.
• Interacted with automated DNA sequencing instrumentation, liquid handling robotics, general laboratory machinery as well as in-house computer software, tools, scripts and programs to produce, retrieve, and analyze sequencing data
• Ordered, inventoried and maintained reagent, consumable and solution stocks.

Summer Fellow Juniata College, Huntingdon PA 2001
• Maintained stocks of Tribolium casteneum (Red Flour Beetle)
• Performed biological techniques including tissue fixation, microscopy, and literature searches
• Collected, manipulated, and organized of data

Awards and Professional Memberships
• The William J. Von Liebig Student Research Award – April 2002
• The International Society of Microbial Ecology, Member 2010

Education
• Master of Arts in Biotechnology specializing in Biodefense, 2006; GPA 3.7
The Johns Hopkins University, Baltimore, MD
Relevant Courses

Advanced Biochemistry and Molecular Biology
Biothreat Response and Microbial Forensics
Advanced Cell Biology I & II
Computers in Molecular Biology
Biochemistry
Immunological Techniques in Biotechnology
Science, Medicine, and Policy in Biodefense
Principles of Immunology
Microbiology

• Bachelor of Arts in Molecular Biology, 2002; GPA 3.1
Juniata College, Huntingdon, PA
Relevant Courses(Credit Hours)

Biochemistry and Molecular Biology I, II, & III (9)
Chemistry/Biology Lab I & II (8)
Molecular Techniques (3)
Biology Research (7)
Biology I & II (6)
Microscopy (3)
Organic Chemistry I & II (6)
Bioinorganic Chemistry (3)
Research Seminar (1)
Analytical Chemistry (5)

Publications
• Eloe EA, Fadrosh DW, Novotny M, Lombardo M-J, Yee-Greenbaum J, Zeigler LA, Kim M, Allen EE, Yooseph S, Lasken R, Williamson SJ and Bartlett DH. Metagenomic insights into the metabolic potential of a hadopelagic microbial community. (In preparation)

• Eloe EA, Shulse CA, Fadrosh DW, Williamson SJ, Allen EE, and Bartlett DH (2010) Compositional differences in particle-associated and free-living microbial assemblages from an extreme deep-ocean environment. Environ Microbiol Reports. DOI: 10.1111/j.1758-2229.2010.00223.x.

• Andrews-Pfannkoch C, Fadrosh DW, Thorpe J, Williamson SJ (2010) Hydroxyapatite-mediated separation of double-stranded DNA, single-stranded DNA, and RNA genomes from natural viral assemblages. Appl Environ Microbiol 76(15): 5039-45.

• Williamson SJ, Rusch DB, Yooseph S, Halpern AL, Heidelberg KB, Glass JI, Andrews-Pfannkoch C, Fadrosh DW, Miller CS, Sutton G, Frazier M, Venter JC (2008) The Sorcerer II Global Ocean Sampling Expidition: metagenomic characterization of viruses within aquatic microbial samples. PLoS ONE 3(1): e1456.

• Desjardins CA, Gundersen-Rindal DE, Hostetler JB, Tallon LJ, Fadrosh DW, Fuester RW, Pedroni MJ, Haas BJ, Shatz MC, Jones KM, Crabtree J, Forberger H, Nene V (2008) Comparative genomics of mutualistic viruses of Glyptapanteles parasitic wasps. Genome Biology 9:R183.

• Desjardins CA, Gundersen-Rindal DE, Hostetler JB, Tallon LJ, Fuester RW, Shatz MC, Pedroni MJ, Fadrosh DW, Haas BJ, Toms BS , Chen D, Nene V (2007) Structure and evolution of a proviral locus of Glyptapanteles indiensis bracovirus. BMC Microbiology 7:61.

• Brayton KA, Lau AOT, Herndon DR, Hannick L, Kappmeyer LS, Berens SJ, Bidwell SL, Brown WC, Crabtree J, Fadrosh DW, Feldblum T, Forberger HA, Haas BJ, Howell JM, Khouri H, Koo H, Mann DJ, Norimine J, Paulsen IT, Radune D, Ren Q, Smith Jr. RK, Suarez CE, White O, Wortman JR, Knowles Jr. DP, McElwain TF, Nene V (2007) Genome sequence of Babesia bovis and comparative analysis of apicomplexan hemoprotozoa. PLoS Pathog 3(10): e148.

• Fouts DE, Rasko DA, Cer RZ, Jiang L, Fedorova NB, Shvartsbeyn A, Vamathevan JJ, Tallon L, Althoff R, Arbogast TS, Fadrosh DW, Read TD, Gill SR (2006) Sequencing Bacillus anthracis Typing Phages Gamma and Cherry Reveals a Common Ancestry. J Bacteriol 188:3402.

• Buell CR, Yuan Q, Ouyang S, Liu J, Zhu W, Wang A, Maiti R, Haas B, Wortman J, Pertea M, Jones KM, Kim M, Overton L, Tsitrin T, Fadrosh DW, Bera J, Weaver B, Jin S, Johri S, Reardon M, Webb K, Hill J, Moffat K, Tallon L, Van Aken S, Lewis M, Utterback T, Feldblyum T, Zismann V, Iobst S, Hsiao J, de Vazeille AR, Salzberg SL, White O, Fraser C, Yu Y, Kim H, Rambo T, Currie J, Collura K, Kernodle-Thompson S, Wei F, Kudrna K, Ammiraju JS, Luo M, Goicoechea JL, Wing RA, Henry D, Oates R, Palmer M, Pries G, Saski C, Simmons J, Soderlund C, Nelson W, de la Bastide M, Spiegel L, Nascimento L, Huang E, Preston R, Zutavern T, Palmer L, O'Shaughnessy A, Dike S, McCombie WR, Minx P, Cordum H, Wilson R, Jin W, Lee HR, Jiang J, Jackson S; Rice Chromosome 3 Sequencing Consortium. Sequence, annotation, and analysis of synteny between rice chromosome 3 and diverged grass species. Genome Res 2005, Sep; 15(9): 1284-91.

• International Rice Genome Sequencing Project (2005) The map-based sequence of the rice genome. Nature 436, 793-800.

Presentations and Posters
• Fadrosh DW, Allen LA, Polson SW, Helton RR, Cary SC, Wommack KE, and Williamson SW. Metagenomic Investigation of Extracellular and Mitomycin-C Induced ssDNA and RNA-containing Viruses from Deep-Sea Hydrothermal Vents. ISME13: 13th International Symposium on Microbial Ecology. Aug 22-27 2010. Seattle, Washington.
• Wommack KE, Williamson SJ , Fadrosh DW, Zeigler LA, and Polson SW. Observations of the most abundant and active genes in the biosphere the ecology of viral genes. 2010 Ocean Sciences Meeting. Feb 22-26, 2010, Portland, OR.

• Polson SW, Wommack KE, Zeigler LA, Fadrosh DW, and Williamson SJ. The “Other” DNA Viruses: Metagenomic assessment of ssDNA virioplankton from two sites. 2010 Ocean Sciences Meeting. Feb 22-26, 2010. Portland, OR.

• Helton RR, Polson SW, Winget DM, Zeigler L, Fadrosh DW, Cary SC, Williamson SJ, and Wommack KE. Exploration and induction of temperate phage from hydrothermal vent diffuse flow water. General Meeting of the American Society for Microbiology. May 17-21, 2009. Philadelphia, PA.
• Winget DM, Fadrosh DW, Wommack KE, Williamson SJ. 2008. Widening the Camera Lens: Metagenomic and Biogeochemical Characterization of Marine Virioplankton. 108th General Meeting of the American Society for Microbiology. Boston, MA.
• Fadrosh DW, Khouri H, Chen D, Sosa J, Nierman W, Tallon L, and Eisenstadt E. Library Construction from Difficult to Sequence Genomes. GMEC 2006: Genomes, Medicine and the Environment. October 16-18, 2006. Hilton Head, South Carolina.

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