Jeremiah Jeffrey Minich
Email: jjminich@ucsd.edu or jeremiah.minich@gmail.com
SUMMARY OF QUALIFICATIONS
Molecular/Genomics biologist with 8 years direct experience in governmental research, biotech, academic, and pharmaceutical settings primarily working in genomics applications.
- Well-rounded publication & presentation record demonstrating scholarly achievement along with written and oral abilities
- Productive independent researcher with excellent communication and team skills
- Can interact effectively with geneticists, molecular biologists and computational biologists
- Experience in project management including training/overseeing students
| EDUCATION:
PhD, Marine Biology |
09/2016-09/2020 |
| San Diego State University, San Diego CA | 08/2016 |
| M.S. Cellular & Molecular Biology, GPA 3.85 | |
| GRE Scores: Math: 160-78%, Verbal: 158-79%, Writing: 5.5-98% | |
| Point Loma Nazarene University, San Diego CA | 5/2010 |
| B.S. Biochemistry, minor in Spanish, GPA 3.0 | |
| West Perry Senior High School, Elliottsburg PA | 6/2005 |
| Diploma | |
| HONORS: Fulbright Student Scholar (Malawi) | 1/2015-9/2015 |
| SDSU Scholars without Borders Honor Society | 9/2013-6/2014 |
| Harold & June Grant Memorial Scholarship | 5/2014 & 5/2013 |
| Genomics Fellowship College of Charleston (denied) | 5/2012 |
| Best student poster presentation SETAC, Merida Mexico | 8/2011 |
| Best student poster (top 5) 34th annual WCBSRC | 5/2009 |
| Eagle Scout Award | 7/2004 |
WORK/RESEARCH EXPERIENCE:
UCSD SIO Marine Biology Research Division: Knight lab and Allen lab
Co-advised: Rob Knight (Professor Pediatrics & Computer Science)
Eric Allen (Associate Professor Marine Biology & Biology)
I am investigating the marine fish microbiomes to understand how trophic level, habitat preference, body site, and host taxonomy drives the microbial community in fish from California. I am also investigating the temporal and seasonal variation of the microbiome on an ecologically and commercially important forage fish.
UCSD Pediatrics Department: Knight Lab 9/2015-9/2016
PI: Rob Knight, Professor School of Medicine and Computer Science
I am helping to develop methodologies for low biomass biological samples in the Knight lab pipeline. These techniques will enable studies to explore the microbiome of host blood and brain material among other environments where low numbers of bacteria exist.
Human microbiome, 16s 18s metagenomics, high throughput
| US Fulbright Student, Malawi Africa | 1/2015-8/2015 |
National Aquaculture Center & Bunda College
Contact: Dr. Hastings Zidana, Director of National Aquaculture Center Malawi
Project 1: I helped an orphanage develop a fish farm aquaponics system to grow tilapia and catfish while irrigating to grow tomatoes and other vegetables. I trained secondary students from this orphanage by taking them to the National Aquaculture Center to take over the project upon leaving.
Project 2: I evaluated 6 different animal manures for the effects on water quality and fish production (tilapia and catfish in polyculture). I am using 16s and 18s metagenomics in the Knight lab to evaluate how these manure treatments and fish health correspond to bacteria and algae in the water and fish GI tract..
Diplomacy, Project management, experimental design, bacterial and eukaryote metagenomes, MiSeq, 18s &16s sequencing, aquaculture
SDSU Biology Department: Dinsdale Lab 8/2012-present
PI: Elizabeth Dinsdale, Associate Professor Cell & Molecular Biology, Ecology, Computer Science Departments
For my Masters Degree, I am studying the effects of global climate change factors of elevated temperature and CO2 on an ecologically important macroalgae, Macrocystis pyrifera. I am using microbial ecology principles to evaluate the change in the bacterial community associated with this macroalgae on the frond surface and in the surrounding water column as a response to these abiotic factors. I have learned sampling methodologies in the field for studying microbial communities along with the entire molecular pipeline for sequencing samples using 454, Ion Torrent PGM, and the Illumina MiSeq platforms.
Microbial ecology, marine biology, experimental design, shotgun
metagenomes, Next Generation Sequencing, genomics, bioinformatics
| Abbott Laboratories, Carlsbad CA | 3/2012-12/2014 |
NGS Genomics Scientist Level IV: R&D New Technologies Group Mentor/Boss: Todd P. Michael (Senior Principal Scientist)
Project 1: I helped develop ultraclean DNA& RNA extraction and Whole Genome
Amplification protocols for microbial forensics using Ion Torrent sequencing.
Project 2: We utilized a variety of novel genomics methods such as bisulfite DNA sequencing, noncoding RNA, mRNA, and total RNA sequencing to study neuro- epigenetics. I helped develop and optimize the Illumina sequencing pipeline.
NGS: Ion Torrent Sequencing, Illumina MiSeq & HiSeq Sequencing, library preparation, Bioanalyzer, WGA, qPCR, qRT-PCR, Qubit, Nucleic Acid Extraction
| AquaBounty Technologies, Mira Mesa CA | |
| Intern-Volunteer | 5/2011-1/2012 |
Mentor: Jason Stannard (VP Operations, Center for Aquaculture Technologies)
I investigated drug delivery methods in invertebrates utilizing RNAi, gene expression, and microscopy. I helped design and assemble dsRNA products through cloning. I use qPCR and rtPCR to quantify changes in gene expression and transcript presence.
RNA extraction/quantification, cDNA synthesis, dsRNA molecule design, cloning, rtPCR, qPCR, primer design, RE digestion/gel excision, plasmid extraction
NOAA Southwest Fisheries Science Center, La Jolla CA 9/2009-3/2012 Scientist I: Marine Mammal Genetics Group
Mentor/Boss: Barb Taylor
I worked on numerous projects leading to two publications and 1 poster presentation.
For three years, I helped process marine mammal strandings by performing necropsies on deceased dolphins and pinnipeds. I also participated on several research cruises and other field work throughout the Pacific Coast.
DNA extraction/quantification (nano drop, Tecan plate reader-pico green), qPCR Taqman and SYBR assays, PCR, gel electrophoresis, liquid handling robotics, Sanger sequencing, outreach, stranding necropsies, data/project management
WORKSHOPS & CONFERENCES:
| 2nd Annual Seriola workshop, NOAA SWFSC La Jolla USA | 1/2018 |
| World Aquaculture Society International, Cape Town South Africa | 7/2017 |
| Center for Microbiome Innovation Annual Seminar, UCSD, USA | 02/2017 |
| Changing Microbiomes for Health Symposium, UCSD | 12/2016 |
| ISME Conference, Montreal | 08/2016 |
| Neuroscience meeting, San Diego | 11/2013 |
| CSU Cell & Molecular Biology Graduate Seminar, SDSU | 04/2013 |
| Ion World (Ion Torrent Next Generation Sequencing) | 10/2012 |
| Next Gen Gene Expression Workshop-Transcriptomics, Salk | 09/2011 |
| SETAC/SER Conference, Merida Mexico | 08/2011 |
| 16th PRIMO Conference | 05/2011 |
| NIH Genomics Symposium, TSRI | 03/2011 |
| 2nd Annual Marine Mammal Symposium | 01/2011 |
| CA Science Advisory Panel for contaminants of emerging concern, SCCWRP | 09/2010 |
| South Coast MPA monitoring workshop, SIO | 08/2010 |
| Aquaculture 2010: Triennial meeting, San Diego | 03/2010 |
| 34th annual West Coast Biological Sciences Research Conference, PLNU | 04/2009 |
J J Minich 