CV

Jenna Morgan Lang

jennomics@gmail.com


EDUCATION:
University of California, Davis – Ph.D. Microbiology (2012)

Dissertation Title: Exploring Microbial Community Composition and Genome Evolution Using Environmental and Comparative Genomics

University of Texas, Arlington – M.S. Biology (2001)

Thesis Title: Worldwide Phylogeny of the Damselfly Genus Ischnura Based on Mitochondrial Cytochrome Oxidase II and Cytochrome B Sequence Data

University of New Orleans – B.S. Biology (1995)

 

RELEVANT EMPLOYMENT HISTORY:


Postdoctoral Researcher (2012 — Present)
Employer: University of California, Davis
Supervisor: Dr. Jonathan Eisen

Co-authored interdisciplinary, $750,000, 3-year grant to study seagrass microbiomes. Responsibilities include experimental design, generation and bioinformatic analysis of Illumina16S rDNA PCR and metagenomic sequence data, oversight of one postdoc, two Ph.D. students, and four undergraduate students. Developing methods to link bacterial taxonomy to function, by bioinformatic inference, FISH imaging, and via selective enrichment and genome sequencing. Collaborator on many additional microbiome projects, including Drosophila guts, grapevines, and prepared food.

Senior Research Associate (2001 — 2012)

Ph.D. Student (2007 — 2012)
Employer: Joint Genome Institute, Walnut Creek, CA
Supervisors: Dr. Jeffrey Boore, Tijana Glavina, Dr. Jonathan Eisen

  • In the DNA library group, constructed hundreds of genomic libraries, using small- and large-insert plasmids, fosmids, BACs, and YACs.
  • In the Evolutionary Genomics group, constructed and analyzed metagenomic libraries, 16S rDNA PCR, EST libraries, and performed large-scale microbial phylogenetics research.
  • Designed and sequenced a mock metagenomic community, comparing various DNA extraction methods, sequencing technologies, and analysis tools.
  • Comparative analysis of the intestinal microbiomes of various Drosophila species.

 

COMPUTER SKILLS:

  • analyze microbial sequence data, including QIIME and mothur for 16S rDNA data, and tools from the Huttenhower and Eisen labs for assembly, annotation, and analysis of metagenomes.
  • IPython Notebook to track, share, and make reproducible all bioinformatic workflows
  • UNIX/LINUX, SOLARIS, and Mac OSX
  • Perl and shell scripting, SAS and R for statistical analysis and data visualization

SELECTED TRAINING, WORKSHOPS, AND CONFERENCES:

  1. NESCent Computational Phyloinformatics Course, Participant, Durham, NC, July 9-19, 2007.
  2. Microbial Genomics Meeting, Presenter, Lake Arrowhead, CA, September 14–18, 2008.
  3. Woods Hole Microbial Diversity Course, Participant, Woods Hole, MA, June 10 – July 31, 2009. This is an intensive 6.5-week training course in microbial diversity, half of which is devoted to selective culturing of microbes with a wide range of metabolic capabilities.
  4. Microbial Genomics Meeting, Participant, Lake Arrowhead, CA, September 16–20, 2012.
  5. Workshop on New Methods for Phylogenomics and Metagenomics, Participant, UT Austin, February 16-17, 2013.
  6. QIIME Workshop, Participant, UC Davis, May 2-3, 2013.
  7. Software Carpentry Bootcamp, Organizer, UC Davis, May 13-14, 2013.

 

INVITED PRESENTATIONS:

  1. Workshop: Environmental sequencing approaches and computational tools for ecologists. Meeting of the Ecological Society of America, August 10, 2014.
  2. Microbial Genomics Meeting, Lake Arrowhead, CA, September 14-18, 2014.
  3. Using the Linux Command Line for Analysis of High Throughput Sequence Data, UC Davis Bioinformatics Training Program, September 15-19, 2014.
  4. Citizen Science 2015, Panel discussion about citizen microbiology, San Jose, CA, February 11-12, 2015.
  5. High-Resolution Microbiome Informatics Meeting in Woods Hole, workshop on developing new methods for microbial ecology, Woods Hole, MA, March 14, 2015.
  6. Workshop on Planetary Protection Knowledge Gaps for Human Extraterrestrial Missions, NASA and JPL engineers, Moffett Field, CA, March 24, 2015.

 

MOST RELEVANT PUBLICATIONS (of 20 total, with 1200+ citations):

  1. Chandler, JA, James, PM, Jospin, G, Lang, JM. (2014) The bacterial communities of Drosophila suzukii collected from undamaged cherries. PeerJ, 2: e474.
  2. Christopher W Beitel, Lutz Froenicke, Jenna M Lang, Ian F Korf, Richard W Michelmore, Jonathan A Eisen, Aaron E Darling. (2014) Strain-and plasmid-level deconvolution of a synthetic metagenome by sequencing proximity ligation products. 2:e415.
  3. Lang, JM, Eisen, JA, Zivkovic, AM. (2014) The microbes we eat: abundance and taxonomy of microbes consumed in a day’s worth of meals for three diet types. PeerJ, 2: e659.
  4. Lang, JM, Darling, AE, Eisen, JA. (2013) Phylogeny of bacterial and archaeal genomes using conserved genes: supertrees and supermatrices. PloS One, 8(4): e62510.
  5. Chandler, JA*, Lang, JM*, Bhatnagar, S, Eisen, JA, Kopp, A. (2011) Bacterial communities of diverse Drosophila species: ecological context of a host-microbe model system. PLoS Genetics, 7(9): e1002272. (*co-first authors)
  6. Vaishampayan, PA, Kuehl, JV, Froula, JL, Morgan, JL, Ochman, H, Francino, MP. (2010) Comparative metagenomics and population dynamics of the gut microbiota in mother and infant. Genome biology and evolution, 2: 53-66.
  7. Morgan, JL, Darling, AE, Eisen, JA. (2010) Metagenomic sequencing of an in vitro-simulated microbial community. PloS one, 5(4): e10209.