John P. McCrow is a Computational Biologist within the Allen Lab group in the Microbial and Environmental Genomics Department at JCVI. His research is focused primarily on comparative genomics and phylogenetics of marine microbial metagenomic and transcriptomic samples. He has worked on a number of projects at JCVI related to marine microorganisms and the dynamics among marine ecosystems and has developed custom software tools for high-throughput data analysis.
- RNAseq analyses
- Indels, SNPs, and genotype specific signatures
- Large scale computing
- Comparative genomics
Prior to joining JCVI as a postdoctoral fellow, Dr. McCrow received his Ph.D. in 2008 in Computational Biology from the University of Southern California under Michael Waterman and Kenneth Nealson where he worked on sequence analysis and alignment methods for signature sequences useful in phylogenetic inference.
Bertrand, Erin M. and McCrow, John P. and Moustafa, Ahmed and Zheng, Hong and McQuaid, Jeffrey B and Delmont, Tom O. and Post, Anton F. and Sipler, Rachel E. and Spackeen, Jenna L. and Xu, Kai and Bronk, Deborah A. and Hutchins, David A. and Allen, Andrew E. 2015. Phytoplanktontextendashbacterial interactions mediate micronutrient colimitation at the coastal Antarctic sea ice edge. Proceedings of the National Academy of Sciences. 10.1073/pnas.1501615112
Dupont, Chris L. and McCrow, John P. and Valas, Ruben and Moustafa, Ahmed and Walworth, Nathan and Goodenough, Ursula and Roth, Robyn and Hogle, Shane L and Bai, Jing and Johnson, Zackary I. and Mann, Elizabeth and Palenik, Brian and Barbeau, Katherine A. and Craig Venter, J. and Allen, Andrew E. 2015. Genomes and gene expression across light and productivity gradients in eastern subtropical Pacific microbial communities. ISME J. 9:1076-1092. : International Society for Microbial Ecology 10.1038/ismej.2014.198
Dupont, C. L. and Larsson, J. and Yooseph, S. and Ininbergs, K. and Goll, J. and Asplund-Samuelsson, J. and McCrow, J. P. and Celepli, N. and Allen, L. Z. and Ekman, M. and Lucas, A. J. and Hagstrom, A. and Thiagarajan, M. and Brindefalk, B. and Richter, A. R. and Andersson, A. F. and Tenney, A. and Lundin, D. and Tovchigrechko, A. and Nylander, J. A. A. and Brami, D. and Badger, J. H. and Allen, A. E. and Rusch, D. B. and Hoffman, J. and Norrby, E. and Friedman, R. and Pinhassi, J. and Venter, J. C. and Bergman, B. 2014. Functional tradeoffs underpin salinity-driven divergence in microbial community composition. Plos One. 9. 10.1371/journal.pone.0089549
Allen, A. E. and Allen, L. Z. and McCrow, J. P. 2013. Lineage specific gene family enrichment at the microscale in marine systems. Current Opinion in Microbiology. 16:605-617. 10.1016/j.mib.2013.10.001
Allen, L. Z. and Allen, EE and Badger, J. H. and McCrow, J. P. and Paulsen, I. T. and Elbourne, L. D. H. and Thiagarajan, M. and Rusch, D. B. and Nealson, K. H. and Williamson, S. J. and Venter, J. C. and Allen, A. E. 2012. Influence of nutrients and currents on the genomic composition of microbes across an upwelling mosaic. Isme Journal. 6:1403-1414. 10.1038/Ismej.2011.201
Allen, A. E. and Dupont, C. L. and Obornik, M. and Horak, A. and Nunes-Nesi, A. and McCrow, J. P. and Zheng, H. and Johnson, D. A. and Hu, H. H. and Fernie, A. R. and Bowler, C. 2011. Evolution and metabolic significance of the urea cycle in photosynthetic diatoms. Nature. 473:203-+. 10.1038/Nature10074
Yooseph, S. and Nealson, K. H. and Rusch, D. B. and McCrow, J. P. and Dupont, C. L. and Kim, M. and Johnson, J. and Montgomery, R. and Ferriera, S. and Beeson, K. and Williamson, S. J. and Tovchigrechko, A. and Allen, A. E. and Zeigler, L. A. and Sutton, G. and Eisenstadt, E. and Rogers, Y. H. and Friedman, R. and Frazier, M. and Venter, J. C. 2010. Genomic and functional adaptation in surface ocean planktonic prokaryotes. Nature. 468:60-+. 10.1038/Nature09530
Cuvelier, M. L. and Allen, A. E. and Monier, A. and McCrow, J. P. and Messie, M. and Tringe, S. G. and Woyke, T. and Welsh, R. M. and Ishoey, T. and Lee, J. H. and Binder, B. J. and Dupont, C. L. and Latasa, M. and Guigand, C. and Buck, K. R. and Hilton, J. and Thiagarajan, M. and Caler, E. and Read, B. and Lasken, R. S. and Chavez, F. P. and Worden, A. Z. 2010. Targeted metagenomics and ecology of globally important uncultured eukaryotic phytoplankton. Proceedings of the National Academy of Sciences of the United States of America. 107:14679-14684. 10.1073/Pnas.1001665107