Caleb D. Phillips
- Ph.D. in Genetics- 2009, Purdue University, Department of Forestry and Natural Resources
- M.S. in Biology- 2006, Tarleton State University, Department of Biological Sciences
- B.S. in Biology- 2003, Tarleton State University, Department of Biological Sciences
The Phillips laboratory studies metagenomic and genomic evolution underlying mammalian function.
Our work in metagenomics has two main themes. The first is focused on understanding the relationship between observed patterns of variation among microbiome communities and how this variation relates to functional differences. We are developing new analytical approaches and software to this end (see our ICB paper, below). Owing to their unique characteristics, we commonly exploit bats as our study system for this work. The second component of our metagenomics work pertains to how bacterial community dynamics and host genomics influence infection profiles of chronic wounds. Much of this work is in collaboration with the Southwest Regional Wound Care Center and involves the development of the Wolcott Wound Care Research Collection at The Museum of TTU. By incorporating concepts developed in the fields of evolutionary biology, genomics, phylogenetics, physiology and ecology, this work builds systems-level understanding of organismal function.
Our work in genomics devolves from our interest in understanding how evolution of gene expression explains functional differences across lineages. We are particularly interested in post-transcriptional regulation during craniofacial development. We are currently working in the mouse model to develop a catalog of regulatory targets of the RNA-binding protein, Musashi-2, a protein we have shown to be mandatory for normal craniofacial development.
- Phillips CD, Hanson JD, Wilkinson J, Koenig L, Rees E, Webala P, Kingston T (in press) Microbiome Structural and Functional Interactions across Host Dietary Niche Space. Integrative and Comparative Biology.
- Wolcott RD, Hanson JD, Rees E, Koenig L, Phillips CD, Wolcott R, Cox SB, White J (2016) Analysis of the Chronic Wound Microbiota of 2963 Patients by 16S rDNA Pyrosequencing. Wound Repair and Regeneration, DOI:10.1111/wrr.12370.
- CD Phillips, RJ Baker (2015) Secretory gene recruitments in vampire bat salivary adaptation and potential convergences with sanguivorous leeches. Frontiers in Ecology and Evolution, DOI:10.3389/fevo.2015.00122
- CJ Phillips, CD Phillips, J Goecks, EP Lessa, CG Sotero-Caio, B Tandler, MR Gannon, RJ Baker (2014) Dietary and flight energetic adaptations in a salivary gland transcriptome of an insectivorous bat. PLoS One, DOI: 10.1371/journal.pone.0083512
- FAA Khan, CD Phillips, RJ Baker (2014) Timeframes of speciation, reticulation, and hybridization in the bulldog bat explained through phylogenetic analyses of all genetic transmission elements. Systematic Biology, 63(1):96–110
- J Thomas, CD Phillips, RJ Baker, EJ Pritham (2014) Rolling-circle transposons catalyze genomic innovation in a mammalian lineage. Genome biology and evolution, 6(10): 2595-2610
- CD Phillips, B Butler, JW Fondon, H Mantilla-Meluk, RJ Baker (2013) Contrasting evolutionary dynamics of the developmental regulator PAX9, among bats, with evidence for a novel post-transcriptional regulatory mechanism. PLoS One, DOI: 10.1371/journal.pone.0057649
- CD Phillips, G Phelan, SE Dowd, MM McDONOUGH, AW Ferguson, JD Hanson, L Siles, N Ordóñez-Gerza, M San Francisco, RJ Baker (2012) Microbiome analysis among bats describes influences of host phylogeny, life history, physiology and geography. Molecular Ecology, 21(11):2617-2627