Technological advances in DNA sequencing are enabling new areas of genomic research allowing fine connections between genomic variants and phenotype. We are studying transcriptomes and genomes from a variety of eukaryotic and prokaryotic non model organisms and have contributed to gain biological insights. Our first analysis was on the transcriptional regulation of N-acetylglutamate synthase where we predicted involvement of Sp1, CREB, HNF-1, and NF-Y in mammalian ureagenesis. The second study led to the first characterization of the Cape gooseberry transcriptome, here we were able to use the tomato and potato genomes to predict gene models and develop near 6,000 SSR markers from assembled ESTs. A bacterial sequencing study from six Rhodanobacter strains isolated from soil revealed variable denitrification capabilities, contributing to our knowledge of the biochemical pathways in the genus. A third study involves the evaluation of DNA barcode efficacy for taxonomic identification, here we use the probability of correct identification (PCI) as the appropriate measurement of barcode efficacy. The last study involved the in silico identification and characterization of the ion transport specificity for P-type ATPases in the Mycobacterium tuberculosis complex, here we used a number of computational methods to study and classify the P-type ATPases into 3 major groups: heavy metal cation transporters, alkaline and alkaline earth metal cation transporters and the beta subunit of a prokaryotic potassium pump.
| Medina-Cordoba, Luz K; Chande, Aroon T; Rishishwar, Lavanya et al. (2018) Genome Sequences of 15 Klebsiella sp. Isolates from Sugarcane Fields in Colombia's Cauca Valley. Genome Announc 6: |
| Conley, Andrew B; Rishishwar, Lavanya; Norris, Emily T et al. (2017) A Comparative Analysis of Genetic Ancestry and Admixture in the Colombian Populations of Chocó and Medellín. G3 (Bethesda) 7:3435-3447 |
| Rishishwar, Lavanya; Mariño-Ramírez, Leonardo; Jordan, I King (2017) Benchmarking computational tools for polymorphic transposable element detection. Brief Bioinform 18:908-918 |
| Wang, Lu; Rishishwar, Lavanya; Mariño-Ramírez, Leonardo et al. (2017) Human population-specific gene expression and transcriptional network modification with polymorphic transposable elements. Nucleic Acids Res 45:2318-2328 |
| Vera Alvarez, Roberto; Medeiros Vidal, Newton; Garzón-Martínez, Gina A et al. (2017) Workflow and web application for annotating NCBI BioProject transcriptome data. Database (Oxford) 2017: |
| Hernández-Fernández, Javier; Pinzón, Andrés; Mariño-Ramírez, Leonardo (2017) De novo transcriptome assembly of loggerhead sea turtle nesting of the Colombian Caribbean. Genom Data 13:18-20 |
| Rishishwar, Lavanya; Wang, Lu; Clayton, Evan A et al. (2017) Population and clinical genetics of human transposable elements in the (post) genomic era. Mob Genet Elements 7:1-20 |
| Duplat-Bermúdez, L; Ruiz-Medrano, R; Landsman, D et al. (2016) Dataset of Arabidopsis plants that overexpress FT driven by a meristem-specific KNAT1 promoter. Data Brief 8:520-8 |
| Medina-Rivas, Miguel A; Norris, Emily T; Rishishwar, Lavanya et al. (2016) Chocó, Colombia: a hotspot of human biodiversity. Rev Biodivers Neotrop 6:45-54 |
| Bernal, Johan F; Donado-Godoy, Pilar; Arévalo, Alejandra et al. (2016) Whole-Genome Sequence of Multidrug-Resistant Campylobacter coli Strain COL B1-266, Isolated from the Colombian Poultry Chain. Genome Announc 4: |
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