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. At the moment we are collaborating with researchers in Corpoica, Colombia to continue the characterization of the Cape gooseberry transcriptome with additional data generated by next-generation sequencing technologies and have finalized the construction of a database using NCBI tools to display the newly assembled Cape gooseberry transcriptome. Additionally, we just completed the analysis of interactions between plant growth promoting bacteria and banana plants, done in collaboration with Rocio Gamez and Roberto Vera Alvarez. In collaboration with I. King Jordan we studied the genetic ancestry and admixture patterns for an Afro-Colombian population and to compare its ancestry to other admixed American populations. We found that at the subcontinental level, the two Colombian populations from Choco and Medellin are far more similar to each other than to any of the other admixed American populations that were analyzed. The shared subcontinental ancestry between Colombian population groups can be taken to have implications for the roles of ethnic and cultural identity in the country. Additionally, we are looking into health determinants in connection with admix genomes to reduce health disparities. We contributed to the genome assembly and annotation of several genome sequences of Salmonella enterica strains in collaboration with Keri Norman at Texas A&M University. Assemblies were constructed using Illumina and the genomes were annotated with the NCBI Prokaryotic Genome Automatic Annotation Pipeline (PGAAP).
| 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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