Genome Assemblies, Analyses, and Comparisons

DNA测序技术的进步使基因组研究的新领域成为可能，使基因组变异和表型之间有了很好的联系。我们正在研究各种真核和原核非模式生物的转录本和基因组，并为获得生物学见解做出了贡献。目前，我们正在与哥伦比亚科波伊卡的研究人员合作，继续利用下一代测序技术产生的更多数据来描述海角猕猴桃转录组的特征，并已使用NCBI工具完成了数据库的建设，以显示新组装的海角醋栗转录组。此外，我们刚刚完成了与Rocio Gamez和Roberto Vera Alvarez合作完成的植物生长促进细菌和香蕉植物之间的相互作用的分析。 与I·金·乔丹合作，我们研究了非洲裔哥伦比亚人的遗传祖先和混血模式，并将其祖先与其他混血的美国人进行了比较。我们发现，在次大陆层面上，来自乔科和麦德林的两个哥伦比亚种群彼此之间的相似性远远超过了所分析的任何其他混杂的美国种群。哥伦比亚人口群体之间共同的次大陆血统可以被视为对该国族裔和文化特性的作用产生了影响。此外，我们正在研究与混合基因组有关的健康决定因素，以减少健康差距。 我们与德克萨斯A&M大学的Keri Norman合作，对几种肠炎沙门氏菌菌株的基因组序列进行了组装和注释。使用Illumina构建组件，并使用NCBI原核基因组自动注释管道(PGAAP)注释基因组。

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).