During the third quarter of 2015, the remaining 12 transcriptomes and mitogenomes were assembled and annotated. Phylogenetic analyses of Loricariidae subfamilies were performed using the complete sequences of all the 13 mitochondrial genes, and Dr. Parente and his colleagues are preparing a manuscript on the results. Three previously submitted manuscripts have been accepted so far, of which one has been published, another is available online, and the third is being processed by Elsevier for online publication. Another manuscript, entitled “The complete mitochondrial genome of Corydoras nattereri
(Callichthyidae Siluriformes), is in the final stage of preparation and should be submitted to the journal Neotropical Ichthyology
in November. Another manuscript on the species, Hoplosternum littorale,
is also in preparation. During these recent months, Dr. Parente and his team have been actively communicating the data generated and analyzed so far, but a large amount of data remains to be analyzed. For example, they are analyzing a total of 1189 CYP transcripts covering more than 75 percent of their own zebrafish ortholog complete coding sequence (CDS) were sequenced on the 39 liver transcriptomes. A preliminary phylogenetic tree showing the relationships among those transcripts has been created.
|The research team at the Andorinhas waterfall on the Roncador river in the district of Santo Alexio. Pictured are Paolo Buckup (top), Emmanuel Neuhaus (center), Thiago Parente (left foreground), and Jose Gomes (right foreground). (Photo: Carla Quijada).||Labwork to obtain sequencing of genes (Photo: Dr. Parente).|
The PI attended the international meeting PRiMO 18 (Pollutant Responses in Marine Organisms) in Trondheim, Norway, May 24-27, 2015, where he met with U.S. collaborators on the project. Dr. Parente, accompanied by the two undergraduate students and the computational biology specialist on the project, also attended the international meeting Evolution 2015, the joint annual meeting of the Society for the Study of Evolution, the Society of Systematic Biologists, and the American Society of Naturalists. This event, which took place in Guarujá, Brazil, June 26-30, marked the first time the conference had been held outside the United States. Dr. Parente and his team presented two posters and two flash talks.
In the coming months, plans call for completing data analyses for CYP biodiversity and molecular evolution in Loricariidae
and investigating molecular biodiversity and adaptation on other gene families, for example the Flavin monooxigenases (FMO), in collaboration with Dr. Daniel Schlenk and his student from UC Riverside. An additional field visit to sample fish species in Guyana is also being organized, pending the receipt of the necessary permit, and after the trip the team will sequence and analyze transcriptomes from the Guyanese fish samples and evaluated adaptive responses for selected species. The excursion to Guyana will provide an opportunity to sample two particular species, Lithogenes sp
. and Corymbophanes sp
. In order to increase the chances to collect those species, and also for safety reasons, the excursion must happen in one of the few dry months in Guyana, which are September-October or February-March. On the outreach side, further interactions are expected with stakeholders from FIOCRUZ, IBAMA, ICMBio, the Brazilian Federal Police, the private (fish exporters) and third (NGO) sectors, and individual fishermen to promote the goal of managing wildlife populations of Loricariidae
fish and making their commercial exploitation sustainable. A no-cost extension on this project has been issued through June 2016 to allow for more time to complete the field work and subsequent analyses.
Back to PEER Cycle 2 Grant Recipients