Category Archives: Environmental Activism

Local Funding Supports Open Access Sequencing of the Puerto Rican Parrot Genome

The critically endangered Puerto Rican Parrot (Amazona vittata) is the only surviving parrot species native to the United States. (Credit: Image courtesy of BioMed Central Limited)

ScienceDaily (Sep. 27, 2012) — The critically endangered Puerto Rican Parrot (Amazona vittata) is the only surviving parrot species native to the United States. A genomic sequencing project, funded by community donations, has published September 28, in BioMed Central and BGI’s open access journal GigaScience, the first sequence of A. vittata, the first of the large Neotropical Amazona birds to be studied at the genomic level.

 

The Puerto Rican Parrot was once abundant throughout Puerto Rico but destruction of old forest habitats to make way for farming in the 19th Century resulted in a drastic decline in their population. By the mid 1970’s only a handful of individuals were thought to remain. Captive breeding programs in Rio Abajo and El Yunque and the release of these birds have had some success, but the number of these birds in the wild is still very low.

In a unique initiative (developing of the Local Community Involvement), funded entirely by contributions from the communities of Puerto Rico alongside staff and students from the Biology Department of the University of Puerto Rico at Mayagüez, researchers collaborated internationally to sequence this beautiful parrot.

Dr Taras Oleksyk, who organized the The Puerto Rican Parrot Genome Project, explained their findings, “In this project we managed to cover almost 76% of the A. vittata genome using money raised in art and fashion shows, and going door to door asking for the support of Puerto Rican people and local businesses. When we compared our sequence of our parrot, Iguaca, from Rio Abajo to other species of birds, we found that she had 84.5% similarity to zebra finches and 82.7% to a chicken, but her genome was highly rearranged.”

Dr Oleksyk continued, “We are very proud of our project and even more proud to be part of a local community dedicated to raising awareness and furthering scientific knowledge of this endangered bird. All the data from this project is publically available in GigaDB which we hope will be a starting point for comparative studies across avian genome data, and will be used to develop and promote undergraduate education in genome science in the Caribbean. Community involvement may be the key for the future of conservation genetics, and many projects like this are needed reverse the current rate of extinction of birds across the globe.”

Journal Reference:

  1. Taras K Oleksyk, Jean-Francois Pombert, Daniel Siu, Anyimilehidi Mazo-Vargas, Brian Ramos, Wilfried Guiblet, Yashira Afanador, Christina T Ruiz-Rodriguez, Michael L Nickerson, David M Logue, Michael Dean, Luis Figueroa, Ricardo Valentin and Juan-Carlos Martinez-Cruzado. A locally funded Puerto Rican parrot (Amazona vittata) genome sequencing project increases avian data and advances young researcher educationGigaScience, 2012, 1:14
Advertisements

Ancient Crocodile Competed With Titanoboa, World’s Largest Snake, for Food, Paleontologists Discover

Top left: University of Florida researchers Jonathan Bloch, left, and Alex Hastings unearth fossils from the 60-million-year-old Cerrejon formation in northeastern Colombia, one of the world’s largest open-pit coal mines. Top right: Hastings displays a pelvic bone of Acherontisuchus guajiraensis, a 60-million-year-old ancestor of crocodiles discovered at the same site in northeastern Colombia as Titanoboa, the world’s largest snake. Other fossils pictured include portions of the lower and upper jaw, as well as teeth, a rib and toe. Bottom: This illustration shows how Acherontisuchus guajiraensis would have looked in its natural setting. Titanoboa, the world’s largest snake, is pictured in the background. (Credit: Top left: Florida Museum of Natural History photo by Edwin Cadena / Top right: Florida Museum of Natural History photo by Kristen Grace / Bottom: Florida Museum of Natural History illustration by Danielle Byerley)

ScienceDaily (Sep. 16, 2011) — Did an ancient crocodile relative give the world’s largest snake a run for its money?

In a new study appearing Sept. 15 in the journal Palaeontology, University of Florida researchers describe a new 20-foot extinct species discovered in the same Colombian coal mine with Titanoboa, the world’s largest snake. The findings help scientists better understand the diversity of animals that occupied the oldest known rainforest ecosystem, which had higher temperatures than today, and could be useful for understanding the impacts of a warmer climate in the future.

The 60-million-year-old freshwater relative to modern crocodiles is the first known land animal from the Paleocene New World tropics specialized for eating fish, meaning it competed with Titanoboa for food. But the giant snake could have consumed its competition, too, researchers say.

“The younger individuals were definitely not safe from Titanoboa, but the biggest of these species would have been a bit much for the 42-foot snake to handle,” said lead author Alex Hastings, a graduate student at the Florida Museum of Natural History and UF’s department of geological sciences.

The new species is a dyrosaurid, commonly believed to be primarily ocean-dwelling, coastal reptiles. The new adult specimens challenge previous theories the animals only would have entered freshwater environments as babies before returning to sea.

Fossils of a partial skeleton of the species, Acherontisuchus guajiraensis, show dyrosaurids were key players in northeastern Colombia and that diversity within the family evolved with environmental changes, such as an asteroid impact or the appearance of competitors from other groups, said Christopher Brochu, an associate professor of vertebrate paleontology in the department of geoscience at the University of Iowa, who was not involved in the study.

“We’re facing some serious ecological changes now,” Brochu said. “A lot of them have to do with climate and if we want to understand how living things are going to respond to changes in climate, we need to understand how they responded in the past. This really is a wonderful group for that because they managed to survive some catastrophes, but they seemed not to survive others and their diversity does seem to change along with these ecological signals.”

The species is the second ancient crocodyliform found in the Cerrejon mine of northern Colombia, one of the world’s largest open-pit coal mines. The excavations were led by study co-authors Jonathan Bloch, Florida Museum associate curator of vertebrate paleontology, and paleobotanist Carlos Jaramillo of the Smithsonian Tropical Research Institute.

“This one is related to a group that typically had these long snouts” Hastings said. “It would have had a relatively similar diet to the other (coastal) species, but surprisingly it lived in a more freshwater environment.”

The genus is named for the river Acheron from Greek mythology, “the river of woe,” since the animal lived in a wide river that emptied into the Caribbean. Unlike the first crocodile relative found in the area, which had a more generalized diet, the snout of the new species was long, narrow and full of pointed teeth, showing a specialization for hunting the lungfish and relatives of bonefish that inhabited the water.

“The general common wisdom was that ancestrally all crocodyliforms looked like a modern alligator, that all of these strange forms descended from a more generalized ancestor, but these guys are showing that sometimes one kind of specialized animal evolved from a very different specialized animal, not a generalized one,” Brochu said. “It’s really showing us a level of complexity to the history that 10 years ago was not anticipated.”

During the Paleocene in South America, the environment was dominated by reptiles, including giant snakes, turtles and crocodiles. The dyrosaurid family originated in Africa about 75 million years ago, toward the end of the age of dinosaurs, and arrived in South America by swimming across the Atlantic Ocean.

“The same thing that snuffed out the dinosaurs killed off most of the crocodiles alive at the time,” Hastings said. “The dyrosaurids are one of the few groups to survive the extinction and later become more successful.”

Journal Reference:

  1. Alexander K. Hastings, Jonathan I. Bloch, Carlos A. Jaramillo. A New Longirostrine Dyrosaurid (Crocodylomorpha, Mesoeucrocodylia) from the Paleocene of North-Eastern Colombia: Biogeographic and Behavioural Implications for New-World DyrosauridaePalaeontology,, 2011; 54 (5): 1095-1116 DOI: 10.1111/j.1475-4983.2011.01092.x