Dataset Information

A genome sequence resource for the aye-aye (Daubentonia madagascariensis), a nocturnal lemur from Madagascar.

ABSTRACT: We present a high-coverage draft genome assembly of the aye-aye (Daubentonia madagascariensis), a highly unusual nocturnal primate from Madagascar. Our assembly totals ~3.0 billion bp (3.0 Gb), roughly the size of the human genome, comprised of ~2.6 million scaffolds (N50 scaffold size = 13,597 bp) based on short paired-end sequencing reads. We compared the aye-aye genome sequence data with four other published primate genomes (human, chimpanzee, orangutan, and rhesus macaque) as well as with the mouse and dog genomes as nonprimate outgroups. Unexpectedly, we observed strong evidence for a relatively slow substitution rate in the aye-aye lineage compared with these and other primates. In fact, the aye-aye branch length is estimated to be ~10% shorter than that of the human lineage, which is known for its low substitution rate. This finding may be explained, in part, by the protracted aye-aye life-history pattern, including late weaning and age of first reproduction relative to other lemurs. Additionally, the availability of this draft lemur genome sequence allowed us to polarize nucleotide and protein sequence changes to the ancestral primate lineage-a critical period in primate evolution, for which the relevant fossil record is sparse. Finally, we identified 293,800 high-confidence single nucleotide polymorphisms in the donor individual for our aye-aye genome sequence, a captive-born individual from two wild-born parents. The resulting heterozygosity estimate of 0.051% is the lowest of any primate studied to date, which is understandable considering the aye-aye's extensive home-range size and relatively low population densities. Yet this level of genetic diversity also suggests that conservation efforts benefiting this unusual species should be prioritized, especially in the face of the accelerating degradation and fragmentation of Madagascar's forests.

SUBMITTER: Perry GH

PROVIDER: S-EPMC3273163 | biostudies-literature | 2012

REPOSITORIES: biostudies-literature

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A genome sequence resource for the aye-aye (Daubentonia madagascariensis), a nocturnal lemur from Madagascar.

Perry George H GH Reeves Darryl D Melsted Páll P Ratan Aakrosh A Miller Webb W Michelini Katelyn K Louis Edward E EE Pritchard Jonathan K JK Mason Christopher E CE Gilad Yoav Y

Genome biology and evolution 20111207 2

We present a high-coverage draft genome assembly of the aye-aye (Daubentonia madagascariensis), a highly unusual nocturnal primate from Madagascar. Our assembly totals ~3.0 billion bp (3.0 Gb), roughly the size of the human genome, comprised of ~2.6 million scaffolds (N50 scaffold size = 13,597 bp) based on short paired-end sequencing reads. We compared the aye-aye genome sequence data with four other published primate genomes (human, chimpanzee, orangutan, and rhesus macaque) as well as with th ...[more]

PMID: 22155688

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Project description:BackgroundKnown worldwide as the "traveler's tree", the Malagasy endemic species Ravenala madagascariensis Sonn. (Strelitziaceae) is considered as an iconic symbol of Madagascar. It is a widespread species in the eastern part of the country with four different varieties which are well represented in Ambalabe community. All of them are used for different purposes and the species represents an important cultural value in the lives of the local population. However, uses of Ravenala are only generally well known by local population. Thus, in this study, we report on the different uses of Ravenala and its importance to the Ambalabe local people.MethodsSemi-structured interviews among 116 people, 59 men and 57 women with ages ranging from 17 to 84 years old, free listing and market surveys were conducted in order to collect the vernacular names, the uses of Ravenala madagascariensis and the price of plant parts sold in local market. Then, the uses were categorized according to Cámara-Leret et al. classification.ResultsDifferent parts of the plant are currently used by local population, which are grouped as heart, trunk, leaves, petioles and rachis. Seven categories of use were recorded, most cited include: human food, utensils and tools, and house building. The most commonly used parts are trunk, heart, leaves and petioles for which the price varies between $3-15. Uses mentioned for construction (floor, roofs and wall), human food and utensils and tools are the most frequent and salient for local population. But the use of the plant as first materials for house building is revealed to be the most important for them.ConclusionsRavenala madagascariensis is very important to the Ambalabe communities because for local population, it represents the Betsimisaraka cultural and traditional use of the plant for house building. Moreover, none of its parts are discarded. The harvest and sale of R. madagascariensis for building materials can also provide an additional source of income to the family. Besides, using Ravenala in house construction reduces the use of slow growing trees and contributes to the sustainable use of natural forest resources.

Dataset Information

A genome sequence resource for the aye-aye (Daubentonia madagascariensis), a nocturnal lemur from Madagascar.

Publications

A genome sequence resource for the aye-aye (Daubentonia madagascariensis), a nocturnal lemur from Madagascar.

Similar Datasets

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