This growing collection consists of scholarly works authored by ASU-affiliated faculty, staff, and community members, and it contains many open access articles. ASU-affiliated authors are encouraged to Share Your Work in KEEP.

Displaying 1 - 2 of 2
Filtering by

Clear all filters

Description

Agassiz’s desert tortoise (Gopherus agassizii) is a long-lived species native to the Mojave Desert and is listed as threatened under the US Endangered Species Act. To aid conservation efforts for preserving the genetic diversity of this species, we generated a whole genome reference sequence with an annotation based on dee

Agassiz’s desert tortoise (Gopherus agassizii) is a long-lived species native to the Mojave Desert and is listed as threatened under the US Endangered Species Act. To aid conservation efforts for preserving the genetic diversity of this species, we generated a whole genome reference sequence with an annotation based on deep transcriptome sequences of adult skeletal muscle, lung, brain, and blood. The draft genome assembly for G. agassizii has a scaffold N50 length of 252 kbp and a total length of 2.4 Gbp. Genome annotation reveals 20,172 protein-coding genes in the G. agassizii assembly, and that gene structure is more similar to chicken than other turtles. We provide a series of comparative analyses demonstrating (1) that turtles are among the slowest-evolving genome-enabled reptiles, (2) amino acid changes in genes controlling desert tortoise traits such as shell development, longevity and osmoregulation, and (3) fixed variants across the Gopherus species complex in genes related to desert adaptations, including circadian rhythm and innate immune response. This G. agassizii genome reference and annotation is the first such resource for any tortoise, and will serve as a foundation for future analysis of the genetic basis of adaptations to the desert environment, allow for investigation into genomic factors affecting tortoise health, disease and longevity, and serve as a valuable resource for additional studies in this species complex.

Data Availability: All genomic and transcriptomic sequence files are available from the NIH-NCBI BioProject database (accession numbers PRJNA352725, PRJNA352726, and PRJNA281763). All genome assembly, transcriptome assembly, predicted protein, transcript, genome annotation, repeatmasker, phylogenetic trees, .vcf and GO enrichment files are available on Harvard Dataverse (doi:10.7910/DVN/EH2S9K).

ContributorsTollis, Marc (Author) / DeNardo, Dale F (Author) / Cornelius, John A (Author) / Dolby, Greer A (Author) / Edwards, Taylor (Author) / Henen, Brian T. (Author) / Karl, Alice E. (Author) / Murphy, Robert W. (Author) / Kusumi, Kenro (Author)
Created2017-05-31
127813-Thumbnail Image.png
Description

Green infrastructure serves as a critical no-regret strategy to address climate change mitigation and adaptation in climate action plans. Climate justice refers to the distribution of climate change-induced environmental hazards (e.g., increased frequency and intensity of floods) among socially vulnerable groups. Yet no index has addressed both climate justice and

Green infrastructure serves as a critical no-regret strategy to address climate change mitigation and adaptation in climate action plans. Climate justice refers to the distribution of climate change-induced environmental hazards (e.g., increased frequency and intensity of floods) among socially vulnerable groups. Yet no index has addressed both climate justice and green infrastructure planning jointly in the USA. This paper proposes a spatial climate justice and green infrastructure assessment framework to understand social-ecological vulnerability under the impacts of climate change. The Climate Justice Index ranks places based on their exposure to climate change-induced flooding, and water contamination aggravated by floods, through hydrological modelling, GIS spatial analysis and statistical methodologies. The Green Infrastructure Index ranks access to biophysical adaptive capacity for climate change. A case study for the Huron River watershed in Michigan, USA, illustrates that climate justice hotspots are concentrated in large cities; yet these communities have the least access to green infrastructure. This study demonstrates the value of using GIS to assess the spatial distribution of climate justice in green infrastructure planning and thereby to prioritize infrastructure investment while addressing equity in climate change adaptation.

ContributorsCheng, Chingwen (Author)
Created2016-06-29